Citrus Sinensis ID: 025346

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250----
Protein Sequence
MELGVHISSSFGSLFPHYSTLTAYREIKFGFQGRSSSITCRSNEHQSLVLSEKEVQQQKLWSNQREMDLDDGDEMEFDDASSFLSLSEKPDRNMASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLEVTTCF
Secondary Structure (PSIPRED)
ccccEEEEEcccccccccccccccHHHcccccccccccccccccHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEEccccccHHHHHHHHHccEEEEEcccccccccccEEEEEcccEEEEEEcccccccccccHHHHHHHHHHHHHcccccEEEEEEEccccccHHHHHHHHHHccccccccEEEEEEcccccccHHHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHHHcccccHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHcccccccHHHHHHHHHHHHHHHHHcccccccccccEEEEEEccccccHHHHHHHHHcccEEEcccccccccccEEEEEEEccEEEEEEccccccHHHHHHHHHHHccccccccccEEEEEEEEEcccccccHHHHHHHHHHHccccccEEEEEEccccccHHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
melgvhisssfgslfphystltayreikfgfqgrsssitcrsnehqslvlSEKEVQQQKLWSNqremdlddgdemefddassflslsekpdrnmaspddyeieefdyashpnhksgyvavlgkpnvgkstlaNQMIGQklsivtnkpqttrhrilgicsgpeyqmilydtPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEegvgdhkdklpILLVLnkkdlikpgeiakklevttcf
Flexible Loop (DISEMBL)
MELGVhisssfgslfpHYSTLTAYREIKFGFQGRSSSITCRSNEHQSLVLSEKEVQQQKLWSNQREMDLDDGDEMEFDDASSflslsekpdrnMASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQKlsivtnkpqttrHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILeegvgdhkdklPILLvlnkkdlikpgeiakklevttcf
Low Complexity Region (SEG)
MELGVHISSSFGSLFPHYSTLTAYREIKFGFQGRSSSITCRSNEHQSLVLSEKEVQQQKLWSNQRemdlddgdemefddASSFLSLSEKPDRNMASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLEVTTCF
Disordered region (IsUnstruct)
******ISSSFGSLFPHYSTLTAYREIKFGFQG*********************************************************************************SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKK*******
Disordered Region (DISOPRED)
***G***SSSFGSLFPHYST**********************************************************************************************SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLEVTTCF
Disordered Region (DISEMBL)
MELGVHISSSFGSLFPHYSTLTAYREIKFGFQGRSSSITCRSNEHQSLVLSEKEVQQQKLWSNQREMDLDDGDEMEFDDASSFLSLSEKPDRNMASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLEVTTCF
Disordered Region (DISPRO)
MELGVHISSSFGSLFPHYSTLTAYREIKFGFQGRSSSITCRSNEHQSLVLSEKEVQQQKLWSNQREMDLDDGDEMEFDDASSFLSLSEKPDRNMASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLEVTTCF
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MELGVHISSSFGSLFPHYSTLTAYREIKFGFQGRSSSITCRSNEHQSLVLSEKEVQQQKLWSNQREMDLDDGDEMEFDDASSFLSLSEKPDRNMASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLEVTTCF
Positional Conservation
no confident homologs detected

---

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	254	2.2.26 [Sep-21-2011]
Q8XIU8	296	GTPase Era OS=Clostridium	yes	no	0.527	0.452	0.437	2e-24
Q0TNU5	296	GTPase Era OS=Clostridium	yes	no	0.527	0.452	0.437	2e-24
Q0SRG1	296	GTPase Era OS=Clostridium	yes	no	0.527	0.452	0.437	2e-24
B3ETC6	296	GTPase Era OS=Amoebophilu	yes	no	0.472	0.405	0.434	7e-24
B0TAF1	299	GTPase Era OS=Heliobacter	yes	no	0.519	0.441	0.414	2e-23
Q2YT12	299	GTPase Era OS=Staphylococ	yes	no	0.527	0.448	0.430	2e-23
P64086	299	GTPase Era OS=Staphylococ	yes	no	0.527	0.448	0.430	2e-23
A8Z4A6	299	GTPase Era OS=Staphylococ	yes	no	0.527	0.448	0.430	2e-23
Q6G900	299	GTPase Era OS=Staphylococ	yes	no	0.527	0.448	0.430	2e-23
Q6GGD3	299	GTPase Era OS=Staphylococ	yes	no	0.527	0.448	0.430	2e-23

>sp|Q8XIU8|ERA_CLOPE GTPase Era OS=Clostridium perfringens (strain 13 / Type A) GN=era PE=3 SV=1

 Score =  113 bits (282), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 60/137 (43%), Positives = 90/137 (65%), Gaps = 3/137 (2%)

Query: 114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGI 173
           KSG++ ++G+PNVGKSTL N ++G+KLSIV+NKPQTTR+ I  I +G +YQMI  DTPGI
Sbjct: 3   KSGFITIVGRPNVGKSTLTNLLMGEKLSIVSNKPQTTRNNIQTILTGDDYQMIFVDTPGI 62

Query: 174 IEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVL 233
            + K H L   M+ +   +  + D ++ L + C+   R D+ + E + +   K P++ VL
Sbjct: 63  HKPK-HKLGEYMVNSATDSIKDVDLVLFLSNPCEEVGRGDKFIVEQLKNQ--KAPVIFVL 119

Query: 234 NKKDLIKPGEIAKKLEV 250
           NK D   P ++AK LE+
Sbjct: 120 NKVDESSPEKVAKTLEL 136

An essential GTPase that binds both GDP and GTP, with rapid nucleotide exchange. Plays a role in 16S rRNA processing and 30S ribosomal subunit biogenesis and possibly also in cell cycle regulation and energy metabolism.
Clostridium perfringens (strain 13 / Type A) (taxid: 195102)

>sp|Q0TNU5|ERA_CLOP1 GTPase Era OS=Clostridium perfringens (strain ATCC 13124 / NCTC 8237 / Type A) GN=era PE=3 SV=1

 Score =  112 bits (281), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 60/137 (43%), Positives = 90/137 (65%), Gaps = 3/137 (2%)

Query: 114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGI 173
           KSG++ ++G+PNVGKSTL N ++G+KLSIV+NKPQTTR+ I  I +G +YQMI  DTPGI
Sbjct: 3   KSGFITIVGRPNVGKSTLTNLLMGEKLSIVSNKPQTTRNNIQTILTGEDYQMIFVDTPGI 62

Query: 174 IEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVL 233
            + K H L   M+ +   +  + D ++ L + C+   R D+ + E + +   K P++ VL
Sbjct: 63  HKPK-HKLGEYMVNSATDSIKDVDLVLFLSNPCEEVGRGDKFIIEQLKNQ--KAPVIFVL 119

Query: 234 NKKDLIKPGEIAKKLEV 250
           NK D   P ++AK LE+
Sbjct: 120 NKVDESSPEKVAKTLEL 136

An essential GTPase that binds both GDP and GTP, with rapid nucleotide exchange. Plays a role in 16S rRNA processing and 30S ribosomal subunit biogenesis and possibly also in cell cycle regulation and energy metabolism.

Clostridium perfringens (strain ATCC 13124 / NCTC 8237 / Type A) (taxid: 195103)

>sp|Q0SRG1|ERA_CLOPS GTPase Era OS=Clostridium perfringens (strain SM101 / Type A) GN=era PE=3 SV=1

 Score =  112 bits (281), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 60/137 (43%), Positives = 90/137 (65%), Gaps = 3/137 (2%)

Query: 114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGI 173
           KSG++ ++G+PNVGKSTL N ++G+KLSIV+NKPQTTR+ I  I +G +YQMI  DTPGI
Sbjct: 3   KSGFITIVGRPNVGKSTLTNLLMGEKLSIVSNKPQTTRNNIQTILTGDDYQMIFVDTPGI 62

Query: 174 IEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVL 233
            + K H L   M+ +   +  + D ++ L + C+   R D+ + E + +   K P++ VL
Sbjct: 63  HKPK-HKLGEYMVNSATDSIKDVDLVLFLSNPCEEVGRGDKFIIEQLKNQ--KAPVIFVL 119

Query: 234 NKKDLIKPGEIAKKLEV 250
           NK D   P ++AK LE+
Sbjct: 120 NKVDESSPEKVAKTLEL 136

An essential GTPase that binds both GDP and GTP, with rapid nucleotide exchange. Plays a role in 16S rRNA processing and 30S ribosomal subunit biogenesis and possibly also in cell cycle regulation and energy metabolism.

Clostridium perfringens (strain SM101 / Type A) (taxid: 289380)

>sp|B3ETC6|ERA_AMOA5 GTPase Era OS=Amoebophilus asiaticus (strain 5a2) GN=era PE=3 SV=1

 Score =  110 bits (276), Expect = 7e-24,   Method: Compositional matrix adjust.
 Identities = 56/129 (43%), Positives = 89/129 (68%), Gaps = 9/129 (6%)

Query: 113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPG 172
           H++G+V ++GKPNVGKSTL N+++G++LSI+T K QTTRH I GI S  ++Q+I  DTPG
Sbjct: 6   HQAGFVTIIGKPNVGKSTLMNRLVGERLSIITPKAQTTRHSICGIVSDTDFQIIFTDTPG 65

Query: 173 IIEKKIHMLDSMMMKNVRSAGINADCIVVLVDA--CKAPERIDEILEEGVGDHKDKLPIL 230
           I+ K  + L   MM  ++ A ++ D ++ LVD    + P  ++++L +G      ++P+L
Sbjct: 66  IL-KPAYELQESMMHMLQHALVDTDVLLWLVDIKEKEVPPIVEKVLAQG------RIPVL 118

Query: 231 LVLNKKDLI 239
           L++NK DLI
Sbjct: 119 LLINKIDLI 127

An essential GTPase that binds both GDP and GTP, with rapid nucleotide exchange. Plays a role in 16S rRNA processing and 30S ribosomal subunit biogenesis and possibly also in cell cycle regulation and energy metabolism.

Amoebophilus asiaticus (strain 5a2) (taxid: 452471)

>sp|B0TAF1|ERA_HELMI GTPase Era OS=Heliobacterium modesticaldum (strain ATCC 51547 / Ice1) GN=era PE=3 SV=1

 Score =  109 bits (273), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 56/135 (41%), Positives = 90/135 (66%), Gaps = 3/135 (2%)

Query: 114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGI 173
           +SG+++++G+PNVGKSTL NQ+IG+K++I+++KPQTTR+RI+G+ + P+ Q I  DTPGI
Sbjct: 5   RSGFISIIGRPNVGKSTLMNQLIGKKVAIMSDKPQTTRNRIVGVLNAPKGQAIFLDTPGI 64

Query: 174 IEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVL 233
            + K H L  +M+   R      D I+ +VDA + P   ++ + + + D K   P+ LV+
Sbjct: 65  HKPK-HKLGEIMVTTARKTLGEVDLILYVVDASEEPGGGEQFISQMLKDIKT--PVFLVV 121

Query: 234 NKKDLIKPGEIAKKL 248
           NK D +   E  KK+
Sbjct: 122 NKMDTVSREEGLKKI 136

An essential GTPase that binds both GDP and GTP, with rapid nucleotide exchange. Plays a role in 16S rRNA processing and 30S ribosomal subunit biogenesis and possibly also in cell cycle regulation and energy metabolism.

Heliobacterium modesticaldum (strain ATCC 51547 / Ice1) (taxid: 498761)

>sp|Q2YT12|ERA_STAAB GTPase Era OS=Staphylococcus aureus (strain bovine RF122 / ET3-1) GN=era PE=3 SV=1

 Score =  109 bits (272), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 59/137 (43%), Positives = 91/137 (66%), Gaps = 3/137 (2%)

Query: 113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPG 172
           HKSG+V+++G+PNVGKST  N++IG K++I+++K QTTR++I G+ +  + Q+I  DTPG
Sbjct: 4   HKSGFVSIIGRPNVGKSTFVNRVIGHKIAIMSDKAQTTRNKIQGVMTRDDAQIIFIDTPG 63

Query: 173 IIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLV 232
           I + K H L   MMK  ++     D I+ +V+A +   R DE + E + +   K P+ LV
Sbjct: 64  IHKPK-HKLGDYMMKVAKNTLSEIDAIMFMVNANEEIGRGDEYIIEMLKNV--KTPVFLV 120

Query: 233 LNKKDLIKPGEIAKKLE 249
           LNK DL+ P E+  K+E
Sbjct: 121 LNKIDLVHPDELMPKIE 137

An essential GTPase that binds both GDP and GTP, with rapid nucleotide exchange. Plays a role in 16S rRNA processing and 30S ribosomal subunit biogenesis and possibly also in cell cycle regulation and energy metabolism.

Staphylococcus aureus (strain bovine RF122 / ET3-1) (taxid: 273036)

>sp|P64086|ERA_STAAW GTPase Era OS=Staphylococcus aureus (strain MW2) GN=era PE=3 SV=1

 Score =  109 bits (272), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 59/137 (43%), Positives = 91/137 (66%), Gaps = 3/137 (2%)

Query: 113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPG 172
           HKSG+V+++G+PNVGKST  N++IG K++I+++K QTTR++I G+ +  + Q+I  DTPG
Sbjct: 4   HKSGFVSIIGRPNVGKSTFVNRVIGHKIAIMSDKAQTTRNKIQGVMTRDDAQIIFIDTPG 63

Query: 173 IIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLV 232
           I + K H L   MMK  ++     D I+ +V+A +   R DE + E + +   K P+ LV
Sbjct: 64  IHKPK-HKLGDYMMKVAKNTLSEIDAIMFMVNANEEIGRGDEYIIEMLKNV--KTPVFLV 120

Query: 233 LNKKDLIKPGEIAKKLE 249
           LNK DL+ P E+  K+E
Sbjct: 121 LNKIDLVHPDELMPKIE 137

An essential GTPase that binds both GDP and GTP, with rapid nucleotide exchange. Plays a role in 16S rRNA processing and 30S ribosomal subunit biogenesis and possibly also in cell cycle regulation and energy metabolism.

Staphylococcus aureus (strain MW2) (taxid: 196620)

>sp|A8Z4A6|ERA_STAAT GTPase Era OS=Staphylococcus aureus (strain USA300 / TCH1516) GN=era PE=3 SV=1

 Score =  109 bits (272), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 59/137 (43%), Positives = 91/137 (66%), Gaps = 3/137 (2%)

Query: 113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPG 172
           HKSG+V+++G+PNVGKST  N++IG K++I+++K QTTR++I G+ +  + Q+I  DTPG
Sbjct: 4   HKSGFVSIIGRPNVGKSTFVNRVIGHKIAIMSDKAQTTRNKIQGVMTRDDAQIIFIDTPG 63

Query: 173 IIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLV 232
           I + K H L   MMK  ++     D I+ +V+A +   R DE + E + +   K P+ LV
Sbjct: 64  IHKPK-HKLGDYMMKVAKNTLSEIDAIMFMVNANEEIGRGDEYIIEMLKNV--KTPVFLV 120

Query: 233 LNKKDLIKPGEIAKKLE 249
           LNK DL+ P E+  K+E
Sbjct: 121 LNKIDLVHPDELMPKIE 137

An essential GTPase that binds both GDP and GTP, with rapid nucleotide exchange. Plays a role in 16S rRNA processing and 30S ribosomal subunit biogenesis and possibly also in cell cycle regulation and energy metabolism.

Staphylococcus aureus (strain USA300 / TCH1516) (taxid: 451516)

>sp|Q6G900|ERA_STAAS GTPase Era OS=Staphylococcus aureus (strain MSSA476) GN=era PE=3 SV=1

 Score =  109 bits (272), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 59/137 (43%), Positives = 91/137 (66%), Gaps = 3/137 (2%)

Query: 113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPG 172
           HKSG+V+++G+PNVGKST  N++IG K++I+++K QTTR++I G+ +  + Q+I  DTPG
Sbjct: 4   HKSGFVSIIGRPNVGKSTFVNRVIGHKIAIMSDKAQTTRNKIQGVMTRDDAQIIFIDTPG 63

Query: 173 IIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLV 232
           I + K H L   MMK  ++     D I+ +V+A +   R DE + E + +   K P+ LV
Sbjct: 64  IHKPK-HKLGDYMMKVAKNTLSEIDAIMFMVNANEEIGRGDEYIIEMLKNV--KTPVFLV 120

Query: 233 LNKKDLIKPGEIAKKLE 249
           LNK DL+ P E+  K+E
Sbjct: 121 LNKIDLVHPDELMPKIE 137

An essential GTPase that binds both GDP and GTP, with rapid nucleotide exchange. Plays a role in 16S rRNA processing and 30S ribosomal subunit biogenesis and possibly also in cell cycle regulation and energy metabolism.

Staphylococcus aureus (strain MSSA476) (taxid: 282459)

>sp|Q6GGD3|ERA_STAAR GTPase Era OS=Staphylococcus aureus (strain MRSA252) GN=era PE=3 SV=1

 Score =  109 bits (272), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 59/137 (43%), Positives = 91/137 (66%), Gaps = 3/137 (2%)

Query: 113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPG 172
           HKSG+V+++G+PNVGKST  N++IG K++I+++K QTTR++I G+ +  + Q+I  DTPG
Sbjct: 4   HKSGFVSIIGRPNVGKSTFVNRVIGHKIAIMSDKAQTTRNKIQGVMTRDDAQIIFIDTPG 63

Query: 173 IIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLV 232
           I + K H L   MMK  ++     D I+ +V+A +   R DE + E + +   K P+ LV
Sbjct: 64  IHKPK-HKLGDYMMKVAKNTLSEIDAIMFMVNANEEIGRGDEYIIEMLKNV--KTPVFLV 120

Query: 233 LNKKDLIKPGEIAKKLE 249
           LNK DL+ P E+  K+E
Sbjct: 121 LNKIDLVHPDELMPKIE 137

An essential GTPase that binds both GDP and GTP, with rapid nucleotide exchange. Plays a role in 16S rRNA processing and 30S ribosomal subunit biogenesis and possibly also in cell cycle regulation and energy metabolism.

Staphylococcus aureus (strain MRSA252) (taxid: 282458)

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	254
225430700	435	PREDICTED: GTPase Era-like [Vitis vinife	0.681	0.397	0.855	2e-82
255561072	443	GTP-binding protein era, putative [Ricin	0.952	0.546	0.646	9e-79
297735123	320	unnamed protein product [Vitis vinifera]	0.633	0.503	0.850	4e-75
22328152	427	GTP-binding protein Era [Arabidopsis tha	0.909	0.540	0.589	2e-74
224097032	414	predicted protein [Populus trichocarpa]	0.677	0.415	0.781	6e-74
449457520	433	PREDICTED: GTPase Era-like [Cucumis sati	0.696	0.408	0.757	9e-74
78499699	429	hypothetical protein [Eutrema halophilum	0.909	0.538	0.574	4e-72
297794363	427	GTP binding protein [Arabidopsis lyrata	0.692	0.412	0.732	1e-70
312190415	426	GTP binding protein [Eutrema parvulum]	0.866	0.516	0.589	1e-70
356502167	421	PREDICTED: GTPase Era-like [Glycine max]	0.657	0.396	0.760	5e-70

>gi|225430700|ref|XP_002264259.1| PREDICTED: GTPase Era-like [Vitis vinifera]

 Score =  311 bits (797), Expect = 2e-82,   Method: Compositional matrix adjust.
 Identities = 148/173 (85%), Positives = 161/173 (93%)

Query: 82  SFLSLSEKPDRNMASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQKLS 141
           +FLSLSEKPDRNMA  DDYE+EE D+AS+PNH+SGYVAVLGKPNVGKSTLANQMIGQKLS
Sbjct: 104 TFLSLSEKPDRNMALLDDYELEELDFASNPNHRSGYVAVLGKPNVGKSTLANQMIGQKLS 163

Query: 142 IVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVV 201
           IVT+KPQTTRHRILGICSGPEYQMILYDTPG+IEKK+H LDSMMMKNVRSA INADC+VV
Sbjct: 164 IVTDKPQTTRHRILGICSGPEYQMILYDTPGVIEKKMHKLDSMMMKNVRSATINADCVVV 223

Query: 202 LVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLEVTTCF 254
           LVDACK P++IDE+LEEGVG+ KDKLP LLVLNKKDLIKPGEIAKKLE    F
Sbjct: 224 LVDACKEPQKIDEVLEEGVGNLKDKLPTLLVLNKKDLIKPGEIAKKLEWYEKF 276

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255561072|ref|XP_002521548.1| GTP-binding protein era, putative [Ricinus communis] gi|223539226|gb|EEF40819.1| GTP-binding protein era, putative [Ricinus communis]

 Score =  299 bits (765), Expect = 9e-79,   Method: Compositional matrix adjust.
 Identities = 161/249 (64%), Positives = 194/249 (77%), Gaps = 7/249 (2%)

Query: 8   SSSFGSLFPHYSTLTAYREIKFGFQGRSSSITC--RSNEHQSLVLSEKEVQQQKLWSNQR 65
           S S  +LF      +  R  +FGFQ ++++ T    SN+ Q   L +K  QQ  L S   
Sbjct: 41  SCSTTNLFRRRIRTSRRRRSEFGFQVKNNTNTVFFLSNDQQ---LQKK--QQHILVSEGE 95

Query: 66  EMDLDDGDEMEFDDASSFLSLSEKPDRNMASPDDYEIEEFDYASHPNHKSGYVAVLGKPN 125
             D D+ +E E ++ ++ LSLS KP+RNMA  DDYE+EE DYAS PNH+SGYVAV+GKPN
Sbjct: 96  FDDDDEEEEEEEEEETNTLSLSVKPERNMALLDDYELEELDYASDPNHRSGYVAVVGKPN 155

Query: 126 VGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMM 185
           VGKSTL+NQMIGQKLSIVT+KPQTTRHRILGICSGP+YQM+LYDTPG+I+K++H LDSMM
Sbjct: 156 VGKSTLSNQMIGQKLSIVTDKPQTTRHRILGICSGPDYQMVLYDTPGVIQKQMHKLDSMM 215

Query: 186 MKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIA 245
           MKNVR+A INADC++V+VDACK PE+IDE+LEEGVG  KDK PILLVLNKKDLIKPGEIA
Sbjct: 216 MKNVRNAAINADCVLVIVDACKVPEKIDEVLEEGVGSLKDKPPILLVLNKKDLIKPGEIA 275

Query: 246 KKLEVTTCF 254
           KKLE    F
Sbjct: 276 KKLEWYEKF 284

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297735123|emb|CBI17485.3| unnamed protein product [Vitis vinifera]

 Score =  286 bits (733), Expect = 4e-75,   Method: Compositional matrix adjust.
 Identities = 137/161 (85%), Positives = 149/161 (92%)

Query: 94  MASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHR 153
           MA  DDYE+EE D+AS+PNH+SGYVAVLGKPNVGKSTLANQMIGQKLSIVT+KPQTTRHR
Sbjct: 1   MALLDDYELEELDFASNPNHRSGYVAVLGKPNVGKSTLANQMIGQKLSIVTDKPQTTRHR 60

Query: 154 ILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERID 213
           ILGICSGPEYQMILYDTPG+IEKK+H LDSMMMKNVRSA INADC+VVLVDACK P++ID
Sbjct: 61  ILGICSGPEYQMILYDTPGVIEKKMHKLDSMMMKNVRSATINADCVVVLVDACKEPQKID 120

Query: 214 EILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLEVTTCF 254
           E+LEEGVG+ KDKLP LLVLNKKDLIKPGEIAKKLE    F
Sbjct: 121 EVLEEGVGNLKDKLPTLLVLNKKDLIKPGEIAKKLEWYEKF 161

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|22328152|ref|NP_201448.2| GTP-binding protein Era [Arabidopsis thaliana] gi|17473914|gb|AAL38371.1| GTP-binding protein-like [Arabidopsis thaliana] gi|20259794|gb|AAM13244.1| GTP-binding protein-like [Arabidopsis thaliana] gi|332010835|gb|AED98218.1| GTP-binding protein Era [Arabidopsis thaliana]

 Score =  285 bits (728), Expect = 2e-74,   Method: Compositional matrix adjust.
 Identities = 148/251 (58%), Positives = 180/251 (71%), Gaps = 20/251 (7%)

Query: 15  FPHYSTLTAYREIKFGFQGRSSSITCRSNEHQSLVLSEKEVQQQKLWSNQR---EMDL-- 69
           F  Y   +  R  K   Q  +S+ +    E  S          +KLW  QR   EM++  
Sbjct: 27  FSPYRIYSRRRVTKSHLQAHNSTTSYGRTELSS---------SKKLWIRQRSFSEMEVEQ 77

Query: 70  ----DDGDEMEFD--DASSFLSLSEKPDRNMASPDDYEIEEFDYASHPNHKSGYVAVLGK 123
               DD +++E D  D +S LSLS KPDRNMA  DDYE+EE  +  + +H+SGYVAV+G 
Sbjct: 78  AQLEDDEEQVEIDIVDEASLLSLSMKPDRNMALLDDYEMEELGHTPNTHHRSGYVAVVGM 137

Query: 124 PNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDS 183
           PNVGKSTL+NQMIGQK+SIVT+KPQTTRHRILGICS PEYQMILYDTPG+IEKK+H LD+
Sbjct: 138 PNVGKSTLSNQMIGQKISIVTDKPQTTRHRILGICSSPEYQMILYDTPGVIEKKMHRLDT 197

Query: 184 MMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE 243
           MMMKNVR A INADC+V+LVDACK P  I+E+L+EG+GD + K P+LLV+NKKDLIKPGE
Sbjct: 198 MMMKNVRDAAINADCVVILVDACKTPTNIEEVLKEGLGDLEKKPPMLLVMNKKDLIKPGE 257

Query: 244 IAKKLEVTTCF 254
           IAKKLE    F
Sbjct: 258 IAKKLEWYEKF 268

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224097032|ref|XP_002310817.1| predicted protein [Populus trichocarpa] gi|222853720|gb|EEE91267.1| predicted protein [Populus trichocarpa]

 Score =  283 bits (723), Expect = 6e-74,   Method: Compositional matrix adjust.
 Identities = 136/174 (78%), Positives = 154/174 (88%), Gaps = 2/174 (1%)

Query: 83  FLSLSEKPDRNMASPDDYEIEEFDY--ASHPNHKSGYVAVLGKPNVGKSTLANQMIGQKL 140
            LSLS KPDRN A  DDYEIEE  +  +S+ NH+SGYVAV+GKPNVGKSTL+NQMIGQKL
Sbjct: 82  LLSLSVKPDRNTALLDDYEIEELAFHDSSNSNHRSGYVAVVGKPNVGKSTLSNQMIGQKL 141

Query: 141 SIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIV 200
           SIVT+KPQTTRHRILGICS P+YQMILYDTPG+IEKK+H LDSMMMKNVRSA INADC++
Sbjct: 142 SIVTDKPQTTRHRILGICSAPDYQMILYDTPGVIEKKMHKLDSMMMKNVRSAAINADCVL 201

Query: 201 VLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLEVTTCF 254
           V+VDAC+APE+IDE+LEEGVG+ KD +P LLVLNKKDLIKPGEIAKKLE    F
Sbjct: 202 VIVDACRAPEKIDEMLEEGVGNLKDNVPTLLVLNKKDLIKPGEIAKKLEWYEKF 255

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449457520|ref|XP_004146496.1| PREDICTED: GTPase Era-like [Cucumis sativus] gi|449529894|ref|XP_004171933.1| PREDICTED: GTPase Era-like [Cucumis sativus]

 Score =  282 bits (722), Expect = 9e-74,   Method: Compositional matrix adjust.
 Identities = 134/177 (75%), Positives = 153/177 (86%)

Query: 78  DDASSFLSLSEKPDRNMASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIG 137
           DD  SFLSL+EKPDRN+   DDYE+EE  Y    NH+SGY A++GKPNVGKSTL NQ+IG
Sbjct: 98  DDELSFLSLNEKPDRNLTLLDDYEMEELGYPCDLNHRSGYAALVGKPNVGKSTLVNQLIG 157

Query: 138 QKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINAD 197
           QKLSIVT+KPQTTRHRILGICSGPEYQ+ILYDTPG+IEKK+H LD+MMMKNVRSA +NAD
Sbjct: 158 QKLSIVTDKPQTTRHRILGICSGPEYQVILYDTPGVIEKKMHKLDTMMMKNVRSAAVNAD 217

Query: 198 CIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLEVTTCF 254
           C++V+VDACKAP++IDEILE GVGD K+  P LLVLNKKDLIKPGEIAKKLE    F
Sbjct: 218 CVLVVVDACKAPQKIDEILEGGVGDLKEMPPTLLVLNKKDLIKPGEIAKKLEWYEKF 274

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|78499699|gb|ABB45853.1| hypothetical protein [Eutrema halophilum]

 Score =  276 bits (707), Expect = 4e-72,   Method: Compositional matrix adjust.
 Identities = 146/254 (57%), Positives = 176/254 (69%), Gaps = 23/254 (9%)

Query: 16  PHYSTLTAY----REIKFGFQGRSSSITCRSNEHQSLVLSEKEVQQQKLWSNQREMDLDD 71
           P++ST   Y    R  K   Q  SS+         S   +E     +KLW  QR     +
Sbjct: 25  PNFSTYHIYSRRSRVTKSHLQAHSST--------SSYGRTELAASAKKLWIRQRSFSETE 76

Query: 72  -----------GDEMEFDDASSFLSLSEKPDRNMASPDDYEIEEFDYASHPNHKSGYVAV 120
                       ++++  D +S LSLS KPDRNMA  DDYE+EE  +    NH+SGYVAV
Sbjct: 77  VEQGQFEDEEEQEDIDISDEASLLSLSMKPDRNMALLDDYEMEELGHTPDTNHRSGYVAV 136

Query: 121 LGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHM 180
           LG PNVGKSTL+NQMIGQK+SIVT+KPQTTRHRILGICS PEYQMILYDTPG+IEKK+H 
Sbjct: 137 LGMPNVGKSTLSNQMIGQKISIVTDKPQTTRHRILGICSSPEYQMILYDTPGVIEKKMHR 196

Query: 181 LDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIK 240
           LD+MMMKNVR A INADC+VVLVDACK P  I+E+L+EG+G+ + + P+LLV+NKKDLIK
Sbjct: 197 LDTMMMKNVRDAAINADCVVVLVDACKMPANIEEVLKEGLGNLEKRPPMLLVMNKKDLIK 256

Query: 241 PGEIAKKLEVTTCF 254
           PGEIAKKLE    F
Sbjct: 257 PGEIAKKLEWYEKF 270

Source: Eutrema halophilum

Species: Eutrema halophilum

Genus: Eutrema

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297794363|ref|XP_002865066.1| GTP binding protein [Arabidopsis lyrata subsp. lyrata] gi|297310901|gb|EFH41325.1| GTP binding protein [Arabidopsis lyrata subsp. lyrata]

 Score =  272 bits (695), Expect = 1e-70,   Method: Compositional matrix adjust.
 Identities = 129/176 (73%), Positives = 150/176 (85%)

Query: 79  DASSFLSLSEKPDRNMASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQ 138
           D +S LSLS KPDRNMA  DDYE+EE  +    +H+SGYVAVLG PNVGKSTL+NQMIGQ
Sbjct: 93  DEASLLSLSMKPDRNMALLDDYEMEELGHTPDTHHRSGYVAVLGMPNVGKSTLSNQMIGQ 152

Query: 139 KLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADC 198
           K+SIVT+KPQTTRHRILGICS PEYQMILYDTPG+IEKK+H LD+MMMKNVR A INADC
Sbjct: 153 KISIVTDKPQTTRHRILGICSSPEYQMILYDTPGVIEKKMHRLDTMMMKNVRDAAINADC 212

Query: 199 IVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLEVTTCF 254
           +V+LVDACK P  I+E+L+EG+G+ + K P+LLV+NKKDLIKPGEIAKKLE    F
Sbjct: 213 VVILVDACKTPTYIEEVLKEGLGNLEKKPPMLLVMNKKDLIKPGEIAKKLEWYEKF 268

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|312190415|gb|ADQ43214.1| GTP binding protein [Eutrema parvulum]

 Score =  271 bits (694), Expect = 1e-70,   Method: Compositional matrix adjust.
 Identities = 142/241 (58%), Positives = 177/241 (73%), Gaps = 21/241 (8%)

Query: 25  REIKFGFQGRSSSITCRSNEHQSLVLSEKEVQQQKLWSNQR---EMDLDDG--------D 73
           R  K   Q ++S+I+    E  S          +KLW  QR   EM+++ G        +
Sbjct: 37  RLTKSHLQAQNSTISYGRTELAS---------SKKLWIRQRSFSEMEVEQGRLEDEEEQE 87

Query: 74  EMEFDDASSFLSLSEKPDRNMASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLAN 133
           +++  D +S LSLS KPDRNMA  DDYE+EE  +    NH+S YVAV+G PNVGKSTL+N
Sbjct: 88  DIDIGDEASLLSLSMKPDRNMALLDDYEMEELGHTPDTNHRS-YVAVVGMPNVGKSTLSN 146

Query: 134 QMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG 193
           QMIGQK+SIVT+KPQTTRHRILGICS PEYQMIL+DTPG+IEKK+H LD+MMMKNVR A 
Sbjct: 147 QMIGQKISIVTDKPQTTRHRILGICSSPEYQMILFDTPGVIEKKMHRLDTMMMKNVRDAA 206

Query: 194 INADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLEVTTC 253
           INADC+V+LVDACK P +I+E+L+EG+GD + + P+LLV+NKKDLIKPGEIAKKLE    
Sbjct: 207 INADCVVILVDACKTPAKIEEVLKEGLGDLEKRPPMLLVMNKKDLIKPGEIAKKLEWYEK 266

Query: 254 F 254
           F
Sbjct: 267 F 267

Source: Eutrema parvulum

Species: Eutrema parvulum

Genus: Eutrema

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356502167|ref|XP_003519892.1| PREDICTED: GTPase Era-like [Glycine max]

 Score =  270 bits (690), Expect = 5e-70,   Method: Compositional matrix adjust.
 Identities = 127/167 (76%), Positives = 149/167 (89%)

Query: 83  FLSLSEKPDRNMASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQKLSI 142
           FLSLS+KPDRNMA  DDYE EE D+   P+H+SGYV +LGKPNVGKSTLANQM+GQKLSI
Sbjct: 91  FLSLSDKPDRNMALLDDYEGEELDFEFGPDHRSGYVTLLGKPNVGKSTLANQMLGQKLSI 150

Query: 143 VTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVL 202
           VT+KPQTTRHRIL ICSG +YQMILYD PG+++K++H LDSMMMKNVRSA +NADC++VL
Sbjct: 151 VTDKPQTTRHRILCICSGEDYQMILYDKPGVLQKEMHKLDSMMMKNVRSAAVNADCVLVL 210

Query: 203 VDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLE 249
           VDA KAPE+ID +LEEG+GD KDK P LL+LNKKDL+KPGE+AKKLE
Sbjct: 211 VDARKAPEKIDGLLEEGIGDLKDKPPTLLILNKKDLVKPGELAKKLE 257

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	254
TAIR|locus:2154915	427	AT5G66470 [Arabidopsis thalian	0.665	0.395	0.751	1.7e-66
TIGR_CMR|BA_4524	301	BA_4524 "GTP-binding protein E	0.527	0.445	0.379	3.4e-22
UNIPROTKB|Q74AX3	299	era "GTPase Era" [Geobacter su	0.515	0.438	0.411	3.9e-21
TIGR_CMR|GSU_2226	299	GSU_2226 "GTP-binding protein	0.515	0.438	0.411	3.9e-21
UNIPROTKB|P37214	299	era "GTPase Era" [Streptococcu	0.523	0.444	0.367	1.3e-20
UNIPROTKB|Q9KPB3	325	era "GTPase Era" [Vibrio chole	0.507	0.396	0.4	5.7e-20
TIGR_CMR|VC_2460	325	VC_2460 "GTP-binding protein E	0.507	0.396	0.4	5.7e-20
TIGR_CMR|SPO_0691	301	SPO_0691 "GTP-binding protein	0.5	0.421	0.389	1.2e-19
UNIPROTKB|Q5SM23	301	era "GTPase Era" [Thermus ther	0.519	0.438	0.406	1.5e-19
TIGR_CMR|CHY_0430	298	CHY_0430 "GTP-binding protein	0.531	0.453	0.361	1.5e-19

TAIR|locus:2154915 AT5G66470 [Arabidopsis thaliana (taxid:3702)]

 Score = 676 (243.0 bits), Expect = 1.7e-66, P = 1.7e-66
 Identities = 127/169 (75%), Positives = 149/169 (88%)

Query:    81 SSFLSLSEKPDRNMASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQKL 140
             +S LSLS KPDRNMA  DDYE+EE  +  + +H+SGYVAV+G PNVGKSTL+NQMIGQK+
Sbjct:    95 ASLLSLSMKPDRNMALLDDYEMEELGHTPNTHHRSGYVAVVGMPNVGKSTLSNQMIGQKI 154

Query:   141 SIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIV 200
             SIVT+KPQTTRHRILGICS PEYQMILYDTPG+IEKK+H LD+MMMKNVR A INADC+V
Sbjct:   155 SIVTDKPQTTRHRILGICSSPEYQMILYDTPGVIEKKMHRLDTMMMKNVRDAAINADCVV 214

Query:   201 VLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLE 249
             +LVDACK P  I+E+L+EG+GD + K P+LLV+NKKDLIKPGEIAKKLE
Sbjct:   215 ILVDACKTPTNIEEVLKEGLGDLEKKPPMLLVMNKKDLIKPGEIAKKLE 263

GO:0003723 "RNA binding" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0009793 "embryo development ending in seed dormancy" evidence=RCA

GO:0016226 "iron-sulfur cluster assembly" evidence=RCA

GO:0019288 "isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway" evidence=RCA

GO:0042793 "transcription from plastid promoter" evidence=RCA

GO:0045036 "protein targeting to chloroplast" evidence=RCA

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=RCA

TIGR_CMR|BA_4524 BA_4524 "GTP-binding protein Era" [Bacillus anthracis str. Ames (taxid:198094)]

 Score = 258 (95.9 bits), Expect = 3.4e-22, P = 3.4e-22
 Identities = 52/137 (37%), Positives = 92/137 (67%)

Query:   113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPG 172
             +KSG+V+++G+PNVGKST  N++IGQK++I+++KPQTTR++I G+ +  + Q+I  DTPG
Sbjct:     6 YKSGFVSIIGRPNVGKSTFLNRIIGQKIAIMSDKPQTTRNKIQGVYTENDSQVIFIDTPG 65

Query:   173 IIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLV 232
             I + K H L   M+K  ++     D ++ +V+A +   R +E + E + + K   P+ LV
Sbjct:    66 IHKPK-HKLGDFMVKMAQTTLKEVDIVLFMVNAVEGFGRGEEFIIEKLKETKQ--PVFLV 122

Query:   233 LNKKDLIKPGEIAKKLE 249
             +NK D + P ++ + ++
Sbjct:   123 INKIDQVHPEQLLELID 139

GO:0005525 "GTP binding" evidence=ISS

GO:0016049 "cell growth" evidence=ISS

UNIPROTKB|Q74AX3 era "GTPase Era" [Geobacter sulfurreducens PCA (taxid:243231)]

 Score = 248 (92.4 bits), Expect = 3.9e-21, P = 3.9e-21
 Identities = 56/136 (41%), Positives = 93/136 (68%)

Query:   114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGI 173
             +SG+V+++G+PNVGKSTL N+++G+K+ I ++KPQTTR+RI GI + P  Q++  DTPGI
Sbjct:     8 RSGFVSIIGRPNVGKSTLLNRILGEKIVITSDKPQTTRNRIQGIHNLPGAQIVFIDTPGI 67

Query:   174 IEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAP-ERIDEILEEGVGDHKDKLPILLV 232
                +   L+  M++   S+    D +++LV+A +AP ++  EI   G+    + +P+ LV
Sbjct:    68 HHARSR-LNKFMVEEALSSIREVDLVMLLVEANRAPGDQEREIA--GLLPSVN-VPVFLV 123

Query:   233 LNKKDLIKPGEIAKKL 248
             +NK DLI P  +A++L
Sbjct:   124 VNKIDLIDPDILAERL 139

GO:0008150 "biological_process" evidence=ND

TIGR_CMR|GSU_2226 GSU_2226 "GTP-binding protein Era" [Geobacter sulfurreducens PCA (taxid:243231)]

 Score = 248 (92.4 bits), Expect = 3.9e-21, P = 3.9e-21
 Identities = 56/136 (41%), Positives = 93/136 (68%)

Query:   114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGI 173
             +SG+V+++G+PNVGKSTL N+++G+K+ I ++KPQTTR+RI GI + P  Q++  DTPGI
Sbjct:     8 RSGFVSIIGRPNVGKSTLLNRILGEKIVITSDKPQTTRNRIQGIHNLPGAQIVFIDTPGI 67

Query:   174 IEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAP-ERIDEILEEGVGDHKDKLPILLV 232
                +   L+  M++   S+    D +++LV+A +AP ++  EI   G+    + +P+ LV
Sbjct:    68 HHARSR-LNKFMVEEALSSIREVDLVMLLVEANRAPGDQEREIA--GLLPSVN-VPVFLV 123

Query:   233 LNKKDLIKPGEIAKKL 248
             +NK DLI P  +A++L
Sbjct:   124 VNKIDLIDPDILAERL 139

GO:0005525 "GTP binding" evidence=ISS

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|P37214 era "GTPase Era" [Streptococcus mutans UA159 (taxid:210007)]

 Score = 243 (90.6 bits), Expect = 1.3e-20, P = 1.3e-20
 Identities = 50/136 (36%), Positives = 91/136 (66%)

Query:   114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGI 173
             KSG+VA+LG+PNVGKST  N ++GQK++I+++K QTTR++I+GI +  + Q++  DTPGI
Sbjct:     4 KSGFVAILGRPNVGKSTFLNHVMGQKIAIMSDKAQTTRNKIMGIYTTDKEQIVFIDTPGI 63

Query:   174 IEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVL 233
              + K  + D  M+++  S     D ++ +V A +   + D ++ E +     K+P++LV+
Sbjct:    64 HKPKTALGD-FMVESAYSTLREVDTVLFMVPADEKRGKGDNMIIERL--KAAKVPVILVI 120

Query:   234 NKKDLIKPGEIAKKLE 249
             NK D + P ++ ++++
Sbjct:   121 NKIDKVHPNQLLEQID 136

GO:0003924 "GTPase activity" evidence=IDA

GO:0005525 "GTP binding" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0005886 "plasma membrane" evidence=IDA

GO:0006184 "GTP catabolic process" evidence=IDA

GO:0019003 "GDP binding" evidence=IDA

UNIPROTKB|Q9KPB3 era "GTPase Era" [Vibrio cholerae O1 biovar El Tor str. N16961 (taxid:243277)]

 Score = 237 (88.5 bits), Expect = 5.7e-20, P = 5.7e-20
 Identities = 54/135 (40%), Positives = 85/135 (62%)

Query:   108 ASHP-NHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMI 166
             AS P N   G+VA++G+PNVGKSTL N ++GQK+SI + KPQTTRHRI+G+ +   YQ I
Sbjct:    23 ASTPENQHCGFVAIVGRPNVGKSTLLNNLLGQKISITSRKPQTTRHRIMGVETDGNYQAI 82

Query:   167 LYDTPGI-IEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKD 225
               DTPG+ IE+K   ++ +M +   S+  + + ++ +V+        DE++   +   K 
Sbjct:    83 YVDTPGLHIEEK-RAINRLMNRAASSSLSDVNLVLFVVEGTHWTAD-DEMVFTKL--QKA 138

Query:   226 KLPILLVLNKKDLIK 240
               P++L +NK D +K
Sbjct:   139 NFPVVLCVNKVDQVK 153

GO:0005525 "GTP binding" evidence=ISS

GO:0008150 "biological_process" evidence=ND

TIGR_CMR|VC_2460 VC_2460 "GTP-binding protein Era" [Vibrio cholerae O1 biovar El Tor (taxid:686)]

 Score = 237 (88.5 bits), Expect = 5.7e-20, P = 5.7e-20
 Identities = 54/135 (40%), Positives = 85/135 (62%)

Query:   108 ASHP-NHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMI 166
             AS P N   G+VA++G+PNVGKSTL N ++GQK+SI + KPQTTRHRI+G+ +   YQ I
Sbjct:    23 ASTPENQHCGFVAIVGRPNVGKSTLLNNLLGQKISITSRKPQTTRHRIMGVETDGNYQAI 82

Query:   167 LYDTPGI-IEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKD 225
               DTPG+ IE+K   ++ +M +   S+  + + ++ +V+        DE++   +   K 
Sbjct:    83 YVDTPGLHIEEK-RAINRLMNRAASSSLSDVNLVLFVVEGTHWTAD-DEMVFTKL--QKA 138

Query:   226 KLPILLVLNKKDLIK 240
               P++L +NK D +K
Sbjct:   139 NFPVVLCVNKVDQVK 153

GO:0005525 "GTP binding" evidence=ISS

GO:0008150 "biological_process" evidence=ND

TIGR_CMR|SPO_0691 SPO_0691 "GTP-binding protein Era" [Ruegeria pomeroyi DSS-3 (taxid:246200)]

 Score = 234 (87.4 bits), Expect = 1.2e-19, P = 1.2e-19
 Identities = 51/131 (38%), Positives = 82/131 (62%)

Query:   114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGI 173
             ++G+VA++G+PN GKSTL N+M+G K+SIVT+K QTTR RI G+    E Q++  DTPG+
Sbjct:     4 RAGFVALIGEPNAGKSTLLNRMVGAKVSIVTHKVQTTRTRIRGVAMEGEAQIVFVDTPGL 63

Query:   174 IEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKA-PERIDEILEEGVGDHKDKLPILLV 232
              + +   LD  M+        +AD +V++++A +   E ++ ILE G+ +      + L 
Sbjct:    64 FQPR-RRLDRAMVAAAWGGAADADIVVLMIEAHRGITEGVERILE-GLAEIAKGRTVALA 121

Query:   233 LNKKDLIKPGE 243
             +NK D + P E
Sbjct:   122 INKIDRV-PAE 131

GO:0005525 "GTP binding" evidence=ISS

GO:0016049 "cell growth" evidence=ISS

UNIPROTKB|Q5SM23 era "GTPase Era" [Thermus thermophilus HB8 (taxid:300852)]

 Score = 233 (87.1 bits), Expect = 1.5e-19, P = 1.5e-19
 Identities = 54/133 (40%), Positives = 79/133 (59%)

Query:   115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGII 174
             SG+VA++GKPNVGKSTL N ++G K++ ++ +PQTTR R+ GI +    Q++  DTPG+ 
Sbjct:     7 SGFVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTEGRRQIVFVDTPGL- 65

Query:   175 EKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLN 234
              K +  L   M + V  A  + + +V +VD    P   DE++   +     K+PILLV N
Sbjct:    66 HKPMDALGEFMDQEVYEALADVNAVVWVVDLRHPPTPEDELVARALKPLVGKVPILLVGN 125

Query:   235 KKDLIKPGEIAKK 247
             K D  K  E A K
Sbjct:   126 KLDAAKYPEEAMK 138

GO:0000028 "ribosomal small subunit assembly" evidence=IDA

GO:0043024 "ribosomal small subunit binding" evidence=IDA

GO:0070181 "SSU rRNA binding" evidence=IDA

TIGR_CMR|CHY_0430 CHY_0430 "GTP-binding protein Era" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)]

 Score = 233 (87.1 bits), Expect = 1.5e-19, P = 1.5e-19
 Identities = 51/141 (36%), Positives = 93/141 (65%)

Query:   112 NHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTP 171
             ++KSG+V+++G+PNVGKSTL NQ++G K++I+++KPQTTR++I  + +  + Q+I  DTP
Sbjct:     2 SYKSGFVSIVGRPNVGKSTLLNQVVGTKIAIMSDKPQTTRNKIRAVLTSEKGQIIFIDTP 61

Query:   172 GIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILL 231
             G+ +K  + L   M+K   ++    D ++ +V+A       +  L + + + K   PI+L
Sbjct:    62 GV-QKPRNKLGEFMLKQALTSLDEVDVLLYVVEANSPIGPQENYLLKTLAEVKT--PIIL 118

Query:   232 VLNKKDLIKPGE---IAKKLE 249
             V+NK D++K  E   +A+++E
Sbjct:   119 VVNKIDVVKMIEAQTLARQIE 139

GO:0003924 "GTPase activity" evidence=ISS

GO:0005525 "GTP binding" evidence=ISS

GO:0008152 "metabolic process" evidence=ISS

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	GSVIVG00024895001	SubName- Full=Chromosome chr4 scaffold_32, whole genome shotgun sequence; (414 aa)
		(Vitis vinifera)
Predicted Functional Partners:
	GSVIVG00022142001	SubName- Full=Chromosome chr6 scaffold_25, whole genome shotgun sequence; (195 aa)	•			•			•		0.842
	GSVIVG00019235001	SubName- Full=Chromosome chr7 scaffold_20, whole genome shotgun sequence; (603 aa)	•			•			•		0.814
	GSVIVG00024616001	SubName- Full=Chromosome chr6 scaffold_3, whole genome shotgun sequence;; GTPase of unknown phy [...] (462 aa)	•			•			•	•	0.809
	rps3	SubName- Full=Chromosome undetermined scaffold_3592, whole genome shotgun sequence; (207 aa)							•		0.798
	GSVIVG00019071001	SubName- Full=Chromosome chr15 scaffold_19, whole genome shotgun sequence; (636 aa)	•			•					0.797
	GSVIVG00019077001	SubName- Full=Chromosome chr15 scaffold_19, whole genome shotgun sequence; (267 aa)	•								0.784
	GSVIVG00019865001	SubName- Full=Chromosome chr5 scaffold_2, whole genome shotgun sequence; (961 aa)	•						•		0.782
	GSVIVG00003076001	SubName- Full=Chromosome chr10 scaffold_138, whole genome shotgun sequence; (340 aa)				•	•		•		0.752
	GSVIVG00027195001	SubName- Full=Chromosome chr19 scaffold_4, whole genome shotgun sequence; (669 aa)	•								0.689
	GSVIVG00008391001	SubName- Full=Chromosome undetermined scaffold_1415, whole genome shotgun sequence; (151 aa)							•		0.685

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	254
cd04163	168	cd04163, Era, E	8e-57
PRK00089	292	PRK00089, era, GTPase Era; Reviewed	8e-52
COG1159	298	COG1159, Era, GTPase [General function prediction	6e-43
pfam01926	117	pfam01926, MMR_HSR1, 50S ribosome-binding GTPase	4e-33
TIGR00436	270	TIGR00436, era, GTP-binding protein Era	4e-30
cd00880	161	cd00880, Era_like, E	1e-24
cd00882	161	cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like s	9e-23
cd01894	157	cd01894, EngA1, EngA1 GTPase contains the first do	3e-21
TIGR03594	429	TIGR03594, GTPase_EngA, ribosome-associated GTPase	2e-20
PRK15494	339	PRK15494, era, GTPase Era; Provisional	4e-20
COG1160	444	COG1160, COG1160, Predicted GTPases [General funct	2e-19
TIGR00231	162	TIGR00231, small_GTP, small GTP-binding protein do	7e-19
PRK00093	435	PRK00093, PRK00093, GTP-binding protein Der; Revie	1e-18
cd04164	159	cd04164, trmE, trmE is a tRNA modification GTPase	1e-17
TIGR03594	429	TIGR03594, GTPase_EngA, ribosome-associated GTPase	1e-16
COG0486	454	COG0486, ThdF, Predicted GTPase [General function	2e-16
cd01895	174	cd01895, EngA2, EngA2 GTPase contains the second d	1e-15
PRK09518	712	PRK09518, PRK09518, bifunctional cytidylate kinase	7e-15
PRK00093	435	PRK00093, PRK00093, GTP-binding protein Der; Revie	2e-14
TIGR03918	391	TIGR03918, GTP_HydF, [FeFe] hydrogenase H-cluster	3e-14
PRK05291	449	PRK05291, trmE, tRNA modification GTPase TrmE; Rev	1e-13
TIGR00450	442	TIGR00450, mnmE_trmE_thdF, tRNA modification GTPas	3e-13
PRK03003	472	PRK03003, PRK03003, GTP-binding protein Der; Revie	5e-13
COG1160	444	COG1160, COG1160, Predicted GTPases [General funct	6e-11
COG1161	322	COG1161, COG1161, Predicted GTPases [General funct	1e-10
cd01856	171	cd01856, YlqF, Circularly permuted YlqF GTPase	2e-10
pfam02421	190	pfam02421, FeoB_N, Ferrous iron transport protein	4e-10
COG0218	200	COG0218, COG0218, Predicted GTPase [General functi	7e-10
COG0370	653	COG0370, FeoB, Fe2+ transport system protein B [In	1e-09
cd01879	159	cd01879, FeoB, Ferrous iron transport protein B (F	2e-09
COG1163	365	COG1163, DRG, Predicted GTPase [General function p	2e-09
TIGR03596	276	TIGR03596, GTPase_YlqF, ribosome biogenesis GTP-bi	3e-09
cd01876	170	cd01876, YihA_EngB, YihA (EngB) GTPase family	4e-09
cd01898	170	cd01898, Obg, Obg GTPase	5e-09
PRK09563	287	PRK09563, rbgA, GTPase YlqF; Reviewed	8e-09
COG1100	219	COG1100, COG1100, GTPase SAR1 and related small G	3e-08
cd11383	140	cd11383, YfjP, YfjP GTPase	4e-08
TIGR02729	329	TIGR02729, Obg_CgtA, Obg family GTPase CgtA	5e-08
COG0536	369	COG0536, Obg, Predicted GTPase [General function p	7e-08
PRK09518	712	PRK09518, PRK09518, bifunctional cytidylate kinase	8e-08
COG1084	346	COG1084, COG1084, Predicted GTPase [General functi	2e-07
cd01896	233	cd01896, DRG, Developmentally Regulated GTP-bindin	2e-07
cd09912	180	cd09912, DLP_2, Dynamin-like protein including dyn	4e-07
TIGR03598	178	TIGR03598, GTPase_YsxC, ribosome biogenesis GTP-bi	7e-07
PRK03003	472	PRK03003, PRK03003, GTP-binding protein Der; Revie	1e-06
TIGR00437	591	TIGR00437, feoB, ferrous iron transporter FeoB	2e-06
PRK12298	390	PRK12298, obgE, GTPase CgtA; Reviewed	3e-06
COG2262	411	COG2262, HflX, GTPases [General function predictio	5e-06
PRK12299	335	PRK12299, obgE, GTPase CgtA; Reviewed	8e-06
PRK13796	365	PRK13796, PRK13796, GTPase YqeH; Provisional	1e-05
PRK00454	196	PRK00454, engB, GTP-binding protein YsxC; Reviewed	1e-05
cd01878	204	cd01878, HflX, HflX GTPase family	2e-05
cd00881	183	cd00881, GTP_translation_factor, GTP translation f	3e-05
cd04142	198	cd04142, RRP22, Ras-related protein on chromosome	4e-05
cd01855	191	cd01855, YqeH, Circularly permuted YqeH GTPase	4e-05
TIGR03156	351	TIGR03156, GTP_HflX, GTP-binding protein HflX	5e-05
PRK12297	424	PRK12297, obgE, GTPase CgtA; Reviewed	5e-05
TIGR03597	360	TIGR03597, GTPase_YqeH, ribosome biogenesis GTPase	1e-04
cd00878	158	cd00878, Arf_Arl, ADP-ribosylation factor(Arf)/Arf	2e-04
cd01897	167	cd01897, NOG, Nucleolar GTP-binding protein (NOG)	4e-04
cd01881	167	cd01881, Obg_like, Obg-like family of GTPases cons	5e-04
COG3596	296	COG3596, COG3596, Predicted GTPase [General functi	8e-04
cd01857	140	cd01857, HSR1_MMR1, A circularly permuted subfamil	8e-04
cd01856	171	cd01856, YlqF, Circularly permuted YlqF GTPase	0.003
cd01853	248	cd01853, Toc34_like, Translocon at the Outer-envel	0.003
cd01859	157	cd01859, MJ1464, An uncharacterized, circularly pe	0.003
COG1161	322	COG1161, COG1161, Predicted GTPases [General funct	0.004
cd04155	174	cd04155, Arl3, Arf-like 3 (Arl3) GTPase	0.004
PRK04213	201	PRK04213, PRK04213, GTP-binding protein; Provision	0.004

>gnl|CDD|206726 cd04163, Era, E

 Score =  178 bits (455), Expect = 8e-57
 Identities = 64/136 (47%), Positives = 88/136 (64%), Gaps = 3/136 (2%)

Query: 113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPG 172
            KSG+VA++G+PNVGKSTL N ++GQK+SIV+ KPQTTR+RI GI +  + Q+I  DTPG
Sbjct: 1   FKSGFVAIIGRPNVGKSTLLNALVGQKISIVSPKPQTTRNRIRGIYTDDDAQIIFVDTPG 60

Query: 173 IIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLV 232
           I + K   L   M+K   SA  + D ++ +VDA +     DE + E +   K K P++LV
Sbjct: 61  IHKPK-KKLGERMVKAAWSALKDVDLVLFVVDASEWIGEGDEFILELL--KKSKTPVILV 117

Query: 233 LNKKDLIKPGEIAKKL 248
           LNK DL+K  E    L
Sbjct: 118 LNKIDLVKDKEDLLPL 133

coli Ras-like protein (Era) is a multifunctional GTPase. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly by chaperoning the 16S rRNA. It also contacts several assembly elements of the 30S subunit. Era couples cell growth with cytokinesis and plays a role in cell division and energy metabolism. Homologs have also been found in eukaryotes. Era contains two domains: the N-terminal GTPase domain and a C-terminal domain KH domain that is critical for RNA binding. Both domains are important for Era function. Era is functionally able to compensate for deletion of RbfA, a cold-shock adaptation protein that is required for efficient processing of the 16S rRNA. Length = 168

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

 Score =  169 bits (432), Expect = 8e-52
 Identities = 65/140 (46%), Positives = 90/140 (64%), Gaps = 4/140 (2%)

Query: 111 PNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDT 170
              KSG+VA++G+PNVGKSTL N ++GQK+SIV+ KPQTTRHRI GI +  + Q+I  DT
Sbjct: 1   MGFKSGFVAIVGRPNVGKSTLLNALVGQKISIVSPKPQTTRHRIRGIVTEDDAQIIFVDT 60

Query: 171 PGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPIL 230
           PGI + K   L+  M K   S+  + D ++ +VDA +     DE + E +   K K P++
Sbjct: 61  PGIHKPK-RALNRAMNKAAWSSLKDVDLVLFVVDADEKIGPGDEFILEKLK--KVKTPVI 117

Query: 231 LVLNKKDLIKP-GEIAKKLE 249
           LVLNK DL+K   E+   LE
Sbjct: 118 LVLNKIDLVKDKEELLPLLE 137

Length = 292

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

 Score =  147 bits (373), Expect = 6e-43
 Identities = 66/138 (47%), Positives = 90/138 (65%), Gaps = 3/138 (2%)

Query: 111 PNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDT 170
              KSG+VA++G+PNVGKSTL N ++GQK+SIV+ KPQTTR+RI GI +    Q+I  DT
Sbjct: 2   MKFKSGFVAIIGRPNVGKSTLLNALVGQKISIVSPKPQTTRNRIRGIVTTDNAQIIFVDT 61

Query: 171 PGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPIL 230
           PGI + K H L  +M K  RSA  + D I+ +VDA +     DE + E +   K K P++
Sbjct: 62  PGIHKPK-HALGELMNKAARSALKDVDLILFVVDADEGWGPGDEFILEQL--KKTKTPVI 118

Query: 231 LVLNKKDLIKPGEIAKKL 248
           LV+NK D +KP  +  KL
Sbjct: 119 LVVNKIDKVKPKTVLLKL 136

Length = 298

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

 Score =  116 bits (292), Expect = 4e-33
 Identities = 51/118 (43%), Positives = 69/118 (58%), Gaps = 2/118 (1%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
           VA++G+PNVGKSTL N + G K++IV++ P TTR  ILG+  G   Q+IL DTPG+IE  
Sbjct: 2   VALVGRPNVGKSTLINALTGAKVAIVSDYPGTTRDPILGVL-GLGRQIILVDTPGLIEGA 60

Query: 178 IHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNK 235
                         A   AD I+++VDA +     DE + E +     K PI+LVLNK
Sbjct: 61  SEGKGVEGFNRFLEAIREADLILLVVDASEGLTEDDEEILEELEKLPKK-PIILVLNK 117

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

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

 Score =  112 bits (283), Expect = 4e-30
 Identities = 58/129 (44%), Positives = 77/129 (59%), Gaps = 10/129 (7%)

Query: 116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIE 175
           G+VA+LG+PNVGKSTL NQ+ GQK+SI + K QTTR+RI GI +    Q+I  DTPG  E
Sbjct: 1   GFVAILGRPNVGKSTLLNQLHGQKISITSPKAQTTRNRISGIHTTGASQIIFIDTPGFHE 60

Query: 176 KKIHMLDSMMMKNVRSAGINADCIVVLVDACKAP---ERIDEILEEGVGDHKDKLPILLV 232
           KK H L+ +MMK  RSA    D I+ +VD+ +     E +   L+        K P++L 
Sbjct: 61  KK-HSLNRLMMKEARSAIGGVDLILFVVDSDQWNGDGEFVLTKLQNL------KRPVVLT 113

Query: 233 LNKKDLIKP 241
            NK D    
Sbjct: 114 RNKLDNKFK 122

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

>gnl|CDD|206646 cd00880, Era_like, E

 Score = 95.8 bits (239), Expect = 1e-24
 Identities = 44/131 (33%), Positives = 68/131 (51%), Gaps = 6/131 (4%)

Query: 119 AVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILG-ICSGPEYQMILYDTPGIIEKK 177
           A+ G+PNVGKS+L N ++GQ + IV+  P TTR  +       P   ++L DTPG+ E+ 
Sbjct: 1   AIFGRPNVGKSSLLNALLGQNVGIVSPIPGTTRDPVRKEWELLPLGPVVLIDTPGLDEEG 60

Query: 178 IHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKD 237
              L    ++  R     AD ++++VD+   P   +  L       +   P+LLVLNK D
Sbjct: 61  G--LGRERVEEARQVADRADLVLLVVDSDLTPVEEEAKLGL---LRERGKPVLLVLNKID 115

Query: 238 LIKPGEIAKKL 248
           L+   E  + L
Sbjct: 116 LVPESEEEELL 126

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

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

 Score = 91.0 bits (226), Expect = 9e-23
 Identities = 39/133 (29%), Positives = 67/133 (50%), Gaps = 6/133 (4%)

Query: 119 AVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICS--GPEYQMILYDTPGIIEK 176
            V+G+  VGKS+L N ++G ++  V++ P TTR   + +      + +++L DTPG+ E 
Sbjct: 1   VVVGRGGVGKSSLLNALLGGEVGEVSDVPGTTRDPDVYVKELDKGKVKLVLVDTPGLDEF 60

Query: 177 KIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKK 236
                     +  R     AD I+++VD+       D  L       K+ +PI+LV NK 
Sbjct: 61  G----GLGREELARLLLRGADLILLVVDSTDRESEEDAKLLILRRLRKEGIPIILVGNKI 116

Query: 237 DLIKPGEIAKKLE 249
           DL++  E+ + L 
Sbjct: 117 DLLEEREVEELLR 129

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

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

 Score = 86.3 bits (215), Expect = 3e-21
 Identities = 48/131 (36%), Positives = 68/131 (51%), Gaps = 11/131 (8%)

Query: 119 AVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKI 178
           A++G+PNVGKSTL N++ G++ +IV++ P  TR R  G       + IL DT G IE   
Sbjct: 1   AIVGRPNVGKSTLFNRLTGRRDAIVSDTPGVTRDRKYGEAEWGGREFILIDTGG-IEPDD 59

Query: 179 HMLDSMMMKNVRSAGINADCIVVLVDA----CKAPERIDEILEEGVGDHKDKLPILLVLN 234
             +   + +    A   AD I+ +VD       A E I + L       K K P++LV+N
Sbjct: 60  EGISKEIREQAEIAIEEADVILFVVDGREGLTPADEEIAKYL------RKSKKPVILVVN 113

Query: 235 KKDLIKPGEIA 245
           K D IK  E A
Sbjct: 114 KIDNIKEEEEA 124

This EngA1 subfamily CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability. Length = 157

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

 Score = 89.4 bits (223), Expect = 2e-20
 Identities = 47/132 (35%), Positives = 67/132 (50%), Gaps = 11/132 (8%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
           VA++G+PNVGKSTL N++ G++ +IV++ P  TR R  G       + IL DT GI E  
Sbjct: 2   VAIVGRPNVGKSTLFNRLTGKRDAIVSDTPGVTRDRKYGDAEWGGREFILIDTGGIEEDD 61

Query: 178 IHMLDSMMMKNVRSAGINADCIVVLVDACKAP----ERIDEILEEGVGDHKDKLPILLVL 233
              LD  + +    A   AD I+ +VD  +      E I + L       K   P++LV 
Sbjct: 62  DG-LDKQIREQAEIAIEEADVILFVVDGREGLTPEDEEIAKWL------RKSGKPVILVA 114

Query: 234 NKKDLIKPGEIA 245
           NK D  K   +A
Sbjct: 115 NKIDGKKEDAVA 126

EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability [Protein synthesis, Other]. Length = 429

>gnl|CDD|185391 PRK15494, era, GTPase Era; Provisional

 Score = 87.5 bits (216), Expect = 4e-20
 Identities = 60/163 (36%), Positives = 96/163 (58%), Gaps = 4/163 (2%)

Query: 76  EFDDASSFLSLSEKPDRNMASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQM 135
           EF   +  L+ + + D +  S     +E   +    N K+  V ++G+PN GKSTL N++
Sbjct: 14  EFKGDTEALAAAVREDASTGSTSKLPLE-VKFGKMSNQKTVSVCIIGRPNSGKSTLLNRI 72

Query: 136 IGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGIN 195
           IG+KLSIVT K QTTR  I GI +  + Q+ILYDTPGI E K   L+  M++   S+  +
Sbjct: 73  IGEKLSIVTPKVQTTRSIITGIITLKDTQVILYDTPGIFEPK-GSLEKAMVRCAWSSLHS 131

Query: 196 ADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDL 238
           AD +++++D+ K+ + I   + + +    + +PI L LNK D+
Sbjct: 132 ADLVLLIIDSLKSFDDITHNILDKL-RSLNIVPIFL-LNKIDI 172

Length = 339

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

 Score = 86.5 bits (215), Expect = 2e-19
 Identities = 46/129 (35%), Positives = 70/129 (54%), Gaps = 10/129 (7%)

Query: 117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEK 176
            VA++G+PNVGKSTL N++ G++++IV++ P  TR RI G       + IL DT G+ + 
Sbjct: 5   VVAIVGRPNVGKSTLFNRLTGRRIAIVSDTPGVTRDRIYGDAEWLGREFILIDTGGLDDG 64

Query: 177 KIHMLDSMMMKNVRSAGINADCIVVLVDA----CKAPERIDEILEEGVGDHKDKLPILLV 232
               L  ++ +    A   AD I+ +VD       A E I +IL         K P++LV
Sbjct: 65  DEDELQELIREQALIAIEEADVILFVVDGREGITPADEEIAKILRRS------KKPVILV 118

Query: 233 LNKKDLIKP 241
           +NK D +K 
Sbjct: 119 VNKIDNLKA 127

Length = 444

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

 Score = 80.5 bits (199), Expect = 7e-19
 Identities = 38/125 (30%), Positives = 64/125 (51%), Gaps = 9/125 (7%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICS--GPEYQMILYDTPGIIE 175
           + ++G PNVGKSTL N+++G K+SI   KP TTR+ +  +    G  Y+  L DT G  +
Sbjct: 4   IVIVGDPNVGKSTLLNRLLGNKISITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQED 63

Query: 176 KKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKD-KLPILLVLN 234
               +          S  +  D +++++D  +  E+  + +      H +  +PI+LV N
Sbjct: 64  YD-AIRRLYYRAVESSLRV-FDIVILVLDVEEILEKQTKEII----HHAESGVPIILVGN 117

Query: 235 KKDLI 239
           K DL 
Sbjct: 118 KIDLR 122

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

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

 Score = 83.9 bits (209), Expect = 1e-18
 Identities = 46/127 (36%), Positives = 67/127 (52%), Gaps = 17/127 (13%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICS--GPEYQMILYDTPGIIE 175
           VA++G+PNVGKSTL N++ G++ +IV + P  TR RI G     G E+ +I  DT GI  
Sbjct: 4   VAIVGRPNVGKSTLFNRLTGKRDAIVADTPGVTRDRIYGEAEWLGREFILI--DTGGIEP 61

Query: 176 KKIHMLDSMMMKNVRSAGINADCIVVLVDACKAP-----ERIDEILEEGVGDHKDKLPIL 230
                 +  + +    A   AD I+ +VD  +A      E I +IL       K   P++
Sbjct: 62  DD-DGFEKQIREQAELAIEEADVILFVVDG-RAGLTPADEEIAKIL------RKSNKPVI 113

Query: 231 LVLNKKD 237
           LV+NK D
Sbjct: 114 LVVNKVD 120

Length = 435

>gnl|CDD|206727 cd04164, trmE, trmE is a tRNA modification GTPase

 Score = 77.1 bits (191), Expect = 1e-17
 Identities = 46/156 (29%), Positives = 67/156 (42%), Gaps = 43/156 (27%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTR-----HRILGICSGPEYQMILYDTPG 172
           V + GKPNVGKS+L N + G+  +IV++   TTR        LG   G    + L DT G
Sbjct: 6   VVIAGKPNVGKSSLLNALAGRDRAIVSDIAGTTRDVIEEEIDLG---G--IPVRLIDTAG 60

Query: 173 I------IEKKIHMLDSMMMKNVRSAGI--------NADCIVVLVDACKAPERIDEILEE 218
           +      IEK                GI         AD ++++VDA +  +  D  + E
Sbjct: 61  LRETEDEIEK---------------IGIERAREAIEEADLVLLVVDASEGLDEEDLEILE 105

Query: 219 GVGDHKDKLPILLVLNKKDLIKPGEIAKKLEVTTCF 254
                  K P+++VLNK DL+   E   +L      
Sbjct: 106 ----LPAKKPVIVVLNKSDLLSDAEGISELNGKPII 137

TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase domain that forms a canonical Ras-like fold. It functions a molecular switch GTPase, and apparently uses a conformational change associated with GTP hydrolysis to promote the tRNA modification reaction, in which the conserved cysteine in the C-terminal domain is thought to function as a catalytic residue. In bacteria that are able to survive in extremely low pH conditions, TrmE regulates glutamate-dependent acid resistance. Length = 159

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

 Score = 77.9 bits (193), Expect = 1e-16
 Identities = 40/144 (27%), Positives = 77/144 (53%), Gaps = 24/144 (16%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICS--GPEYQMILYDTPGIIE 175
           +A++G+PNVGKSTL N ++G++  IV++   TTR  I       G +Y +I  DT G I 
Sbjct: 175 IAIIGRPNVGKSTLVNALLGEERVIVSDIAGTTRDSIDIPFERNGKKYTLI--DTAG-IR 231

Query: 176 KKIHMLDSM----MMKNVRSAGIN-ADCIVVLVDACKAPER-----IDEILEEGVGDHKD 225
           +K  + + +    +++ +++  I  AD +++++DA +             LE G      
Sbjct: 232 RKGKVTEGVEKYSVLRTLKA--IERADVVLLVLDATEGITEQDLRIAGLALEAG------ 283

Query: 226 KLPILLVLNKKDLIKPGEIAKKLE 249
              +++V+NK DL+K  +  ++ +
Sbjct: 284 -KALVIVVNKWDLVKDEKTREEFK 306

EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability [Protein synthesis, Other]. Length = 429

>gnl|CDD|223561 COG0486, ThdF, Predicted GTPase [General function prediction only]

 Score = 78.0 bits (193), Expect = 2e-16
 Identities = 44/146 (30%), Positives = 71/146 (48%), Gaps = 38/146 (26%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRI---LGICSGPEYQMILYDTPGI- 173
           V ++G+PNVGKS+L N ++G+  +IVT+   TTR  I   + + +G    + L DT GI 
Sbjct: 220 VVIIGRPNVGKSSLLNALLGRDRAIVTDIAGTTRDVIEEDINL-NG--IPVRLVDTAGIR 276

Query: 174 -----IEKKIHMLDSMMMKNVRSAGI--------NADCIVVLVDACKAPERIDEILEEGV 220
                +E+                GI         AD ++ ++DA +  ++ D  L E +
Sbjct: 277 ETDDVVER---------------IGIERAKKAIEEADLVLFVLDASQPLDKEDLALIELL 321

Query: 221 GDHKDKLPILLVLNKKDLIKPGEIAK 246
                K PI++VLNK DL+   E+  
Sbjct: 322 ---PKKKPIIVVLNKADLVSKIELES 344

Length = 454

>gnl|CDD|206682 cd01895, EngA2, EngA2 GTPase contains the second domain of EngA

 Score = 71.7 bits (177), Expect = 1e-15
 Identities = 43/141 (30%), Positives = 73/141 (51%), Gaps = 17/141 (12%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
           +A++G+PNVGKS+L N ++G++  IV++   TTR  I         +  L DT G I KK
Sbjct: 5   IAIIGRPNVGKSSLLNALLGEERVIVSDIAGTTRDSIDVPFEYDGQKYTLIDTAG-IRKK 63

Query: 178 IHMLDSM-MMKNVRSAGI--NADCIVVLVDACKAPERIDE-----ILEEGVGDHKDKLPI 229
             + + +     +R+      AD +++++DA +     D      ILEEG         +
Sbjct: 64  GKVTEGIEKYSVLRTLKAIERADVVLLVLDASEGITEQDLRIAGLILEEG-------KAL 116

Query: 230 LLVLNKKDLI-KPGEIAKKLE 249
           ++V+NK DL+ K  +  K+ E
Sbjct: 117 IIVVNKWDLVEKDEKTMKEFE 137

This EngA2 subfamily CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability. Length = 174

>gnl|CDD|236546 PRK09518, PRK09518, bifunctional cytidylate kinase/GTPase Der; Reviewed

 Score = 73.7 bits (181), Expect = 7e-15
 Identities = 46/174 (26%), Positives = 82/174 (47%), Gaps = 8/174 (4%)

Query: 66  EMDLDDGDEMEFDDASSFLSLSEKPDRNMASPDDYEIEEFDYASHPNHKSGYVAVLGKPN 125
            +  D  +E E+D  ++ L   E  + +    +                 G VA++G+PN
Sbjct: 227 GLVEDAIEEQEYDQYAANLEGYELDEGDEDLLEGSGFV-AGDEKAGPKAVGVVAIVGRPN 285

Query: 126 VGKSTLANQMIGQKLSIVTNKPQTTRHRI--LGICSGPEYQMILYDTPGIIEKKIHMLDS 183
           VGKSTL N+++G++ ++V + P  TR R+      +G +++  L DT G  E  +  +DS
Sbjct: 286 VGKSTLVNRILGRREAVVEDTPGVTRDRVSYDAEWAGTDFK--LVDTGG-WEADVEGIDS 342

Query: 184 MMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKD 237
            +    + A   AD +V +VD        DE +   +   +   P++L +NK D
Sbjct: 343 AIASQAQIAVSLADAVVFVVDGQVGLTSTDERIVRML--RRAGKPVVLAVNKID 394

Length = 712

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

 Score = 71.6 bits (177), Expect = 2e-14
 Identities = 36/153 (23%), Positives = 71/153 (46%), Gaps = 48/153 (31%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTR--------HRILGICSGPEYQMILYD 169
           +A++G+PNVGKS+L N ++G++  IV++   TTR                G +Y +I  D
Sbjct: 176 IAIIGRPNVGKSSLINALLGEERVIVSDIAGTTRDSIDTPFERD------GQKYTLI--D 227

Query: 170 TPGI-----IEKKIHMLDSMM--MKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGD 222
           T GI     + + +    S++  +K +      AD +++++DA            EG+ +
Sbjct: 228 TAGIRRKGKVTEGVEKY-SVIRTLKAIE----RADVVLLVIDA-----------TEGITE 271

Query: 223 ---------HKDKLPILLVLNKKDLIKPGEIAK 246
                     +    +++V+NK DL+    + +
Sbjct: 272 QDLRIAGLALEAGRALVIVVNKWDLVDEKTMEE 304

Length = 435

>gnl|CDD|234395 TIGR03918, GTP_HydF, [FeFe] hydrogenase H-cluster maturation GTPase HydF

 Score = 71.0 bits (175), Expect = 3e-14
 Identities = 43/150 (28%), Positives = 73/150 (48%), Gaps = 37/150 (24%)

Query: 117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTT----RH--RILGICSGPEYQMILYDT 170
           ++ + G+ N GKS+L N + GQ ++IV++ P TT         +L +  GP   ++L DT
Sbjct: 8   HIGIFGRRNAGKSSLINALTGQDIAIVSDVPGTTTDPVYKAMELLPL--GP---VVLIDT 62

Query: 171 PGI----------IEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERID-EILEEG 219
            G+          +EK   +LD              D  +++VDA   P   + E++EE 
Sbjct: 63  AGLDDEGELGELRVEKTREVLDK------------TDLALLVVDAGVGPGEYELELIEEL 110

Query: 220 VGDHKDKLPILLVLNKKDLIKPGEIAKKLE 249
               + K+P ++V+NK DL +     +KLE
Sbjct: 111 ---KERKIPYIVVINKIDLGEESAELEKLE 137

This model describes the family of the [Fe] hydrogenase maturation protein HypF as characterized in Chlamydomonas reinhardtii and found, in an operon with radical SAM proteins HydE and HydG, in numerous bacteria. It has GTPase activity, can bind an 4Fe-4S cluster, and is essential for hydrogenase activity [Protein fate, Protein modification and repair]. Length = 391

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

 Score = 69.8 bits (172), Expect = 1e-13
 Identities = 46/148 (31%), Positives = 68/148 (45%), Gaps = 45/148 (30%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRI-----LGICSGPEYQMILYDTPG 172
           V + G+PNVGKS+L N ++G++ +IVT+   TTR  I     L    G    + L DT G
Sbjct: 218 VVIAGRPNVGKSSLLNALLGEERAIVTDIAGTTRDVIEEHINLD---G--IPLRLIDTAG 272

Query: 173 I------IEKKIHMLDSMMMKNVRSAGI--------NADCIVVLVDACKAPERID-EILE 217
           I      +EK                GI         AD +++++DA +     D EILE
Sbjct: 273 IRETDDEVEK---------------IGIERSREAIEEADLVLLVLDASEPLTEEDDEILE 317

Query: 218 EGVGDHKDKLPILLVLNKKDLIKPGEIA 245
           E         P+++VLNK DL    ++ 
Sbjct: 318 E-----LKDKPVIVVLNKADLTGEIDLE 340

Length = 449

>gnl|CDD|232980 TIGR00450, mnmE_trmE_thdF, tRNA modification GTPase TrmE

 Score = 68.3 bits (167), Expect = 3e-13
 Identities = 39/122 (31%), Positives = 66/122 (54%), Gaps = 4/122 (3%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
           +A++G PNVGKS+L N ++ Q  +IV++   TTR  + G        + L DT GI E  
Sbjct: 206 LAIVGSPNVGKSSLLNALLKQDRAIVSDIKGTTRDVVEGDFELNGILIKLLDTAGIREHA 265

Query: 178 IHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKD 237
              ++ + ++    A   AD ++ ++DA +   + D ++ +    +K K P +LVLNK D
Sbjct: 266 -DFVERLGIEKSFKAIKQADLVIYVLDASQPLTKDDFLIID---LNKSKKPFILVLNKID 321

Query: 238 LI 239
           L 
Sbjct: 322 LK 323

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 [Protein synthesis, tRNA and rRNA base modification]. Length = 442

>gnl|CDD|179525 PRK03003, PRK03003, GTP-binding protein Der; Reviewed

 Score = 67.7 bits (166), Expect = 5e-13
 Identities = 47/175 (26%), Positives = 77/175 (44%), Gaps = 25/175 (14%)

Query: 70  DDGDEMEFDDASSFLSLSEKPDRNMASPDDYEIEEFDYASHPNHKSG---YVAVLGKPNV 126
            D DE E     ++               D+E+++ D A     + G    VAV+G+PNV
Sbjct: 1   YDDDEAEMRADGTWADE-----------SDWELDDEDLAELEAAEGGPLPVVAVVGRPNV 49

Query: 127 GKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMM 186
           GKSTL N+++G++ ++V + P  TR R+         +  + DT G  E     L + + 
Sbjct: 50  GKSTLVNRILGRREAVVEDVPGVTRDRVSYDAEWNGRRFTVVDTGG-WEPDAKGLQASVA 108

Query: 187 KNVRSAGINADCIVVLVDACKAPERIDE----ILEEGVGDHKDKLPILLVLNKKD 237
           +    A   AD ++ +VDA       DE    +L       +   P++L  NK D
Sbjct: 109 EQAEVAMRTADAVLFVVDATVGATATDEAVARVL------RRSGKPVILAANKVD 157

Length = 472

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

 Score = 61.4 bits (150), Expect = 6e-11
 Identities = 41/134 (30%), Positives = 70/134 (52%), Gaps = 16/134 (11%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
           +A++G+PNVGKS+L N ++G++  IV++   TTR  I         + +L DT G I +K
Sbjct: 181 IAIIGRPNVGKSSLINAILGEERVIVSDIAGTTRDSIDIEFERDGRKYVLIDTAG-IRRK 239

Query: 178 IHMLDSM-MMKNVRS--AGINADCIVVLVDACKAPERIDE-----ILEEGVGDHKDKLPI 229
             + +S+      R+  A   AD +++++DA +     D      I E G         I
Sbjct: 240 GKITESVEKYSVARTLKAIERADVVLLVIDATEGISEQDLRIAGLIEEAG-------RGI 292

Query: 230 LLVLNKKDLIKPGE 243
           ++V+NK DL++  E
Sbjct: 293 VIVVNKWDLVEEDE 306

Length = 444

>gnl|CDD|224083 COG1161, COG1161, Predicted GTPases [General function prediction only]

 Score = 60.1 bits (146), Expect = 1e-10
 Identities = 30/88 (34%), Positives = 44/88 (50%), Gaps = 3/88 (3%)

Query: 91  DRNMASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTT 150
            R        E  +         +   V V+G PNVGKSTL N+++G+K++  +N+P TT
Sbjct: 108 IRKALEKLSEEKIKRLKKKGLLKRKIRVGVVGYPNVGKSTLINRLLGKKVAKTSNRPGTT 167

Query: 151 RHRILGICSGPEYQMILYDTPGIIEKKI 178
           +  I  I    +  + L DTPGII  K 
Sbjct: 168 KG-IQWI--KLDDGIYLLDTPGIIPPKF 192

Length = 322

>gnl|CDD|206749 cd01856, YlqF, Circularly permuted YlqF GTPase

 Score = 57.5 bits (140), Expect = 2e-10
 Identities = 28/56 (50%), Positives = 35/56 (62%), Gaps = 3/56 (5%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGI 173
             V+G PNVGKSTL N++ G+K++ V NKP  TR     I  GP  +  L DTPGI
Sbjct: 118 AMVVGIPNVGKSTLINRLRGKKVAKVGNKPGVTRG-QQWIRIGPNIE--LLDTPGI 170

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 all eukaryotes as well as a phylogenetically diverse array of bacteria (including gram-positive bacteria, proteobacteria, Synechocystis, Borrelia, and Thermotoga). Length = 171

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

 Score = 57.1 bits (139), Expect = 4e-10
 Identities = 37/136 (27%), Positives = 59/136 (43%), Gaps = 32/136 (23%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGI---- 173
           +A++G PNVGK+TL N + G +   V N P  T  +  G      Y++ + D PG     
Sbjct: 3   IALVGNPNVGKTTLFNALTGARQ-HVGNWPGVTVEKKEGTFKYKGYEIEIVDLPGTYSLS 61

Query: 174 ---IEKKIHMLDSMMMKNVRSAGIN--ADCIVVLVDACKAPER----IDEILEEGVGDHK 224
               E+K+           R   +    D I+ +VDA    ER      ++LE G+    
Sbjct: 62  PYSEEEKV----------ARDYLLEEKPDVIINVVDATN-LERNLYLTLQLLELGI---- 106

Query: 225 DKLPILLVLNKKDLIK 240
              P+++ LN  D  +
Sbjct: 107 ---PVVVALNMMDEAE 119

Escherichia coli has an iron(II) transport system (feo) which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this transport system. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent. Length = 190

>gnl|CDD|223296 COG0218, COG0218, Predicted GTPase [General function prediction only]

 Score = 56.9 bits (138), Expect = 7e-10
 Identities = 42/155 (27%), Positives = 67/155 (43%), Gaps = 28/155 (18%)

Query: 111 PNHKSGYVAVLGKPNVGKSTLANQMIGQK-LSIVTNKPQTTRHRILGICSGPEYQMILYD 169
           P      +A  G+ NVGKS+L N +  QK L+  +  P  T+   L      + ++ L D
Sbjct: 20  PEDDLPEIAFAGRSNVGKSSLINALTNQKNLARTSKTPGRTQ---LINFFEVDDELRLVD 76

Query: 170 TPG------IIEKKIH---MLDSMMMKNVRSAGINADCIVVLVDACKAPERID----EIL 216
            PG        E K     +++  + K     G     +V+L+DA   P+ +D    E L
Sbjct: 77  LPGYGYAKVPKEVKEKWKKLIEEYLEKRANLKG-----VVLLIDARHPPKDLDREMIEFL 131

Query: 217 EEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLEVT 251
            E        +P+++VL K D +K  E  K+L   
Sbjct: 132 LE------LGIPVIVVLTKADKLKKSERNKQLNKV 160

Length = 200

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

 Score = 58.1 bits (141), Expect = 1e-09
 Identities = 42/148 (28%), Positives = 62/148 (41%), Gaps = 35/148 (23%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGI---- 173
           VA++G PNVGK+TL N + G     V N P  T  +  G      +++ + D PG     
Sbjct: 6   VALVGNPNVGKTTLFNALTGANQK-VGNWPGVTVEKKEGKLKYKGHEIEIVDLPGTYSLT 64

Query: 174 ---IEKKIHMLDSMMMKNVRSAGIN--ADCIVVLVDACKAPER----IDEILEEGVGDHK 224
               ++K+           R   +    D IV +VDA    ER      ++LE G+    
Sbjct: 65  AYSEDEKV----------ARDFLLEGKPDLIVNVVDA-TNLERNLYLTLQLLELGI---- 109

Query: 225 DKLPILLVLNKKDLIKPGEI---AKKLE 249
              P++L LN  D  K   I    +KL 
Sbjct: 110 ---PMILALNMIDEAKKRGIRIDIEKLS 134

Length = 653

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

 Score = 54.8 bits (133), Expect = 2e-09
 Identities = 40/137 (29%), Positives = 58/137 (42%), Gaps = 36/137 (26%)

Query: 119 AVLGKPNVGKSTLANQMIG--QKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGI--- 173
           A++G PNVGK+TL N + G  QK   V N P  T  +  G       ++ + D PG    
Sbjct: 1   ALVGNPNVGKTTLFNALTGARQK---VGNWPGVTVEKKEGEFKLGGKEIEIVDLPGTYSL 57

Query: 174 ----IEKKIHMLDSMMMKNVRSA--GINADCIVVLVDACKAPER----IDEILEEGVGDH 223
                ++K+           R    G   D IV +VDA    ER      ++LE G    
Sbjct: 58  TPYSEDEKV----------ARDFLLGEEPDLIVNVVDAT-NLERNLYLTLQLLELG---- 102

Query: 224 KDKLPILLVLNKKDLIK 240
              LP+++ LN  D  +
Sbjct: 103 ---LPVVVALNMIDEAE 116

Ferrous iron transport protein B (FeoB) subfamily. E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this transport system. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent. Length = 159

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

 Score = 56.5 bits (137), Expect = 2e-09
 Identities = 46/131 (35%), Positives = 67/131 (51%), Gaps = 11/131 (8%)

Query: 114 KSG--YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGIC--SGPEYQMILYD 169
           KSG   VA++G P+VGKSTL N++   K S V + P TT   + G+    G + Q++  D
Sbjct: 60  KSGDATVALVGFPSVGKSTLLNKLTNTK-SEVADYPFTTLEPVPGMLEYKGAQIQLL--D 116

Query: 170 TPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEE--GVGDHKDKL 227
            PGIIE           + V S   NAD I++++D  + P   D I  E   VG   +K 
Sbjct: 117 LPGIIEGA--SSGRGRGRQVLSVARNADLIIIVLDVFEDPHHRDIIERELEDVGIRLNKR 174

Query: 228 PILLVLNKKDL 238
           P  + + KK+ 
Sbjct: 175 PPDVTIKKKES 185

Length = 365

>gnl|CDD|213833 TIGR03596, GTPase_YlqF, ribosome biogenesis GTP-binding protein YlqF

 Score = 56.0 bits (136), Expect = 3e-09
 Identities = 23/65 (35%), Positives = 36/65 (55%), Gaps = 11/65 (16%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRH----RILGICSGPEYQMILYDTPGI 173
             ++G PNVGKSTL N++ G+K++ V N+P  T+     ++          + L DTPGI
Sbjct: 121 AMIVGIPNVGKSTLINRLAGKKVAKVGNRPGVTKGQQWIKL-------SDGLELLDTPGI 173

Query: 174 IEKKI 178
           +  K 
Sbjct: 174 LWPKF 178

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 [Protein synthesis, Other]. Length = 276

>gnl|CDD|206665 cd01876, YihA_EngB, YihA (EngB) GTPase family

 Score = 54.1 bits (131), Expect = 4e-09
 Identities = 42/152 (27%), Positives = 64/152 (42%), Gaps = 42/152 (27%)

Query: 118 VAVLGKPNVGKSTLANQMIGQK-LSIVTNKPQTTRH----RILGICSGPEYQMILYDTPG 172
           VA  G+ NVGKS+L N +  +K L+  +  P  T+      +         +  L D PG
Sbjct: 2   VAFAGRSNVGKSSLINALTNRKKLARTSKTPGRTQLINFFNVGD-------KFRLVDLPG 54

Query: 173 ------IIEKKIHMLDSMMM------KNVRSAGINADCIVVLVDACKAPERID----EIL 216
                   E +      ++       +N++        +V+L+DA   P  ID    E L
Sbjct: 55  YGYAKVSKEVREKWGK-LIEEYLENRENLK-------GVVLLIDARHGPTPIDLEMLEFL 106

Query: 217 EEGVGDHKDKLPILLVLNKKDLIKPGEIAKKL 248
           EE        +P L+VL K D +K  E+AK L
Sbjct: 107 EE------LGIPFLIVLTKADKLKKSELAKVL 132

The YihA (EngB) 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. Length = 170

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

 Score = 53.6 bits (130), Expect = 5e-09
 Identities = 42/163 (25%), Positives = 62/163 (38%), Gaps = 59/163 (36%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTN-KPQ------TTRHRILGICS-GPEYQMILYD 169
           V ++G PN GKSTL        LS ++N KP+      TT    LG+         ++ D
Sbjct: 3   VGLVGLPNAGKSTL--------LSAISNAKPKIADYPFTTLVPNLGVVRVDDGRSFVIAD 54

Query: 170 TPGIIE-------------KKI-------HMLDSMMMKNVRSAGINADCIVVLVDACKAP 209
            PG+IE             + I       H++D              D  V         
Sbjct: 55  IPGLIEGASEGKGLGHRFLRHIERTRVLLHVIDLS----------GEDDPV--------- 95

Query: 210 ERIDEILEEGVGDHKDKL---PILLVLNKKDLIKPGEIAKKLE 249
           E  + I  E +  +   L   P ++VLNK DL+   E  +KL+
Sbjct: 96  EDYETIRNE-LEAYNPGLAEKPRIVVLNKIDLLDAEERFEKLK 137

The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins conserved from bacteria to humans. The E. coli homolog, ObgE is believed to function in ribosomal biogenesis. Members of the subfamily contain two equally and highly conserved domains, a C-terminal GTP binding domain and an N-terminal glycine-rich domain. Length = 170

>gnl|CDD|236570 PRK09563, rbgA, GTPase YlqF; Reviewed

 Score = 54.4 bits (132), Expect = 8e-09
 Identities = 25/64 (39%), Positives = 37/64 (57%), Gaps = 9/64 (14%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRH--RI-LGICSGPEYQMILYDTPGII 174
             ++G PNVGKSTL N++ G+K++   N+P  T+    I LG        + L DTPGI+
Sbjct: 124 AMIIGIPNVGKSTLINRLAGKKIAKTGNRPGVTKAQQWIKLGK------GLELLDTPGIL 177

Query: 175 EKKI 178
             K+
Sbjct: 178 WPKL 181

Length = 287

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

 Score = 52.7 bits (126), Expect = 3e-08
 Identities = 38/137 (27%), Positives = 56/137 (40%), Gaps = 25/137 (18%)

Query: 112 NHKSGYVAVLGKPNVGKSTLANQMIGQKLS------IVTNKPQTTRHRILGICSGPEYQM 165
             K   + VLG   VGK+TL N+++G +        I    P  T             ++
Sbjct: 2   FMKEFKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIE-----PYRRNIKL 56

Query: 166 ILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEE---GVGD 222
            L+DT G  E       S+           A+ I+++ D     E  DE+ EE    + +
Sbjct: 57  QLWDTAGQEE-----YRSLR----PEYYRGANGILIVYD-STLRESSDELTEEWLEELRE 106

Query: 223 HK-DKLPILLVLNKKDL 238
              D +PILLV NK DL
Sbjct: 107 LAPDDVPILLVGNKIDL 123

Length = 219

>gnl|CDD|206743 cd11383, YfjP, YfjP GTPase

 Score = 50.8 bits (122), Expect = 4e-08
 Identities = 33/125 (26%), Positives = 54/125 (43%), Gaps = 7/125 (5%)

Query: 119 AVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKI 178
            ++GK   GKS+L N + G +++ V ++  TTR     +       ++L D PG+ E+  
Sbjct: 1   GLMGKTGAGKSSLCNALFGTEVAAVGDRRPTTRAAQAYVWQTGGDGLVLLDLPGVGERGR 60

Query: 179 HMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDE--ILEEGVGDHKDKLPILLVLNKK 236
              D    +  R     AD ++ L+DA       D    L    G      P+L VLN+ 
Sbjct: 61  R--DREYEELYRRLLPEADLVLWLLDADDRALAADHDFYLLPLAGHDA---PLLFVLNQV 115

Query: 237 DLIKP 241
           D +  
Sbjct: 116 DPVLA 120

The Era (E. coli Ras-like protein)-like YfjP subfamily includes several uncharacterized bacterial GTPases that are similar to Era. They 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. Era is characterized by a distinct derivative of the KH domain (the pseudo-KH domain) which is located C-terminal to the GTPase domain. Length = 140

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

 Score = 52.4 bits (127), Expect = 5e-08
 Identities = 38/163 (23%), Positives = 65/163 (39%), Gaps = 57/163 (34%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTN-KPQ------TTRHRILGICSGPEYQ-MILYD 169
           V ++G PN GKSTL        +S V+  KP+      TT    LG+    + +  ++ D
Sbjct: 160 VGLVGLPNAGKSTL--------ISAVSAAKPKIADYPFTTLVPNLGVVRVDDGRSFVIAD 211

Query: 170 TPGIIEKK--------------------IHMLDSMMMKNVRSAGINADCIVVLVDACKAP 209
            PG+IE                      +H++D         +  +        D  +  
Sbjct: 212 IPGLIEGASEGAGLGHRFLKHIERTRVLLHLID--------ISPEDGS------DPIEDY 257

Query: 210 ERIDEILEEGVGDHKDKL---PILLVLNKKDLIKPGEIAKKLE 249
           E I   L++    +  +L   P ++VLNK DL+   E+ + L+
Sbjct: 258 EIIRNELKK----YSPELAEKPRIVVLNKIDLLDEEELEELLK 296

This model describes a univeral, mostly one-gene-per-genome GTP-binding protein that associates with ribosomal subunits and appears to play a role in ribosomal RNA maturation. This GTPase, related to the nucleolar protein Obg, is designated CgtA in bacteria. Mutations in this gene are pleiotropic, but it appears that effects on cellular functions such as chromosome partition may be secondary to the effect on ribosome structure. Recent work done in Vibrio cholerae shows an essential role in the stringent response, in which RelA-dependent ability to synthesize the alarmone ppGpp is required for deletion of this GTPase to be lethal [Protein synthesis, Other]. Length = 329

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

 Score = 52.2 bits (126), Expect = 7e-08
 Identities = 42/163 (25%), Positives = 65/163 (39%), Gaps = 57/163 (34%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTN-KPQ------TTRHRILGICSGPEYQ-MILYD 169
           V ++G PN GKSTL        LS V+  KP+      TT    LG+      +  ++ D
Sbjct: 162 VGLVGLPNAGKSTL--------LSAVSAAKPKIADYPFTTLVPNLGVVRVDGGESFVVAD 213

Query: 170 TPGIIE-------------KKI-------HMLDSMMMKNVRSAGINADCIVVLVDACKAP 209
            PG+IE             + I       H++D +   + R             D  +  
Sbjct: 214 IPGLIEGASEGVGLGLRFLRHIERTRVLLHVID-LSPIDGR-------------DPIEDY 259

Query: 210 ERIDEILEEGVGDHKDKL---PILLVLNKKDLIKPGEIAKKLE 249
           + I   LE+    +  KL   P ++VLNK DL    E  ++L+
Sbjct: 260 QTIRNELEK----YSPKLAEKPRIVVLNKIDLPLDEEELEELK 298

Length = 369

>gnl|CDD|236546 PRK09518, PRK09518, bifunctional cytidylate kinase/GTPase Der; Reviewed

 Score = 52.5 bits (126), Expect = 8e-08
 Identities = 35/126 (27%), Positives = 64/126 (50%), Gaps = 8/126 (6%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
           VA++G+PNVGKS+L NQ+  ++ ++V +   TTR  +  I        +  DT G I+++
Sbjct: 453 VALVGRPNVGKSSLLNQLTHEERAVVNDLAGTTRDPVDEIVEIDGEDWLFIDTAG-IKRR 511

Query: 178 IHML---DSMMMKNVRSAGINADCIVVLVDACKAPERID-EILEEGVGDHKDKLPILLVL 233
            H L   +       ++A   ++  + L DA +     D +++   V   +    ++LV 
Sbjct: 512 QHKLTGAEYYSSLRTQAAIERSELALFLFDASQPISEQDLKVMSMAVDAGR---ALVLVF 568

Query: 234 NKKDLI 239
           NK DL+
Sbjct: 569 NKWDLM 574

Length = 712

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

 Score = 50.8 bits (122), Expect = 2e-07
 Identities = 34/141 (24%), Positives = 62/141 (43%), Gaps = 21/141 (14%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILG--ICSGPEYQMILYDTPGIIE 175
           + V G PNVGKS+L  ++   K  +    P TT+   +G         Q+I  DTPG+++
Sbjct: 171 IVVAGYPNVGKSSLVRKLTTAKPEV-APYPFTTKGIHVGHFERGYLRIQVI--DTPGLLD 227

Query: 176 K------KIHMLDSMMMKNVRSAGINADCIVVLVDA---CKAPERIDEILEEGVGDHKDK 226
           +      +I     + ++++      A  I+ L D    C         L E + +    
Sbjct: 228 RPLEERNEIERQAILALRHL------AGVILFLFDPSETCGYSLEEQISLLEEIKELFKA 281

Query: 227 LPILLVLNKKDLIKPGEIAKK 247
            PI++V+NK D+    ++ + 
Sbjct: 282 -PIVVVINKIDIADEEKLEEI 301

Length = 346

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

 Score = 49.9 bits (120), Expect = 2e-07
 Identities = 39/125 (31%), Positives = 62/125 (49%), Gaps = 9/125 (7%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICS--GPEYQMILYDTPGIIE 175
           VA++G P+VGKSTL +++   K S V     TT   + G+    G + Q++  D PGIIE
Sbjct: 3   VALVGFPSVGKSTLLSKLTNTK-SEVAAYEFTTLTCVPGVMEYKGAKIQLL--DLPGIIE 59

Query: 176 KKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEE--GVGDHKDKLPILLVL 233
                      + V +    AD I++++DA K   + + +  E  GVG   +K P  + +
Sbjct: 60  GA--SDGKGRGRQVIAVARTADLILIVLDATKPEGQREILERELEGVGIRLNKKPPNVTI 117

Query: 234 NKKDL 238
            KK  
Sbjct: 118 KKKKK 122

The developmentally regulated GTP-binding protein (DRG) subfamily is an uncharacterized member of the Obg family, an evolutionary branch of GTPase superfamily proteins. GTPases act as molecular switches regulating diverse cellular processes. DRG2 and DRG1 comprise the DRG subfamily in eukaryotes. In view of their widespread expression in various tissues and high conservation among distantly related species in eukaryotes and archaea, DRG proteins may regulate fundamental cellular processes. It is proposed that the DRG subfamily proteins play their physiological roles through RNA binding. Length = 233

>gnl|CDD|206739 cd09912, DLP_2, Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins

 Score = 48.3 bits (116), Expect = 4e-07
 Identities = 38/143 (26%), Positives = 63/143 (44%), Gaps = 36/143 (25%)

Query: 117 YVAVLGKPNVGKSTLANQMIGQKL---SIV--TNKPQTTRHRIL-GICSGPEYQMILYDT 170
            +AV+G+ + GKSTL N ++G+++    +   T      R+ +L G+         L DT
Sbjct: 2   LLAVVGEFSAGKSTLLNALLGEEVLPTGVTPTTAVITVLRYGLLKGVV--------LVDT 53

Query: 171 PGIIEKKIHMLDSMMMKN---VRSAGINADCIVVLVDACKA---PER--IDEILEEGVGD 222
           PG        L+S +  +     S    AD ++ ++ A +     ER  + EIL+     
Sbjct: 54  PG--------LNSTIEHHTEITESFLPRADAVIFVLSADQPLTESEREFLKEILKWSGK- 104

Query: 223 HKDKLPILLVLNKKDLIKPGEIA 245
                 I  VLNK DL+   E+ 
Sbjct: 105 -----KIFFVLNKIDLLSEEELE 122

The dynamin family of large mechanochemical GTPases includes the classical dynamins and dynamin-like proteins (DLPs) that are found throughout the Eukarya. This family also includes bacterial DLPs. These proteins catalyze membrane fission during clathrin-mediated endocytosis. Dynamin consists of five domains; an N-terminal G domain that binds and hydrolyzes GTP, a middle domain (MD) involved in self-assembly and oligomerization, a pleckstrin homology (PH) domain responsible for interactions with the plasma membrane, GED, which is also involved in self-assembly, and a proline arginine rich domain (PRD) that interacts with SH3 domains on accessory proteins. To date, three vertebrate dynamin genes have been identified; dynamin 1, which is brain specific, mediates uptake of synaptic vesicles in presynaptic terminals; dynamin-2 is expressed ubiquitously and similarly participates in membrane fission; mutations in the MD, PH and GED domains of dynamin 2 have been linked to human diseases such as Charcot-Marie-Tooth peripheral neuropathy and rare forms of centronuclear myopathy. Dynamin 3 participates in megakaryocyte progenitor amplification, and is also involved in cytoplasmic enlargement and the formation of the demarcation membrane system. This family also includes mitofusins (MFN1 and MFN2 in mammals) that are involved in mitochondrial fusion. Dynamin oligomerizes into helical structures around the neck of budding vesicles in a GTP hydrolysis-dependent manner. Length = 180

>gnl|CDD|213835 TIGR03598, GTPase_YsxC, ribosome biogenesis GTP-binding protein YsxC/EngB

 Score = 47.9 bits (115), Expect = 7e-07
 Identities = 36/156 (23%), Positives = 66/156 (42%), Gaps = 34/156 (21%)

Query: 111 PNHKSGYVAVLGKPNVGKSTLANQMIGQK-LSIVTNKPQTTRH----RILGICSGPEYQM 165
           P      +A  G+ NVGKS+L N +  +K L+  +  P  T+      +           
Sbjct: 14  PPDDGPEIAFAGRSNVGKSSLINALTNRKKLARTSKTPGRTQLINFFEV-------NDGF 66

Query: 166 ILYDTPGI------IEKKIHMLDSMMM------KNVRSAGINADCIVVLVDACKAPERID 213
            L D PG        E+K      ++       +N++        +V+L+D     + +D
Sbjct: 67  RLVDLPGYGYAKVSKEEKEKWQK-LIEEYLEKRENLK-------GVVLLMDIRHPLKELD 118

Query: 214 EILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLE 249
             + E + +    +P+L+VL K D +K  E+ K+L+
Sbjct: 119 LEMIEWLRER--GIPVLIVLTKADKLKKSELNKQLK 152

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 [Protein synthesis, Other]. Length = 178

>gnl|CDD|179525 PRK03003, PRK03003, GTP-binding protein Der; Reviewed

 Score = 48.8 bits (117), Expect = 1e-06
 Identities = 31/99 (31%), Positives = 51/99 (51%), Gaps = 20/99 (20%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRI-----LGICSGPEYQMILYDTPG 172
           VA++GKPNVGKS+L N++ G++ S+V +   TT   +     LG   G  ++ +  DT G
Sbjct: 214 VALVGKPNVGKSSLLNKLAGEERSVVDDVAGTTVDPVDSLIELG---GKTWRFV--DTAG 268

Query: 173 IIEKKIHMLD------SMMMKNVRSAGINADCIVVLVDA 205
            + +++          S+       A   A+  VVL+DA
Sbjct: 269 -LRRRVKQASGHEYYASLRTHAAIEA---AEVAVVLIDA 303

Length = 472

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

 Score = 47.8 bits (114), Expect = 2e-06
 Identities = 43/139 (30%), Positives = 60/139 (43%), Gaps = 25/139 (17%)

Query: 122 GKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHML 181
           G PNVGKSTL N + G     V N P  T  +  G        + + D PG     I+ L
Sbjct: 1   GNPNVGKSTLFNALTGANQ-TVGNWPGVTVEKKEGKLGFQGEDIEIVDLPG-----IYSL 54

Query: 182 D--SMMMKNVRSAGIN--ADCIVVLVDACKAPER----IDEILEEGVGDHKDKLPILLVL 233
              S+  +  R   +N   D +V +VDA    ER      ++LE G+       P++L L
Sbjct: 55  TTFSLEEEVARDYLLNEKPDLVVNVVDA-SNLERNLYLTLQLLELGI-------PMILAL 106

Query: 234 NKKDLIKPGEI---AKKLE 249
           N  D  +   I    +KLE
Sbjct: 107 NLVDEAEKKGIRIDEEKLE 125

FeoB (773 amino acids in E. coli), a cytoplasmic membrane protein required for iron(II) update, is encoded in an operon with FeoA (75 amino acids), which is also required, and is regulated by Fur. There appear to be two copies in Archaeoglobus fulgidus and Clostridium acetobutylicum [Transport and binding proteins, Cations and iron carrying compounds]. Length = 591

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

 Score = 47.2 bits (113), Expect = 3e-06
 Identities = 39/160 (24%), Positives = 56/160 (35%), Gaps = 51/160 (31%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTN-KPQ------TTRHRILGICS-GPEYQMILYD 169
           V +LG PN GKST         +  V+  KP+      TT    LG+     E   ++ D
Sbjct: 162 VGLLGLPNAGKSTF--------IRAVSAAKPKVADYPFTTLVPNLGVVRVDDERSFVVAD 213

Query: 170 TPGIIE-------------KKI-------HMLDSMMMKNVRSAGINADCIVVLVDACKAP 209
            PG+IE             K +       H++D   +        NA  I          
Sbjct: 214 IPGLIEGASEGAGLGIRFLKHLERCRVLLHLIDIAPIDGSDPVE-NARII------INEL 266

Query: 210 ERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLE 249
           E+    L E         P  LV NK DL+   E  ++ +
Sbjct: 267 EKYSPKLAE--------KPRWLVFNKIDLLDEEEAEERAK 298

Length = 390

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

 Score = 46.5 bits (111), Expect = 5e-06
 Identities = 45/141 (31%), Positives = 67/141 (47%), Gaps = 17/141 (12%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTT---RHRILGICSGPEYQMILYDTPGII 174
           VA++G  N GKSTL N + G     V ++   T     R + +  G   +++L DT G I
Sbjct: 195 VALVGYTNAGKSTLFNALTG-ADVYVADQLFATLDPTTRRIEL--GDGRKVLLTDTVGFI 251

Query: 175 EKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERI------DEILEEGVGDHKDKLP 228
               H L       +      AD ++ +VDA   PE +      +++L E   D     P
Sbjct: 252 RDLPHPLVEAFKSTLEEVK-EADLLLHVVDA-SDPEILEKLEAVEDVLAEIGADEI---P 306

Query: 229 ILLVLNKKDLIKPGEIAKKLE 249
           I+LVLNK DL++  EI  +LE
Sbjct: 307 IILVLNKIDLLEDEEILAELE 327

Length = 411

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

 Score = 45.8 bits (110), Expect = 8e-06
 Identities = 45/160 (28%), Positives = 66/160 (41%), Gaps = 54/160 (33%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTN-KPQ------TTRHRILGICSGPEYQ-MILYD 169
           V ++G PN GKSTL        +S V+  KP+      TT H  LG+    +Y+  ++ D
Sbjct: 161 VGLVGLPNAGKSTL--------ISAVSAAKPKIADYPFTTLHPNLGVVRVDDYKSFVIAD 212

Query: 170 TPGIIE-------------KKI-------HMLDSMMMKNVRSAGINADCIVVLVDACKAP 209
            PG+IE             K I       H++D                 +  VD  +  
Sbjct: 213 IPGLIEGASEGAGLGHRFLKHIERTRLLLHLVD-----------------IEAVDPVEDY 255

Query: 210 ERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLE 249
           + I   LE+   +  DK P +LVLNK DL+   E  +K  
Sbjct: 256 KTIRNELEKYSPELADK-PRILVLNKIDLLDEEEEREKRA 294

Length = 335

>gnl|CDD|237511 PRK13796, PRK13796, GTPase YqeH; Provisional

 Score = 45.6 bits (109), Expect = 1e-05
 Identities = 31/80 (38%), Positives = 40/80 (50%), Gaps = 24/80 (30%)

Query: 118 VAVLGKPNVGKSTLANQMI----GQKLSIVTNK-PQTTRHRILGICSGPEYQMI------ 166
           V V+G  NVGKSTL N++I    G+K  I T++ P TT  +I           I      
Sbjct: 163 VYVVGVTNVGKSTLINRIIKEITGEKDVITTSRFPGTTLDKI----------EIPLDDGS 212

Query: 167 -LYDTPGIIEKK--IHMLDS 183
            LYDTPGII +    H L +
Sbjct: 213 FLYDTPGIIHRHQMAHYLSA 232

Length = 365

>gnl|CDD|234770 PRK00454, engB, GTP-binding protein YsxC; Reviewed

 Score = 44.3 bits (106), Expect = 1e-05
 Identities = 36/150 (24%), Positives = 68/150 (45%), Gaps = 32/150 (21%)

Query: 118 VAVLGKPNVGKSTLANQMIGQK-LSIVTNKPQTTRH----RILGICSGPEYQMILYDTPG 172
           +A  G+ NVGKS+L N +  +K L+  +  P  T+      +         ++ L D PG
Sbjct: 27  IAFAGRSNVGKSSLINALTNRKNLARTSKTPGRTQLINFFEV-------NDKLRLVDLPG 79

Query: 173 I------IEKKIHMLDSMMM-----KNVRSAGINADCIVVLVDACKAPERIDEILEEGVG 221
                   E+K      +       +N++        +V+L+D+    + +D  + E + 
Sbjct: 80  YGYAKVSKEEKEKWQKLIEEYLRTRENLK-------GVVLLIDSRHPLKELDLQMIEWLK 132

Query: 222 DHKDKLPILLVLNKKDLIKPGEIAKKLEVT 251
           ++   +P+L+VL K D +K GE  K+L+  
Sbjct: 133 EY--GIPVLIVLTKADKLKKGERKKQLKKV 160

Length = 196

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

 Score = 44.0 bits (105), Expect = 2e-05
 Identities = 54/158 (34%), Positives = 74/158 (46%), Gaps = 39/158 (24%)

Query: 113 HKSGY--VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQ------TTRHRI-LGICSGPEY 163
            +SG   VA++G  N GKSTL N + G   + V  + Q       T  RI L    G E 
Sbjct: 37  KRSGVPTVALVGYTNAGKSTLFNALTG---ADVLAEDQLFATLDPTTRRIKLP--GGREV 91

Query: 164 QMILYDTPGIIEKKIHMLDSMMMKNV---RS---AGINADCIVVLVDAC--KAPERID-- 213
             +L DT G I    H L       V   RS       AD ++ +VDA      E+I+  
Sbjct: 92  --LLTDTVGFIRDLPHQL-------VEAFRSTLEEVAEADLLLHVVDASDPDREEQIETV 142

Query: 214 -EILEE-GVGDHKDKLPILLVLNKKDLIKPGEIAKKLE 249
            E+L+E G  D    +PI+LVLNK DL+   E+ ++L 
Sbjct: 143 EEVLKELGADD----IPIILVLNKIDLLDDEELEERLR 176

HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms. Length = 204

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

 Score = 43.1 bits (102), Expect = 3e-05
 Identities = 35/152 (23%), Positives = 58/152 (38%), Gaps = 34/152 (22%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSI---------VTNKPQTTRHRILGICSG------PE 162
           V V+G  + GK+TL   ++ Q  +I           +  +  R R + I +G      P+
Sbjct: 2   VGVIGHVDHGKTTLTGSLLYQTGAIDRRGTRKETFLDTLKEERERGITIKTGVVEFEWPK 61

Query: 163 YQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPE----RIDEILEE 218
            ++   DTPG      H  D             AD  +++VDA +  E        I   
Sbjct: 62  RRINFIDTPG------H-EDFSK--ETVRGLAQADGALLVVDANEGVEPQTREHLNIALA 112

Query: 219 GVGDHKDKLPILLVLNKKDLIKPGEIAKKLEV 250
           G       LPI++ +NK D +   +  + L  
Sbjct: 113 G------GLPIIVAVNKIDRVGEEDFDEVLRE 138

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

 Score = 42.9 bits (101), Expect = 4e-05
 Identities = 35/132 (26%), Positives = 57/132 (43%), Gaps = 13/132 (9%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTR--HRILGICSGPEYQMILYDTPGIIE 175
           VAVLG P VGK+ +  Q + Q+       P   R  +R   + SG  Y + + D P +  
Sbjct: 3   VAVLGAPGVGKTAIVRQFLAQEFPEE-YIPTEHRRLYRPAVVLSGRVYDLHILDVPNMQR 61

Query: 176 KKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERID-------EILEEGVGDHKDKLP 228
                    M    R    N+   +++ D C +P+          +ILE     +K+  P
Sbjct: 62  YPGTAGQEWMDPRFRGLR-NSRAFILVYDIC-SPDSFHYVKLLRQQILETRPAGNKEP-P 118

Query: 229 ILLVLNKKDLIK 240
           I++V NK+D  +
Sbjct: 119 IVVVGNKRDQQR 130

RRP22 (Ras-related protein on chromosome 22) subfamily consists of proteins that inhibit cell growth and promote caspase-independent cell death. Unlike most Ras proteins, RRP22 is down-regulated in many human tumor cells due to promoter methylation. RRP22 localizes to the nucleolus in a GTP-dependent manner, suggesting a novel function in modulating transport of nucleolar components. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Like most Ras family proteins, RRP22 is farnesylated. Length = 198

>gnl|CDD|206748 cd01855, YqeH, Circularly permuted YqeH GTPase

 Score = 42.6 bits (101), Expect = 4e-05
 Identities = 23/72 (31%), Positives = 30/72 (41%), Gaps = 14/72 (19%)

Query: 113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGP-------EYQM 165
              G V V+G  NVGKSTL N ++      V  +    R   L +   P       +  +
Sbjct: 123 KYRGDVYVVGATNVGKSTLINALLKSNGGKVQAQALVQR---LTVSPIPGTTLGLIKIPL 179

Query: 166 ----ILYDTPGI 173
                LYDTPGI
Sbjct: 180 GEGKKLYDTPGI 191

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. Length = 191

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

 Score = 43.6 bits (104), Expect = 5e-05
 Identities = 47/149 (31%), Positives = 68/149 (45%), Gaps = 33/149 (22%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNK------PQTTRHRILGICSGPE-YQMILYDT 170
           VA++G  N GKSTL N + G       ++      P TTR   L     P+  +++L DT
Sbjct: 192 VALVGYTNAGKSTLFNALTGAD-VYAADQLFATLDP-TTRRLDL-----PDGGEVLLTDT 244

Query: 171 PGIIEKKIHMLDSMMMKNVRS---AGINADCIVVLVDACKAPERID------EILEE-GV 220
            G I    H L    +   R+       AD ++ +VDA   P+R +      ++LEE G 
Sbjct: 245 VGFIRDLPHEL----VAAFRATLEEVREADLLLHVVDA-SDPDREEQIEAVEKVLEELGA 299

Query: 221 GDHKDKLPILLVLNKKDLIKPGEIAKKLE 249
            D    +P LLV NK DL+    I +  E
Sbjct: 300 ED----IPQLLVYNKIDLLDEPRIERLEE 324

This protein family is one of a number of homologous small, well-conserved GTP-binding proteins with pleiotropic effects. Bacterial members are designated HflX, following the naming convention in Escherichia coli where HflX is encoded immediately downstream of the RNA chaperone Hfq, and immediately upstream of HflKC, a membrane-associated protease pair with an important housekeeping function. Over large numbers of other bacterial genomes, the pairing with hfq is more significant than with hflK and hlfC. The gene from Homo sapiens in this family has been named PGPL (pseudoautosomal GTP-binding protein-like) [Unknown function, General]. Length = 351

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

 Score = 43.6 bits (104), Expect = 5e-05
 Identities = 25/66 (37%), Positives = 35/66 (53%), Gaps = 16/66 (24%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTN-KPQ------TTRHRILGIC-SGPEYQMILYD 169
           V ++G PNVGKSTL        LS+V+N KP+      TT    LG+  +      ++ D
Sbjct: 161 VGLVGFPNVGKSTL--------LSVVSNAKPKIANYHFTTLVPNLGVVETDDGRSFVMAD 212

Query: 170 TPGIIE 175
            PG+IE
Sbjct: 213 IPGLIE 218

Length = 424

>gnl|CDD|213834 TIGR03597, GTPase_YqeH, ribosome biogenesis GTPase YqeH

 Score = 42.6 bits (101), Expect = 1e-04
 Identities = 27/63 (42%), Positives = 35/63 (55%), Gaps = 10/63 (15%)

Query: 118 VAVLGKPNVGKSTLANQMIGQ----KLSIVTNK-PQTTRHRILGICSGP-EYQMILYDTP 171
           V V+G  NVGKS+L N+++ Q    K  I T+  P TT    L +   P +    LYDTP
Sbjct: 157 VYVVGVTNVGKSSLINKLLKQNNGDKDVITTSPFPGTT----LDLIEIPLDDGHSLYDTP 212

Query: 172 GII 174
           GII
Sbjct: 213 GII 215

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 [Protein synthesis, Other]. Length = 360

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

 Score = 40.3 bits (95), Expect = 2e-04
 Identities = 17/66 (25%), Positives = 34/66 (51%), Gaps = 8/66 (12%)

Query: 195 NADCIVVLVDACKAPERIDEILEE--GVGDHKD--KLPILLVLNKKDLIK---PGEIAKK 247
           N D ++ +VD+    ERI+E   E   + + ++    P+L++ NK+DL       E+ + 
Sbjct: 66  NTDGLIFVVDSS-DRERIEEAKNELHKLLNEEELKGAPLLILANKQDLPGALTESELIEL 124

Query: 248 LEVTTC 253
           L + + 
Sbjct: 125 LGLESI 130

Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases. Arf proteins are activators of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. Arfs are N-terminally myristoylated. Members of the Arf family are regulators of vesicle formation in intracellular traffic that interact reversibly with membranes of the secretory and endocytic compartments in a GTP-dependent manner. They depart from other small GTP-binding proteins by a unique structural device, interswitch toggle, that implements front-back communication from N-terminus to the nucleotide binding site. Arf-like (Arl) proteins are close relatives of the Arf, but only Arl1 has been shown to function in membrane traffic like the Arf proteins. Arl2 has an unrelated function in the folding of native tubulin, and Arl4 may function in the nucleus. Most other Arf family proteins are so far relatively poorly characterized. Thus, despite their significant sequence homologies, Arf family proteins may regulate unrelated functions. Length = 158

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

 Score = 39.5 bits (93), Expect = 4e-04
 Identities = 38/140 (27%), Positives = 65/140 (46%), Gaps = 23/140 (16%)

Query: 122 GKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILG--ICSGPEYQMILYDTPGIIEKKIH 179
           G PNVGKS+L N++   K   V   P TT+   +G        +Q+I  DTPGI++    
Sbjct: 7   GYPNVGKSSLVNKLTRAKPE-VAPYPFTTKSLFVGHFDYKYLRWQVI--DTPGILD---R 60

Query: 180 MLDSMMMKNVRSAGINA-----DCIVVLVDA---CKAPERIDEILE--EGVGDHKDKLPI 229
            L+      +    I A       ++  +D    C     I+E L   + +    +K P+
Sbjct: 61  PLEE--RNTIEMQAITALAHLRAAVLFFIDPSETCGYS--IEEQLSLFKEIKPLFNK-PV 115

Query: 230 LLVLNKKDLIKPGEIAKKLE 249
           ++VLNK DL+   ++++  +
Sbjct: 116 IVVLNKIDLLTEEDLSEIEK 135

NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans. NOG1 is functionally linked to ribosome biogenesis and found in association with the nuclear pore complexes and identified in many preribosomal complexes. Thus, defects in NOG1 can lead to defects in 60S biogenesis. The S. cerevisiae NOG1 gene is essential for cell viability, and mutations in the predicted G motifs abrogate function. It is a member of the ODN family of GTP-binding proteins that also includes the bacterial Obg and DRG proteins. Length = 167

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

 Score = 39.3 bits (92), Expect = 5e-04
 Identities = 35/132 (26%), Positives = 60/132 (45%), Gaps = 17/132 (12%)

Query: 119 AVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGIC---SGPEYQMILYDTPGIIE 175
            ++G PNVGKSTL + +   K+ I  + P TT    +G+     G + Q+I  D PG+++
Sbjct: 1   GLVGLPNVGKSTLLSALTSAKVEI-ASYPFTTLEPNVGVFEFGDGVDIQII--DLPGLLD 57

Query: 176 KKIHMLDSMMMKNVRSAGIN-ADCIVVLVDACKAP-----ERIDEILEE--GVGDHKDKL 227
                 +   +     A +  +D I+ ++DA +       E    + EE  G        
Sbjct: 58  GAS---EGRGLGEQILAHLYRSDLILHVIDASEDCVGDPLEDQKTLNEEVSGSFLFLKNK 114

Query: 228 PILLVLNKKDLI 239
           P ++V NK D+ 
Sbjct: 115 PEMIVANKIDMA 126

The Obg-like subfamily consists of five well-delimited, ancient subfamilies, namely Obg, DRG, YyaF/YchF, Ygr210, and NOG1. Four of these groups (Obg, DRG, YyaF/YchF, and Ygr210) are characterized by a distinct glycine-rich motif immediately following the Walker B motif (G3 box). Obg/CgtA is an essential gene that is involved in the initiation of sporulation and DNA replication in the bacteria Caulobacter and Bacillus, but its exact molecular role is unknown. Furthermore, several OBG family members possess a C-terminal RNA-binding domain, the TGS domain, which is also present in threonyl-tRNA synthetase and in bacterial guanosine polyphosphatase SpoT. Nog1 is a nucleolar protein that might function in ribosome assembly. The DRG and Nog1 subfamilies are ubiquitous in archaea and eukaryotes, the Ygr210 subfamily is present in archaea and fungi, and the Obg and YyaF/YchF subfamilies are ubiquitous in bacteria and eukaryotes. The Obg/Nog1 and DRG subfamilies appear to form one major branch of the Obg family and the Ygr210 and YchF subfamilies form another branch. No GEFs, GAPs, or GDIs for Obg have been identified. Length = 167

>gnl|CDD|226124 COG3596, COG3596, Predicted GTPase [General function prediction only]

 Score = 39.8 bits (93), Expect = 8e-04
 Identities = 29/131 (22%), Positives = 53/131 (40%), Gaps = 12/131 (9%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
           V ++G    GKS+L N +   ++  V+     T        S     ++L+DTPG+ + K
Sbjct: 42  VLLMGATGAGKSSLINALFQGEVKEVSKVGVGTDITTRLRLSYDGENLVLWDTPGLGDGK 101

Query: 178 IHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDE-----ILEEGVGDHKDKLPILLV 232
               D+   +  R      D ++ L+ A       DE     ++  G+        +L V
Sbjct: 102 DK--DAEHRQLYRDYLPKLDLVLWLIKADDRALGTDEDFLRDVIILGLDK-----RVLFV 154

Query: 233 LNKKDLIKPGE 243
           + + D  +PG 
Sbjct: 155 VTQADRAEPGR 165

Length = 296

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

 Score = 38.4 bits (90), Expect = 8e-04
 Identities = 15/40 (37%), Positives = 24/40 (60%)

Query: 113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRH 152
                + ++G PNVGKS+L N ++G K   V++ P  T+H
Sbjct: 80  LNEATIGLVGYPNVGKSSLINALVGSKKVSVSSTPGKTKH 119

Human HSR1 is localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has only eukaryote members. This subfamily shows a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with sequence NKXD) are relocated to the N-terminus. Length = 140

>gnl|CDD|206749 cd01856, YlqF, Circularly permuted YlqF GTPase

 Score = 36.7 bits (86), Expect = 0.003
 Identities = 23/81 (28%), Positives = 36/81 (44%), Gaps = 26/81 (32%)

Query: 179 HMLDSM-----MMKNVRSAGINADCIVVLVDACKAP-----ERIDEILEEGVGDHKDKLP 228
           HM  ++      +K V       D ++ + DA + P       +D+IL        +K P
Sbjct: 5   HMAKALRQIKEKLKLV-------DVVIEVRDA-RIPLSSRNPDLDKIL-------GNK-P 48

Query: 229 ILLVLNKKDLIKPGEIAKKLE 249
            L+VLNK DL  P +  K L+
Sbjct: 49  RLIVLNKADLADPAKTKKWLK 69

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 all eukaryotes as well as a phylogenetically diverse array of bacteria (including gram-positive bacteria, proteobacteria, Synechocystis, Borrelia, and Thermotoga). Length = 171

>gnl|CDD|206652 cd01853, Toc34_like, Translocon at the Outer-envelope membrane of Chloroplasts 34-like (Toc34-like)

 Score = 37.7 bits (88), Expect = 0.003
 Identities = 21/76 (27%), Positives = 41/76 (53%), Gaps = 4/76 (5%)

Query: 118 VAVLGKPNVGKSTLANQMIG-QKLSIVTNKPQTTR-HRILGICSGPEYQMILYDTPGIIE 175
           + VLGK  VGKS+  N + G +K+S+   + +T R   +     G +  +I  DTPG++E
Sbjct: 34  ILVLGKTGVGKSSTINSIFGERKVSVSAFQSETLRPREVSRTVDGFKLNII--DTPGLLE 91

Query: 176 KKIHMLDSMMMKNVRS 191
            +   ++  ++  ++ 
Sbjct: 92  SQDQRVNRKILSIIKR 107

The Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts) 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. Length = 248

>gnl|CDD|206752 cd01859, MJ1464, An uncharacterized, circularly permuted subfamily of the Ras GTPases

 Score = 36.9 bits (86), Expect = 0.003
 Identities = 21/71 (29%), Positives = 35/71 (49%), Gaps = 8/71 (11%)

Query: 107 YASHPNHKSGYVAVLGKPNVGKSTLANQMIGQK---LSIVTNKPQTTRH-RILGICSGPE 162
                + K   V V+G P VGKS++ N + G+     S +   P  T+  +++ I S   
Sbjct: 91  KELAIDGKPVIVGVVGYPKVGKSSIINALKGRHSASTSPIPGSPGYTKGIQLVRIDS--- 147

Query: 163 YQMILYDTPGI 173
            ++ L DTPG+
Sbjct: 148 -KIYLIDTPGV 157

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. Length = 157

>gnl|CDD|224083 COG1161, COG1161, Predicted GTPases [General function prediction only]

 Score = 37.7 bits (88), Expect = 0.004
 Identities = 23/76 (30%), Positives = 33/76 (43%), Gaps = 10/76 (13%)

Query: 173 IIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPE--RIDEILEEGVGDHKDKLPIL 230
           I     HM  +   + ++    + D +V +VDA + P   R  E+ E  V     + P L
Sbjct: 14  IQWFPGHMKKAK--RQLKEVLKSVDVVVEVVDA-RDPLGTRNPEL-ERIVK----EKPKL 65

Query: 231 LVLNKKDLIKPGEIAK 246
           LVLNK DL       K
Sbjct: 66  LVLNKADLAPKEVTKK 81

Length = 322

>gnl|CDD|206721 cd04155, Arl3, Arf-like 3 (Arl3) GTPase

 Score = 37.0 bits (86), Expect = 0.004
 Identities = 17/65 (26%), Positives = 33/65 (50%), Gaps = 8/65 (12%)

Query: 195 NADCIVVLVDACKAPERIDEI---LEEGVGDHK-DKLPILLVLNKKDLIK---PGEIAKK 247
           N D ++ ++D     +R +E    L E + + K   +P+L+  NK+DL+      E+A+ 
Sbjct: 82  NTDVLIYVID-SADRKRFEEAGQELVELLEEEKLAGVPVLVFANKQDLLTAAPAEEVAEA 140

Query: 248 LEVTT 252
           L +  
Sbjct: 141 LNLHD 145

Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation. Length = 174

>gnl|CDD|179790 PRK04213, PRK04213, GTP-binding protein; Provisional

 Score = 36.8 bits (86), Expect = 0.004
 Identities = 46/164 (28%), Positives = 70/164 (42%), Gaps = 47/164 (28%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQM---ILYDTPGI- 173
           +  +G+ NVGKSTL  ++ G+K+  V  +P  TR           Y     IL D PG  
Sbjct: 12  IVFVGRSNVGKSTLVRELTGKKVR-VGKRPGVTRKPN-------HYDWGDFILTDLPGFG 63

Query: 174 ----IEKKIHMLDSMMMKNVRSAGINADCI---VVLVDACKAPERID------EI----- 215
               + K++   + +  + VR    NAD I   V++VD     E I+      EI     
Sbjct: 64  FMSGVPKEVQ--EKIKDEIVRYIEDNADRILAAVLVVDGKSFIEIIERWEGRGEIPIDVE 121

Query: 216 ----LEEGVGDHKDKLPILLVLNKKDLIKP-----GEIAKKLEV 250
               L E        +P ++ +NK D IK       EIA++L +
Sbjct: 122 MFDFLRE------LGIPPIVAVNKMDKIKNRDEVLDEIAERLGL 159

Length = 201

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	254
COG1084	346	Predicted GTPase [General function prediction only	99.97
KOG1490	620	consensus GTP-binding protein CRFG/NOG1 (ODN super	99.93
COG0486	454	ThdF Predicted GTPase [General function prediction	99.9
COG1159	298	Era GTPase [General function prediction only]	99.86
COG1160	444	Predicted GTPases [General function prediction onl	99.85
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	99.85
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	99.83
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	99.83
PRK00089	292	era GTPase Era; Reviewed	99.8
KOG0084	205	consensus GTPase Rab1/YPT1, small G protein superf	99.8
PRK15494	339	era GTPase Era; Provisional	99.79
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	99.78
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	99.78
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	99.78
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	99.77
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	99.76
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	99.76
KOG1191	531	consensus Mitochondrial GTPase [Translation, ribos	99.76
KOG0094	221	consensus GTPase Rab6/YPT6/Ryh1, small G protein s	99.76
PRK03003	472	GTP-binding protein Der; Reviewed	99.76
KOG0092	200	consensus GTPase Rab5/YPT51 and related small G pr	99.75
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	99.75
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	99.75
KOG0098	216	consensus GTPase Rab2, small G protein superfamily	99.74
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	99.74
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	99.74
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	99.74
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	99.74
COG0218	200	Predicted GTPase [General function prediction only	99.74
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	99.74
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.74
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	99.74
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	99.73
PRK12299	335	obgE GTPase CgtA; Reviewed	99.73
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	99.73
PRK00093	435	GTP-binding protein Der; Reviewed	99.73
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	99.73
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	99.72
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	99.72
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	99.72
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	99.72
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	99.72
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	99.72
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	99.72
PRK12298	390	obgE GTPase CgtA; Reviewed	99.72
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	99.72
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.72
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	99.72
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	99.72
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	99.72
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	99.72
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	99.71
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	99.71
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	99.71
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	99.71
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	99.71
KOG0078	207	consensus GTP-binding protein SEC4, small G protei	99.71
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	99.71
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	99.71
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	99.71
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	99.71
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	99.71
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	99.71
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.71
PRK12296	500	obgE GTPase CgtA; Reviewed	99.71
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	99.71
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	99.71
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	99.71
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	99.71
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	99.71
PRK00093	435	GTP-binding protein Der; Reviewed	99.71
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	99.71
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	99.71
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	99.71
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	99.71
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	99.7
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	99.7
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	99.7
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	99.7
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	99.7
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	99.7
PLN00223	181	ADP-ribosylation factor; Provisional	99.7
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	99.7
PRK03003	472	GTP-binding protein Der; Reviewed	99.7
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	99.7
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	99.7
smart00178	184	SAR Sar1p-like members of the Ras-family of small	99.7
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	99.7
PTZ00369	189	Ras-like protein; Provisional	99.7
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	99.7
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	99.7
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	99.7
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	99.7
cd01881	176	Obg_like The Obg-like subfamily consists of five w	99.7
PRK11058	426	GTPase HflX; Provisional	99.7
COG1160	444	Predicted GTPases [General function prediction onl	99.7
KOG0087	222	consensus GTPase Rab11/YPT3, small G protein super	99.69
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	99.69
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	99.69
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	99.69
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	99.69
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	99.69
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	99.69
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	99.69
PLN03110	216	Rab GTPase; Provisional	99.69
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	99.69
PLN03118	211	Rab family protein; Provisional	99.69
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	99.69
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	99.69
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	99.69
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	99.68
PRK12297	424	obgE GTPase CgtA; Reviewed	99.68
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	99.68
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	99.68
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	99.68
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	99.68
PTZ00133	182	ADP-ribosylation factor; Provisional	99.68
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	99.68
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	99.67
KOG0095	213	consensus GTPase Rab30, small G protein superfamil	99.67
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	99.67
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	99.67
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	99.67
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	99.67
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	99.67
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	99.67
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	99.67
KOG1423	379	consensus Ras-like GTPase ERA [Cell cycle control,	99.67
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	99.67
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	99.66
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	99.66
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	99.66
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.66
cd00881	189	GTP_translation_factor GTP translation factor fami	99.66
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	99.66
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	99.66
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	99.65
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	99.65
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	99.65
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	99.65
PRK04213	201	GTP-binding protein; Provisional	99.65
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	99.65
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	99.65
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	99.65
KOG0394	210	consensus Ras-related GTPase [General function pre	99.65
PLN00023	334	GTP-binding protein; Provisional	99.65
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	99.64
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	99.64
cd04105	203	SR_beta Signal recognition particle receptor, beta	99.64
KOG0080	209	consensus GTPase Rab18, small G protein superfamil	99.64
PLN03108	210	Rab family protein; Provisional	99.64
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	99.64
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	99.64
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	99.63
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	99.63
KOG0093	193	consensus GTPase Rab3, small G protein superfamily	99.63
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	99.63
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	99.63
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	99.63
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	99.63
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	99.63
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	99.62
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	99.61
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	99.61
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	99.61
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.6
KOG0079	198	consensus GTP-binding protein H-ray, small G prote	99.6
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	99.6
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	99.6
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	99.6
cd01896	233	DRG The developmentally regulated GTP-binding prot	99.6
KOG0086	214	consensus GTPase Rab4, small G protein superfamily	99.6
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	99.59
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	99.58
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	99.58
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	99.57
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	99.57
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	99.56
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	99.56
KOG0088	218	consensus GTPase Rab21, small G protein superfamil	99.56
COG3596	296	Predicted GTPase [General function prediction only	99.55
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	99.55
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	99.55
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	99.55
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	99.55
KOG0395	196	consensus Ras-related GTPase [General function pre	99.54
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	99.53
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	99.53
KOG1489	366	consensus Predicted GTP-binding protein (ODN super	99.53
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	99.53
COG1100	219	GTPase SAR1 and related small G proteins [General	99.52
KOG0073	185	consensus GTP-binding ADP-ribosylation factor-like	99.52
COG2262	411	HflX GTPases [General function prediction only]	99.52
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	99.52
PRK12317	425	elongation factor 1-alpha; Reviewed	99.51
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	99.51
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	99.51
PRK05306	787	infB translation initiation factor IF-2; Validated	99.51
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	99.51
CHL00071	409	tufA elongation factor Tu	99.5
PF09439	181	SRPRB: Signal recognition particle receptor beta s	99.49
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	99.49
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	99.48
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	99.48
COG0536	369	Obg Predicted GTPase [General function prediction	99.48
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	99.48
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	99.47
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	99.47
PRK15467	158	ethanolamine utilization protein EutP; Provisional	99.46
CHL00189	742	infB translation initiation factor 2; Provisional	99.46
COG1163	365	DRG Predicted GTPase [General function prediction	99.46
PLN03126	478	Elongation factor Tu; Provisional	99.46
KOG0091	213	consensus GTPase Rab39, small G protein superfamil	99.45
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	99.45
PRK12736	394	elongation factor Tu; Reviewed	99.45
PLN03127	447	Elongation factor Tu; Provisional	99.45
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	99.44
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	99.44
KOG0075	186	consensus GTP-binding ADP-ribosylation factor-like	99.43
PRK12735	396	elongation factor Tu; Reviewed	99.43
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	99.43
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	99.43
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	99.42
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	99.42
PRK09866	741	hypothetical protein; Provisional	99.42
TIGR00485	394	EF-Tu translation elongation factor TU. This align	99.42
PRK10218	607	GTP-binding protein; Provisional	99.42
PRK12739	691	elongation factor G; Reviewed	99.41
KOG0097	215	consensus GTPase Rab14, small G protein superfamil	99.41
TIGR00503	527	prfC peptide chain release factor 3. This translat	99.41
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	99.4
PRK00049	396	elongation factor Tu; Reviewed	99.4
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	99.4
PRK00741	526	prfC peptide chain release factor 3; Provisional	99.39
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	99.38
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	99.37
PRK00007	693	elongation factor G; Reviewed	99.37
PRK04004	586	translation initiation factor IF-2; Validated	99.37
COG2229	187	Predicted GTPase [General function prediction only	99.37
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	99.36
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	99.36
KOG0070	181	consensus GTP-binding ADP-ribosylation factor Arf1	99.36
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	99.35
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	99.34
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	99.34
KOG0393	198	consensus Ras-related small GTPase, Rho type [Gene	99.34
PRK13351	687	elongation factor G; Reviewed	99.33
PRK04000	411	translation initiation factor IF-2 subunit gamma;	99.32
KOG0090	238	consensus Signal recognition particle receptor, be	99.31
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	99.31
KOG0083	192	consensus GTPase Rab26/Rab37, small G protein supe	99.3
KOG3883	198	consensus Ras family small GTPase [Signal transduc	99.3
KOG0074	185	consensus GTP-binding ADP-ribosylation factor-like	99.29
PRK05433	600	GTP-binding protein LepA; Provisional	99.29
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	99.29
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	99.28
KOG0081	219	consensus GTPase Rab27, small G protein superfamil	99.28
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	99.27
KOG0071	180	consensus GTP-binding ADP-ribosylation factor Arf6	99.26
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	99.26
PTZ00141	446	elongation factor 1- alpha; Provisional	99.25
PTZ00416	836	elongation factor 2; Provisional	99.25
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	99.24
KOG4252	246	consensus GTP-binding protein [Signal transduction	99.21
PLN00116	843	translation elongation factor EF-2 subunit; Provis	99.21
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	99.2
KOG1954	532	consensus Endocytosis/signaling protein EHD1 [Sign	99.2
PTZ00258	390	GTP-binding protein; Provisional	99.18
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	99.18
cd01900	274	YchF YchF subfamily. YchF is a member of the Obg f	99.17
PRK09601	364	GTP-binding protein YchF; Reviewed	99.17
PLN00043	447	elongation factor 1-alpha; Provisional	99.16
KOG0077	193	consensus Vesicle coat complex COPII, GTPase subun	99.16
KOG0076	197	consensus GTP-binding ADP-ribosylation factor-like	99.13
PRK12740	668	elongation factor G; Reviewed	99.13
PRK09602	396	translation-associated GTPase; Reviewed	99.11
KOG1145	683	consensus Mitochondrial translation initiation fac	99.1
PRK07560	731	elongation factor EF-2; Reviewed	99.09
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	99.08
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	99.07
PTZ00099	176	rab6; Provisional	99.03
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	99.02
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	99.02
COG5019	373	CDC3 Septin family protein [Cell division and chro	99.02
KOG0462	650	consensus Elongation factor-type GTP-binding prote	99.0
KOG1547	336	consensus Septin CDC10 and related P-loop GTPases	98.98
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	98.97
PRK13768	253	GTPase; Provisional	98.96
KOG2655	366	consensus Septin family protein (P-loop GTPase) [C	98.96
KOG0410	410	consensus Predicted GTP binding protein [General f	98.92
KOG0096	216	consensus GTPase Ran/TC4/GSP1 (nuclear protein tra	98.92
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	98.91
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	98.91
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.91
COG1217	603	TypA Predicted membrane GTPase involved in stress	98.88
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	98.88
COG4108	528	PrfC Peptide chain release factor RF-3 [Translatio	98.86
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	98.83
KOG2486	320	consensus Predicted GTPase [General function predi	98.82
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.81
KOG0468	971	consensus U5 snRNP-specific protein [Translation,	98.8
KOG3886	295	consensus GTP-binding protein [Signal transduction	98.79
KOG1486	364	consensus GTP-binding protein DRG2 (ODN superfamil	98.78
COG0012	372	Predicted GTPase, probable translation factor [Tra	98.76
cd01851	224	GBP Guanylate-binding protein (GBP), N-terminal do	98.74
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.73
COG1161	322	Predicted GTPases [General function prediction onl	98.72
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	98.71
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.69
KOG1144	1064	consensus Translation initiation factor 5B (eIF-5B	98.69
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.69
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	98.69
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.68
KOG1673	205	consensus Ras GTPases [General function prediction	98.68
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.67
KOG0072	182	consensus GTP-binding ADP-ribosylation factor-like	98.66
COG3276	447	SelB Selenocysteine-specific translation elongatio	98.64
COG0050	394	TufB GTPases - translation elongation factors [Tra	98.63
TIGR00092	368	GTP-binding protein YchF. This predicted GTP-bindi	98.63
PRK14845	1049	translation initiation factor IF-2; Provisional	98.61
KOG0458	603	consensus Elongation factor 1 alpha [Translation,	98.61
cd00066	317	G-alpha G protein alpha subunit. The alpha subunit	98.59
PRK09435	332	membrane ATPase/protein kinase; Provisional	98.57
COG5257	415	GCD11 Translation initiation factor 2, gamma subun	98.54
smart00275	342	G_alpha G protein alpha subunit. Subunit of G prot	98.52
KOG0461	522	consensus Selenocysteine-specific elongation facto	98.51
PRK12289	352	GTPase RsgA; Reviewed	98.51
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	98.49
PRK12288	347	GTPase RsgA; Reviewed	98.49
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	98.46
TIGR03348	1169	VI_IcmF type VI secretion protein IcmF. Members of	98.45
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	98.44
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	98.43
KOG1491	391	consensus Predicted GTP-binding protein (ODN super	98.43
PRK13796	365	GTPase YqeH; Provisional	98.42
cd03112	158	CobW_like The function of this protein family is u	98.36
KOG0464	753	consensus Elongation factor G [Translation, riboso	98.34
KOG4423	229	consensus GTP-binding protein-like, RAS superfamil	98.34
KOG0447	980	consensus Dynamin-like GTP binding protein [Genera	98.33
COG1162	301	Predicted GTPases [General function prediction onl	98.32
KOG1424	562	consensus Predicted GTP-binding protein MMR1 [Gene	98.29
KOG3887	347	consensus Predicted small GTPase involved in nucle	98.28
KOG0448	749	consensus Mitofusin 1 GTPase, involved in mitochon	98.28
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	98.28
PRK00098	298	GTPase RsgA; Reviewed	98.26
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	98.23
COG5192	1077	BMS1 GTP-binding protein required for 40S ribosome	98.23
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	98.23
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.22
KOG0467	887	consensus Translation elongation factor 2/ribosome	98.2
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	98.18
KOG3859	406	consensus Septins (P-loop GTPases) [Cell cycle con	98.17
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.16
smart00010	124	small_GTPase Small GTPase of the Ras superfamily;	98.11
KOG2485	335	consensus Conserved ATP/GTP binding protein [Gener	98.09
KOG0465	721	consensus Mitochondrial elongation factor [Transla	98.08
KOG0082	354	consensus G-protein alpha subunit (small G protein	98.06
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	98.06
PRK10416	318	signal recognition particle-docking protein FtsY;	98.05
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	98.04
PF06858	58	NOG1: Nucleolar GTP-binding protein 1 (NOG1); Inte	98.04
KOG0460	449	consensus Mitochondrial translation elongation fac	98.04
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	98.04
PF02492	178	cobW: CobW/HypB/UreG, nucleotide-binding domain; I	98.03
KOG1487	358	consensus GTP-binding protein DRG1 (ODN superfamil	98.03
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	98.02
TIGR00064	272	ftsY signal recognition particle-docking protein F	98.01
COG5258	527	GTPBP1 GTPase [General function prediction only]	97.98
COG0523	323	Putative GTPases (G3E family) [General function pr	97.92
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	97.91
KOG2423	572	consensus Nucleolar GTPase [General function predi	97.9
cd03115	173	SRP The signal recognition particle (SRP) mediates	97.85
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	97.83
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	97.82
COG3523	1188	IcmF Type VI protein secretion system component Va	97.79
PRK11537	318	putative GTP-binding protein YjiA; Provisional	97.79
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	97.78
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	97.78
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	97.77
KOG2484	435	consensus GTPase [General function prediction only	97.75
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	97.74
TIGR02475	341	CobW cobalamin biosynthesis protein CobW. A broade	97.74
KOG1533	290	consensus Predicted GTPase [General function predi	97.73
PRK14974	336	cell division protein FtsY; Provisional	97.73
TIGR00101	199	ureG urease accessory protein UreG. This model rep	97.72
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	97.72
cd03114	148	ArgK-like The function of this protein family is u	97.71
KOG1534	273	consensus Putative transcription factor FET5 [Tran	97.7
KOG2743	391	consensus Cobalamin synthesis protein [Coenzyme tr	97.67
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	97.67
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	97.62
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	97.62
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	97.61
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	97.58
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	97.56
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	97.54
KOG2484	435	consensus GTPase [General function prediction only	97.51
cd02038	139	FleN-like FleN is a member of the Fer4_NifH superf	97.47
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	97.47
PRK00771	437	signal recognition particle protein Srp54; Provisi	97.46
PRK09563	287	rbgA GTPase YlqF; Reviewed	97.45
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	97.44
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	97.43
KOG1143	591	consensus Predicted translation elongation factor	97.42
PRK10867	433	signal recognition particle protein; Provisional	97.42
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	97.39
KOG0466	466	consensus Translation initiation factor 2, gamma s	97.3
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	97.25
PRK12289	352	GTPase RsgA; Reviewed	97.23
COG0552	340	FtsY Signal recognition particle GTPase [Intracell	97.22
PRK01889	356	GTPase RsgA; Reviewed	97.19
KOG3905	473	consensus Dynein light intermediate chain [Cell mo	97.19
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	97.12
KOG0780	483	consensus Signal recognition particle, subunit Srp	97.09
TIGR00959	428	ffh signal recognition particle protein. This mode	97.08
KOG0469	842	consensus Elongation factor 2 [Translation, riboso	97.06
KOG0463	641	consensus GTP-binding protein GP-1 [General functi	97.04
KOG0446	657	consensus Vacuolar sorting protein VPS1, dynamin,	97.03
PF00004	132	AAA: ATPase family associated with various cellula	97.01
cd02042	104	ParA ParA and ParB of Caulobacter crescentus belon	96.99
cd03111	106	CpaE_like This protein family consists of proteins	96.99
PRK14737	186	gmk guanylate kinase; Provisional	96.99
KOG0099	379	consensus G protein subunit Galphas, small G prote	96.95
KOG0056	790	consensus Heavy metal exporter HMT1, ABC superfami	96.89
KOG1424	562	consensus Predicted GTP-binding protein MMR1 [Gene	96.88
KOG0058	716	consensus Peptide exporter, ABC superfamily [Intra	96.79
COG1132	567	MdlB ABC-type multidrug transport system, ATPase a	96.77
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	96.76
COG0541	451	Ffh Signal recognition particle GTPase [Intracellu	96.74
cd02036	179	MinD Bacterial cell division requires the formatio	96.73
KOG2423	572	consensus Nucleolar GTPase [General function predi	96.73
PRK14738	206	gmk guanylate kinase; Provisional	96.72
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	96.71
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	96.71
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	96.69
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	96.69
PRK00098	298	GTPase RsgA; Reviewed	96.66
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	96.64
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	96.63
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	96.59
COG2884	223	FtsE Predicted ATPase involved in cell division [C	96.56
PF00503	389	G-alpha: G-protein alpha subunit; InterPro: IPR001	96.54
KOG0057	591	consensus Mitochondrial Fe/S cluster exporter, ABC	96.54
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	96.49
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	96.49
KOG0085	359	consensus G protein subunit Galphaq/Galphay, small	96.48
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	96.44
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	96.39
PRK13695	174	putative NTPase; Provisional	96.34
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	96.3
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	96.27
PF05729	166	NACHT: NACHT domain	96.25
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	96.24
PF00005	137	ABC_tran: ABC transporter This structure is on hol	96.24
KOG0705	749	consensus GTPase-activating protein Centaurin gamm	96.21
COG4987	573	CydC ABC-type transport system involved in cytochr	96.19
PRK00300	205	gmk guanylate kinase; Provisional	96.19
PF09547	492	Spore_IV_A: Stage IV sporulation protein A (spore_	96.13
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	96.13
KOG0459	501	consensus Polypeptide release factor 3 [Translatio	96.13
PRK08118	167	topology modulation protein; Reviewed	96.11
COG1161	322	Predicted GTPases [General function prediction onl	96.11
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	96.08
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	96.08
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	96.05
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	96.04
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	96.02
PRK07261	171	topology modulation protein; Provisional	96.02
PRK13796	365	GTPase YqeH; Provisional	96.01
COG3840	231	ThiQ ABC-type thiamine transport system, ATPase co	95.99
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	95.98
COG3638	258	ABC-type phosphate/phosphonate transport system, A	95.97
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	95.95
smart00382	148	AAA ATPases associated with a variety of cellular	95.92
PF13555	62	AAA_29: P-loop containing region of AAA domain	95.91
TIGR00958	711	3a01208 Conjugate Transporter-2 (CT2) Family prote	95.9
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	95.88
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	95.86
cd03110	179	Fer4_NifH_child This protein family's function is	95.82
KOG0781	587	consensus Signal recognition particle receptor, al	95.82
COG4988	559	CydD ABC-type transport system involved in cytochr	95.81
COG3842	352	PotA ABC-type spermidine/putrescine transport syst	95.78
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	95.76
cd03257	228	ABC_NikE_OppD_transporters The ABC transporter sub	95.76
PF02263	260	GBP: Guanylate-binding protein, N-terminal domain;	95.75
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	95.75
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	95.75
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	95.74
TIGR00235	207	udk uridine kinase. Model contains a number of lon	95.73
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	95.72
cd03254	229	ABCC_Glucan_exporter_like Glucan exporter ATP-bind	95.69
PRK08181	269	transposase; Validated	95.69
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	95.67
cd03290	218	ABCC_SUR1_N The SUR domain 1. The sulfonylurea rec	95.67
COG1341	398	Predicted GTPase or GTP-binding protein [General f	95.66
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	95.65
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	95.65
COG4525	259	TauB ABC-type taurine transport system, ATPase com	95.64
PF05783	472	DLIC: Dynein light intermediate chain (DLIC); Inte	95.63
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	95.63

>COG1084 Predicted GTPase [General function prediction only]

Probab=99.97  E-value=1.5e-31  Score=225.52  Aligned_cols=225  Identities=21%  Similarity=0.253  Sum_probs=187.9

Q ss_pred             cCCccccccCCcchhhhccccccCCceeeeeecccccccccchHHHHHHHHhhhc-ccccCCCCC-CC---CccChHhhh
Q 025346           10 SFGSLFPHYSTLTAYREIKFGFQGRSSSITCRSNEHQSLVLSEKEVQQQKLWSNQ-REMDLDDGD-EM---EFDDASSFL   84 (254)
Q Consensus        10 ~~~~~~p~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~d~~-~~---~~~~~~~~~   84 (254)
                      .|++|||||++|   ++..++.++++..++++..+.         ....++...+ +.+...++. ..   -....+++.
T Consensus        71 ~id~LhpFY~eL---idvl~d~d~~k~sLs~v~~A~---------~~i~~l~~eYi~~lk~a~~~~~~~~lrR~a~GR~a  138 (346)
T COG1084          71 SLDDLHPFYREL---IDVLVDIDHLKISLSAVSWAS---------KIIEKLAREYIRLLKAAKDPKEANQLRRQAFGRVA  138 (346)
T ss_pred             CccccChHHHHH---HHHHhCHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHhcCCChhHHHHHHHHHHHHHH
Confidence            689999999999   999999999999999998766         4455555555 223333211 11   122346888


Q ss_pred             hhccCCcCCCCCCCchhhhhccccCCCCCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCee
Q 025346           85 SLSEKPDRNMASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQ  164 (254)
Q Consensus        85 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~  164 (254)
                      ++.++....+.++.... .++...+..++..+.+++.|.||+|||||++++.+.+.. +.+||+||.....+++..+..+
T Consensus       139 Siik~i~~~L~fL~~~r-~~l~~LP~Idp~~pTivVaG~PNVGKSSlv~~lT~AkpE-vA~YPFTTK~i~vGhfe~~~~R  216 (346)
T COG1084         139 SIIKKIDDDLEFLRKAR-DHLKKLPAIDPDLPTIVVAGYPNVGKSSLVRKLTTAKPE-VAPYPFTTKGIHVGHFERGYLR  216 (346)
T ss_pred             HHHHHhhHHHHHHHHHH-HHHhcCCCCCCCCCeEEEecCCCCcHHHHHHHHhcCCCc-cCCCCccccceeEeeeecCCce
Confidence            88888888888888886 888899999999999999999999999999999999876 8999999999999999999999


Q ss_pred             EEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCC----CchhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          165 MILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACK----APERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       165 ~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~----~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      ++++||||+.+.+.+.++...+++..+..+..++|+|++|.+.    +.+.+...+.++...+  +.|+++|+||+|..+
T Consensus       217 ~QvIDTPGlLDRPl~ErN~IE~qAi~AL~hl~~~IlF~~D~Se~cgy~lE~Q~~L~~eIk~~f--~~p~v~V~nK~D~~~  294 (346)
T COG1084         217 IQVIDTPGLLDRPLEERNEIERQAILALRHLAGVILFLFDPSETCGYSLEEQISLLEEIKELF--KAPIVVVINKIDIAD  294 (346)
T ss_pred             EEEecCCcccCCChHHhcHHHHHHHHHHHHhcCeEEEEEcCccccCCCHHHHHHHHHHHHHhc--CCCeEEEEecccccc
Confidence            9999999999999999999999999999999999999999987    3455566666666654  389999999999998


Q ss_pred             hHhHHHHHHH
Q 025346          241 PGEIAKKLEV  250 (254)
Q Consensus       241 ~~~~~~~~~~  250 (254)
                      .+.+++....
T Consensus       295 ~e~~~~~~~~  304 (346)
T COG1084         295 EEKLEEIEAS  304 (346)
T ss_pred             hhHHHHHHHH
Confidence            8877766544

>KOG1490 consensus GTP-binding protein CRFG/NOG1 (ODN superfamily) [General function prediction only]

Probab=99.93  E-value=2.8e-27  Score=208.17  Aligned_cols=223  Identities=15%  Similarity=0.227  Sum_probs=184.1

Q ss_pred             CCccccccCCcchhhhccccccCCceeeeeecccccccccchHHHHHHHHhhhcccc-cCCCC----CCCCccChHhhhh
Q 025346           11 FGSLFPHYSTLTAYREIKFGFQGRSSSITCRSNEHQSLVLSEKEVQQQKLWSNQREM-DLDDG----DEMEFDDASSFLS   85 (254)
Q Consensus        11 ~~~~~p~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~d~----~~~~~~~~~~~~~   85 (254)
                      +++|||||++|   ++..|+..+++..+++++.+.         ...+.++..+..+ ...|.    ........+.+..
T Consensus        72 ~~~ihPfy~dL---~~~ly~~dhYk~aLgqv~~ak---------~lv~~vakdyvrLlk~~dSlyrck~lk~aAlgrm~t  139 (620)
T KOG1490|consen   72 LNDIHPFYADL---LNILYDRDHYKIALGQVSTAK---------HLVENVARDYVRLLKYGDSLYRCKQLKRAALGRMAT  139 (620)
T ss_pred             ccccCcchHHH---HHHHhcccHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHH
Confidence            57899999999   999999999999999999887         4445555544222 22222    1112344578888


Q ss_pred             hccCCcCCCCCCCchhhhhccccCCCCCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeE
Q 025346           86 LSEKPDRNMASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQM  165 (254)
Q Consensus        86 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~  165 (254)
                      +.++....+.++.++. +++++.+..++..++++++|.+++|||||+|.+...+.. +.++++||.....++++..-.+|
T Consensus       140 v~k~q~~sl~yLeqVr-qhl~rlPsIDp~trTlllcG~PNVGKSSf~~~vtradve-vqpYaFTTksL~vGH~dykYlrw  217 (620)
T KOG1490|consen  140 IIKRQKSSLEYLEQVR-QHLSRLPAIDPNTRTLLVCGYPNVGKSSFNNKVTRADDE-VQPYAFTTKLLLVGHLDYKYLRW  217 (620)
T ss_pred             HHHHhcchHHHHHHHH-HHHhcCCCCCCCcCeEEEecCCCCCcHhhcccccccccc-cCCcccccchhhhhhhhhheeee
Confidence            9999999999999998 888899999999999999999999999999999988876 89999999999999999999999


Q ss_pred             EEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCC----chhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          166 ILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKA----PERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       166 ~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~----~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      +++||||+.+.+.+..+...+..+.+..+.-.+|+|++|.+..    .......+ .-++....+.|+|+|+||||++.+
T Consensus       218 QViDTPGILD~plEdrN~IEmqsITALAHLraaVLYfmDLSe~CGySva~QvkLf-hsIKpLFaNK~~IlvlNK~D~m~~  296 (620)
T KOG1490|consen  218 QVIDTPGILDRPEEDRNIIEMQIITALAHLRSAVLYFMDLSEMCGYSVAAQVKLY-HSIKPLFANKVTILVLNKIDAMRP  296 (620)
T ss_pred             eecCCccccCcchhhhhHHHHHHHHHHHHhhhhheeeeechhhhCCCHHHHHHHH-HHhHHHhcCCceEEEeecccccCc
Confidence            9999999999999999999989989999999999999999872    23333333 345555678999999999999998


Q ss_pred             HhHHHHH
Q 025346          242 GEIAKKL  248 (254)
Q Consensus       242 ~~~~~~~  248 (254)
                      +.+.+.-
T Consensus       297 edL~~~~  303 (620)
T KOG1490|consen  297 EDLDQKN  303 (620)
T ss_pred             cccCHHH
Confidence            8775443

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=99.90  E-value=5.8e-24  Score=187.69  Aligned_cols=222  Identities=23%  Similarity=0.223  Sum_probs=159.4

Q ss_pred             CCccccccCCcchhhhccccccCCceeeeeecc---------------cccccccchHHHHHHHHhhhcccccCCCCCCC
Q 025346           11 FGSLFPHYSTLTAYREIKFGFQGRSSSITCRSN---------------EHQSLVLSEKEVQQQKLWSNQREMDLDDGDEM   75 (254)
Q Consensus        11 ~~~~~p~~~~l~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~   75 (254)
                      .|=..|.++.-+||+|.+.++.+......-+..               .....-.+........++.-+..++|+++ +.
T Consensus       104 aR~AepGEFs~RAFLNgK~DLtqAEai~dLI~A~te~a~r~A~~~l~G~ls~~i~~lr~~li~~~a~vEa~IDfpee-di  182 (454)
T COG0486         104 ARLAEPGEFSKRAFLNGKLDLTQAEAIADLIDAKTEQAARIALRQLQGALSQLINELREALLELLAQVEANIDFPEE-DI  182 (454)
T ss_pred             CeecCCCcchHHHHhcCCccHHHHHHHHHHHhCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHHheEeCCCCcc-cc
Confidence            567899999999999999998774432222211               11111112222233334445666889997 66


Q ss_pred             CccChHhhhhhccCCcCCC-CCCCchhhhhccccCCCCCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEE
Q 025346           76 EFDDASSFLSLSEKPDRNM-ASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRI  154 (254)
Q Consensus        76 ~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~~~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~  154 (254)
                      +......+....+.....+ .++.....      ......+.+++++|.||+|||||+|.+++.+.+++++.|+||++.+
T Consensus       183 ~~~~~~~i~~~l~~~~~~l~~ll~~~~~------g~ilr~G~kvvIiG~PNvGKSSLLNaL~~~d~AIVTdI~GTTRDvi  256 (454)
T COG0486         183 EELVLEKIREKLEELIAELDELLATAKQ------GKILREGLKVVIIGRPNVGKSSLLNALLGRDRAIVTDIAGTTRDVI  256 (454)
T ss_pred             cchhHHHHHHHHHHHHHHHHHHHHhhhh------hhhhhcCceEEEECCCCCcHHHHHHHHhcCCceEecCCCCCccceE
Confidence            6555544444333332222 22222221      1234567899999999999999999999999999999999999999


Q ss_pred             EEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEe
Q 025346          155 LGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLN  234 (254)
Q Consensus       155 ~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~n  234 (254)
                      ...++.+|.++.++||+|+.+. ...++....+.....+..||.|+||+|++......+..+.+   ....+.|+++|.|
T Consensus       257 ee~i~i~G~pv~l~DTAGiRet-~d~VE~iGIeRs~~~i~~ADlvL~v~D~~~~~~~~d~~~~~---~~~~~~~~i~v~N  332 (454)
T COG0486         257 EEDINLNGIPVRLVDTAGIRET-DDVVERIGIERAKKAIEEADLVLFVLDASQPLDKEDLALIE---LLPKKKPIIVVLN  332 (454)
T ss_pred             EEEEEECCEEEEEEecCCcccC-ccHHHHHHHHHHHHHHHhCCEEEEEEeCCCCCchhhHHHHH---hcccCCCEEEEEe
Confidence            9999999999999999999754 46777888888889999999999999999975555544444   2356799999999


Q ss_pred             cCCCCChHh
Q 025346          235 KKDLIKPGE  243 (254)
Q Consensus       235 K~Dl~~~~~  243 (254)
                      |+||..+..
T Consensus       333 K~DL~~~~~  341 (454)
T COG0486         333 KADLVSKIE  341 (454)
T ss_pred             chhcccccc
Confidence            999988654

>COG1159 Era GTPase [General function prediction only]

Probab=99.86  E-value=6.9e-21  Score=159.72  Aligned_cols=128  Identities=48%  Similarity=0.693  Sum_probs=113.6

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      .+...++++|.|++|||||+|++++.+.+++++.+.||+..+.+....+..++.|+||||+-.+ ...+...+.......
T Consensus         4 ~ksGfVaIiGrPNvGKSTLlN~l~G~KisIvS~k~QTTR~~I~GI~t~~~~QiIfvDTPGih~p-k~~l~~~m~~~a~~s   82 (298)
T COG1159           4 FKSGFVAIIGRPNVGKSTLLNALVGQKISIVSPKPQTTRNRIRGIVTTDNAQIIFVDTPGIHKP-KHALGELMNKAARSA   82 (298)
T ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhcCceEeecCCcchhhhheeEEEEcCCceEEEEeCCCCCCc-chHHHHHHHHHHHHH
Confidence            4567899999999999999999999999999999999999999999999999999999998665 566777777888888


Q ss_pred             ccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          193 GINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      +..+|+|+||+|+.+.+..-+++..+.++.  .+.|+++++||+|..++..
T Consensus        83 l~dvDlilfvvd~~~~~~~~d~~il~~lk~--~~~pvil~iNKID~~~~~~  131 (298)
T COG1159          83 LKDVDLILFVVDADEGWGPGDEFILEQLKK--TKTPVILVVNKIDKVKPKT  131 (298)
T ss_pred             hccCcEEEEEEeccccCCccHHHHHHHHhh--cCCCeEEEEEccccCCcHH
Confidence            999999999999999887777776666553  4689999999999998877

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.85  E-value=1.7e-20  Score=165.38  Aligned_cols=126  Identities=35%  Similarity=0.500  Sum_probs=114.1

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccC
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGIN  195 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~  195 (254)
                      +.|+++|.||+|||||+|++++.+.+++++.|++|++...+...+.+..+.++||+|+.....+.+.....++....+..
T Consensus         4 ~~VAIVGRPNVGKSTLFNRL~g~r~AIV~D~pGvTRDr~y~~~~~~~~~f~lIDTgGl~~~~~~~l~~~i~~Qa~~Ai~e   83 (444)
T COG1160           4 PVVAIVGRPNVGKSTLFNRLTGRRIAIVSDTPGVTRDRIYGDAEWLGREFILIDTGGLDDGDEDELQELIREQALIAIEE   83 (444)
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCeeeEeecCCCCccCCccceeEEcCceEEEEECCCCCcCCchHHHHHHHHHHHHHHHh
Confidence            67999999999999999999999999999999999999999999999999999999998666567777888888899999


Q ss_pred             ccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          196 ADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       196 ~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      ||+++||+|...+.+..++.+..+++  ..+.|+++|+||+|-...++
T Consensus        84 ADvilfvVD~~~Git~~D~~ia~~Lr--~~~kpviLvvNK~D~~~~e~  129 (444)
T COG1160          84 ADVILFVVDGREGITPADEEIAKILR--RSKKPVILVVNKIDNLKAEE  129 (444)
T ss_pred             CCEEEEEEeCCCCCCHHHHHHHHHHH--hcCCCEEEEEEcccCchhhh
Confidence            99999999999998888888888777  45799999999999985443

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=99.85  E-value=6.3e-21  Score=172.69  Aligned_cols=216  Identities=24%  Similarity=0.231  Sum_probs=139.3

Q ss_pred             CCccccccCCcchhhhccccccCCceeeeeecc---c------------ccccccchHHHHHHHHhhhcccccCCCCCCC
Q 025346           11 FGSLFPHYSTLTAYREIKFGFQGRSSSITCRSN---E------------HQSLVLSEKEVQQQKLWSNQREMDLDDGDEM   75 (254)
Q Consensus        11 ~~~~~p~~~~l~~~~~~~~~~~~~~~~~~~~~~---~------------~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~   75 (254)
                      .|-..|.+.+-+||+|.+-++.+......-+..   .            ......+..+....-++.-+..++|+||+ .
T Consensus        94 ~R~A~pGEFT~RAflNGk~DL~qaEav~dlI~a~t~~~~~~A~~~l~G~ls~~~~~~r~~l~~~~a~iea~iDf~ee~-~  172 (442)
T TIGR00450        94 ARLAQPGEFTQRAFLNGKMDLTQAEAINELILAPNNKVKDIALNKLAGELDQKIEAIRKSLLQLLAQVEVNIDYEEDD-D  172 (442)
T ss_pred             CeEcCCchhhHHHHhcCCccHHHHHHHHHHHhCCCHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHHeeEECCcCCCC-c
Confidence            567889999999999999998874433222222   1            11111122222233334445668899864 2


Q ss_pred             CccChHhhhhhccCCcCCC-CCCCchhhhhccccCCCCCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEE
Q 025346           76 EFDDASSFLSLSEKPDRNM-ASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRI  154 (254)
Q Consensus        76 ~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~~~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~  154 (254)
                      +.   ..+..........+ .++..+..       .....+.+++++|.+|+|||||+|++++.....+++++++|++..
T Consensus       173 ~~---~~~~~~l~~~~~~l~~ll~~~~~-------~~~~~g~kVvIvG~~nvGKSSLiN~L~~~~~aivs~~pgtTrd~~  242 (442)
T TIGR00450       173 EQ---DSLNQLLLSIIAELKDILNSYKL-------EKLDDGFKLAIVGSPNVGKSSLLNALLKQDRAIVSDIKGTTRDVV  242 (442)
T ss_pred             cH---HHHHHHHHHHHHHHHHHHHHHHH-------HHhhcCCEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCcEEEEE
Confidence            21   12222222111111 11222210       122446789999999999999999999988777899999999988


Q ss_pred             EEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEe
Q 025346          155 LGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLN  234 (254)
Q Consensus       155 ~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~n  234 (254)
                      ...+..++.++.+|||||+.+.. ..++.........++..+|++++|+|+++.......++....   ..+.|+++|+|
T Consensus       243 ~~~i~~~g~~v~l~DTaG~~~~~-~~ie~~gi~~~~~~~~~aD~il~V~D~s~~~s~~~~~l~~~~---~~~~piIlV~N  318 (442)
T TIGR00450       243 EGDFELNGILIKLLDTAGIREHA-DFVERLGIEKSFKAIKQADLVIYVLDASQPLTKDDFLIIDLN---KSKKPFILVLN  318 (442)
T ss_pred             EEEEEECCEEEEEeeCCCcccch-hHHHHHHHHHHHHHHhhCCEEEEEEECCCCCChhHHHHHHHh---hCCCCEEEEEE
Confidence            88888888999999999975432 222333334455678899999999999875543333443322   24689999999


Q ss_pred             cCCCCCh
Q 025346          235 KKDLIKP  241 (254)
Q Consensus       235 K~Dl~~~  241 (254)
                      |+|+...
T Consensus       319 K~Dl~~~  325 (442)
T TIGR00450       319 KIDLKIN  325 (442)
T ss_pred             CccCCCc
Confidence            9999754

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.

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=99.83  E-value=1.2e-20  Score=171.62  Aligned_cols=220  Identities=25%  Similarity=0.249  Sum_probs=138.6

Q ss_pred             CCccccccCCcchhhhccccccCCceeeeeecc---------------cccccccchHHHHHHHHhhhcccccCCCCCCC
Q 025346           11 FGSLFPHYSTLTAYREIKFGFQGRSSSITCRSN---------------EHQSLVLSEKEVQQQKLWSNQREMDLDDGDEM   75 (254)
Q Consensus        11 ~~~~~p~~~~l~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~   75 (254)
                      .|-.-|.+.+.+||+|.+-++.+......-+..               ..........+.....++.-+..++|++|+..
T Consensus       102 ~r~A~pGEFt~RAflngk~dL~qaEai~~li~a~t~~~~~~al~~l~G~l~~~~~~~r~~l~~~~a~iea~iDf~ee~~~  181 (449)
T PRK05291        102 ARLAEPGEFTKRAFLNGKLDLTQAEAIADLIDAKTEAAARLALRQLQGALSKLINELREELLELLALVEAAIDFPEEDIE  181 (449)
T ss_pred             CEEccCccchHHHHhcCCcCHHHHHHHHHHHhCCCHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHHheEEccCCCCCcc
Confidence            566789999999999999997774433332222               11111111111122222333555888886443


Q ss_pred             CccChHhhhhhccCCcCCC-CCCCchhhhhccccCCCCCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEE
Q 025346           76 EFDDASSFLSLSEKPDRNM-ASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRI  154 (254)
Q Consensus        76 ~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~~~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~  154 (254)
                       ......+..........+ .++.+....      .....+.+++++|.+|+|||||+|++++.+...+++.+++|++..
T Consensus       182 -~~~~~~i~~~i~~l~~~l~~l~~~~~~~------~~~~~~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~  254 (449)
T PRK05291        182 -FLSDEKILEKLEELIAELEALLASARQG------EILREGLKVVIAGRPNVGKSSLLNALLGEERAIVTDIAGTTRDVI  254 (449)
T ss_pred             -cccHHHHHHHHHHHHHHHHHHHHHHHHH------HHhhcCCEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCcccccE
Confidence             233333333333322222 111111110      012335789999999999999999999988777889999999888


Q ss_pred             EEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHH-HHHHHhhcccCCCCCEEEEE
Q 025346          155 LGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERID-EILEEGVGDHKDKLPILLVL  233 (254)
Q Consensus       155 ~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~-~~~~~~~~~~~~~~piivV~  233 (254)
                      ...+..++.++.+|||||+.+. ...++.........++..+|++++|+|+++...... ..+..     ..+.|+++|+
T Consensus       255 ~~~i~~~g~~i~l~DT~G~~~~-~~~ie~~gi~~~~~~~~~aD~il~VvD~s~~~s~~~~~~l~~-----~~~~piiiV~  328 (449)
T PRK05291        255 EEHINLDGIPLRLIDTAGIRET-DDEVEKIGIERSREAIEEADLVLLVLDASEPLTEEDDEILEE-----LKDKPVIVVL  328 (449)
T ss_pred             EEEEEECCeEEEEEeCCCCCCC-ccHHHHHHHHHHHHHHHhCCEEEEEecCCCCCChhHHHHHHh-----cCCCCcEEEE
Confidence            8877778889999999997542 223333333445567899999999999987543222 22221     4568999999


Q ss_pred             ecCCCCChHh
Q 025346          234 NKKDLIKPGE  243 (254)
Q Consensus       234 nK~Dl~~~~~  243 (254)
                      ||+|+.+...
T Consensus       329 NK~DL~~~~~  338 (449)
T PRK05291        329 NKADLTGEID  338 (449)
T ss_pred             Ehhhccccch
Confidence            9999976543

>TIGR00436 era GTP-binding protein Era

Probab=99.83  E-value=2.4e-19  Score=153.22  Aligned_cols=128  Identities=44%  Similarity=0.556  Sum_probs=98.8

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINA  196 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~  196 (254)
                      +|+++|.+|+|||||+|++++.++..+++.++||+....+.....+.++.+|||||+.... ..+...+.......+..+
T Consensus         2 ~V~liG~pnvGKSTLln~L~~~~~~~vs~~~~TTr~~i~~i~~~~~~qii~vDTPG~~~~~-~~l~~~~~~~~~~~l~~a   80 (270)
T TIGR00436         2 FVAILGRPNVGKSTLLNQLHGQKISITSPKAQTTRNRISGIHTTGASQIIFIDTPGFHEKK-HSLNRLMMKEARSAIGGV   80 (270)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcEeecCCCCCcccCcEEEEEEcCCcEEEEEECcCCCCCc-chHHHHHHHHHHHHHhhC
Confidence            6899999999999999999999988889999999988877777777889999999986542 333444445566778999


Q ss_pred             cEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHHHH
Q 025346          197 DCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKL  248 (254)
Q Consensus       197 d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~~~  248 (254)
                      |++++|+|+++..... ..+...+.  ..+.|+++|+||+|+..++++....
T Consensus        81 Dvvl~VvD~~~~~~~~-~~i~~~l~--~~~~p~ilV~NK~Dl~~~~~~~~~~  129 (270)
T TIGR00436        81 DLILFVVDSDQWNGDG-EFVLTKLQ--NLKRPVVLTRNKLDNKFKDKLLPLI  129 (270)
T ss_pred             CEEEEEEECCCCCchH-HHHHHHHH--hcCCCEEEEEECeeCCCHHHHHHHH
Confidence            9999999998854433 33333333  2468999999999998766554433

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

>PRK00089 era GTPase Era; Reviewed

Probab=99.80  E-value=1.8e-18  Score=149.40  Aligned_cols=135  Identities=47%  Similarity=0.661  Sum_probs=103.8

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      +...|+++|.+|+|||||+|++++.++..+++.+.||+....+....++.++.++||||+.... ..+...+.......+
T Consensus         4 ~~g~V~iiG~pn~GKSTLin~L~g~~~~~vs~~~~tt~~~i~~i~~~~~~qi~~iDTPG~~~~~-~~l~~~~~~~~~~~~   82 (292)
T PRK00089          4 KSGFVAIVGRPNVGKSTLLNALVGQKISIVSPKPQTTRHRIRGIVTEDDAQIIFVDTPGIHKPK-RALNRAMNKAAWSSL   82 (292)
T ss_pred             eeEEEEEECCCCCCHHHHHHHHhCCceeecCCCCCcccccEEEEEEcCCceEEEEECCCCCCch-hHHHHHHHHHHHHHH
Confidence            4668999999999999999999999988888999999888887777667899999999986543 333444445555668


Q ss_pred             cCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCC-ChHhHHHHHHHH
Q 025346          194 INADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLI-KPGEIAKKLEVT  251 (254)
Q Consensus       194 ~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~-~~~~~~~~~~~~  251 (254)
                      ..+|++++|+|+++........+...+.  ..+.|+++|+||+|+. +..++....+.+
T Consensus        83 ~~~D~il~vvd~~~~~~~~~~~i~~~l~--~~~~pvilVlNKiDl~~~~~~l~~~~~~l  139 (292)
T PRK00089         83 KDVDLVLFVVDADEKIGPGDEFILEKLK--KVKTPVILVLNKIDLVKDKEELLPLLEEL  139 (292)
T ss_pred             hcCCEEEEEEeCCCCCChhHHHHHHHHh--hcCCCEEEEEECCcCCCCHHHHHHHHHHH
Confidence            8999999999999865555444444443  2368999999999999 445555544443

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

Probab=99.80  E-value=5e-19  Score=139.43  Aligned_cols=122  Identities=19%  Similarity=0.202  Sum_probs=96.4

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEE--EEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRH--RILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~--~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      ..||+++|.+|+|||.|+.+|.+..+.. +.......+  .....+++...++++|||+|  +.++       +..+..+
T Consensus         9 lFKiiliGds~VGKtCL~~Rf~~~~f~e-~~~sTIGVDf~~rt~e~~gk~iKlQIWDTAG--QERF-------rtit~sy   78 (205)
T KOG0084|consen    9 LFKIILIGDSGVGKTCLLLRFKDDTFTE-SYISTIGVDFKIRTVELDGKTIKLQIWDTAG--QERF-------RTITSSY   78 (205)
T ss_pred             EEEEEEECCCCcChhhhhhhhccCCcch-hhcceeeeEEEEEEeeecceEEEEEeeeccc--cHHH-------hhhhHhh
Confidence            4589999999999999999999988752 111111222  22334556678999999999  4443       3556788


Q ss_pred             ccCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHH
Q 025346          193 GINADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAK  246 (254)
Q Consensus       193 ~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~  246 (254)
                      +++|++||+|+|+++  ++..+..|+.++-+....++|.++|+||||+.+...++.
T Consensus        79 YR~ahGii~vyDiT~~~SF~~v~~Wi~Ei~~~~~~~v~~lLVGNK~Dl~~~~~v~~  134 (205)
T KOG0084|consen   79 YRGAHGIIFVYDITKQESFNNVKRWIQEIDRYASENVPKLLVGNKCDLTEKRVVST  134 (205)
T ss_pred             ccCCCeEEEEEEcccHHHhhhHHHHHHHhhhhccCCCCeEEEeeccccHhheecCH
Confidence            999999999999987  788999999999888888899999999999998876654

>PRK15494 era GTPase Era; Provisional

Probab=99.79  E-value=2.8e-18  Score=150.95  Aligned_cols=126  Identities=39%  Similarity=0.544  Sum_probs=97.7

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      .+..+++++|.+|+|||||+|++++.++..+++.+.+|+....+.+..++.++.+|||||+... ...+...+.......
T Consensus        50 ~k~~kV~ivG~~nvGKSTLin~l~~~k~~ivs~k~~tTr~~~~~~~~~~~~qi~~~DTpG~~~~-~~~l~~~~~r~~~~~  128 (339)
T PRK15494         50 QKTVSVCIIGRPNSGKSTLLNRIIGEKLSIVTPKVQTTRSIITGIITLKDTQVILYDTPGIFEP-KGSLEKAMVRCAWSS  128 (339)
T ss_pred             cceeEEEEEcCCCCCHHHHHHHHhCCceeeccCCCCCccCcEEEEEEeCCeEEEEEECCCcCCC-cccHHHHHHHHHHHH
Confidence            4556999999999999999999999998878888899988777777788889999999997543 233444444444455


Q ss_pred             ccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          193 GINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      +..+|++++|+|+++++......+...+..  .+.|.++|+||+|+...
T Consensus       129 l~~aDvil~VvD~~~s~~~~~~~il~~l~~--~~~p~IlViNKiDl~~~  175 (339)
T PRK15494        129 LHSADLVLLIIDSLKSFDDITHNILDKLRS--LNIVPIFLLNKIDIESK  175 (339)
T ss_pred             hhhCCEEEEEEECCCCCCHHHHHHHHHHHh--cCCCEEEEEEhhcCccc
Confidence            789999999999988777665544443332  35688899999999754

>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=99.78  E-value=7.1e-18  Score=125.88  Aligned_cols=116  Identities=39%  Similarity=0.534  Sum_probs=87.8

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINA  196 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~  196 (254)
                      +|+++|.+|+|||||+|.+++.+...++..+++|.......+...+..+.++||||+.+.............+...+..+
T Consensus         1 ~V~iiG~~~~GKSTlin~l~~~~~~~~~~~~~~T~~~~~~~~~~~~~~~~~vDtpG~~~~~~~~~~~~~~~~~~~~~~~~   80 (116)
T PF01926_consen    1 RVAIIGRPNVGKSTLINALTGKKLAKVSNIPGTTRDPVYGQFEYNNKKFILVDTPGINDGESQDNDGKEIRKFLEQISKS   80 (116)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSTSSEESSSTTSSSSEEEEEEEETTEEEEEEESSSCSSSSHHHHHHHHHHHHHHHHCTE
T ss_pred             CEEEECCCCCCHHHHHHHHhccccccccccccceeeeeeeeeeeceeeEEEEeCCCCcccchhhHHHHHHHHHHHHHHHC
Confidence            58999999999999999999977767889999998887777777888899999999876543333222334455666999


Q ss_pred             cEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEec
Q 025346          197 DCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNK  235 (254)
Q Consensus       197 d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK  235 (254)
                      |+++||+|+++........+...+   ..+.|+++|+||
T Consensus        81 d~ii~vv~~~~~~~~~~~~~~~~l---~~~~~~i~v~NK  116 (116)
T PF01926_consen   81 DLIIYVVDASNPITEDDKNILREL---KNKKPIILVLNK  116 (116)
T ss_dssp             SEEEEEEETTSHSHHHHHHHHHHH---HTTSEEEEEEES
T ss_pred             CEEEEEEECCCCCCHHHHHHHHHH---hcCCCEEEEEcC
Confidence            999999998774333333332223   267999999998

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 ....

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

Probab=99.78  E-value=7.4e-18  Score=133.35  Aligned_cols=129  Identities=25%  Similarity=0.371  Sum_probs=87.6

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccC
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGIN  195 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~  195 (254)
                      ++++++|.+|+|||||++++.+..+. +..++++|...........+..+.+|||||+.+....................
T Consensus         1 ~~i~~~G~~~~GKssli~~l~~~~~~-~~~~~~~t~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~   79 (168)
T cd01897           1 PTLVIAGYPNVGKSSLVNKLTRAKPE-VAPYPFTTKSLFVGHFDYKYLRWQVIDTPGLLDRPLEERNTIEMQAITALAHL   79 (168)
T ss_pred             CeEEEEcCCCCCHHHHHHHHhcCCCc-cCCCCCcccceeEEEEccCceEEEEEECCCcCCccccCCchHHHHHHHHHHhc
Confidence            47999999999999999999998764 45567777776666666677899999999975422111111111112222334


Q ss_pred             ccEEEEEEeCCCCc----hhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHH
Q 025346          196 ADCIVVLVDACKAP----ERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAK  246 (254)
Q Consensus       196 ~d~iv~vid~~~~~----~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~  246 (254)
                      +|++++|+|+++..    .....++..+... ..+.|+++|+||+|+...+.+.+
T Consensus        80 ~d~~l~v~d~~~~~~~~~~~~~~~~~~l~~~-~~~~pvilv~NK~Dl~~~~~~~~  133 (168)
T cd01897          80 RAAVLFLFDPSETCGYSLEEQLSLFEEIKPL-FKNKPVIVVLNKIDLLTFEDLSE  133 (168)
T ss_pred             cCcEEEEEeCCcccccchHHHHHHHHHHHhh-cCcCCeEEEEEccccCchhhHHH
Confidence            68999999998632    2333444444332 24799999999999987766543

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.

>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=99.78  E-value=4.8e-19  Score=138.08  Aligned_cols=120  Identities=33%  Similarity=0.395  Sum_probs=87.9

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINA  196 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~  196 (254)
                      +|+++|.|++|||||+|++++.+.. ++++|++|.+...+.+...+..+.++||||+.+....+.+......+.. ...+
T Consensus         2 ~ialvG~PNvGKStLfN~Ltg~~~~-v~n~pG~Tv~~~~g~~~~~~~~~~lvDlPG~ysl~~~s~ee~v~~~~l~-~~~~   79 (156)
T PF02421_consen    2 RIALVGNPNVGKSTLFNALTGAKQK-VGNWPGTTVEKKEGIFKLGDQQVELVDLPGIYSLSSKSEEERVARDYLL-SEKP   79 (156)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTTSEE-EEESTTSSSEEEEEEEEETTEEEEEEE----SSSSSSSHHHHHHHHHHH-HTSS
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCce-ecCCCCCCeeeeeEEEEecCceEEEEECCCcccCCCCCcHHHHHHHHHh-hcCC
Confidence            6899999999999999999999954 8999999999999999988999999999997554333333322222211 4789


Q ss_pred             cEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          197 DCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       197 d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      |+++.|+|+++. +.......+++   ..++|+++|+||+|+....
T Consensus        80 D~ii~VvDa~~l-~r~l~l~~ql~---e~g~P~vvvlN~~D~a~~~  121 (156)
T PF02421_consen   80 DLIIVVVDATNL-ERNLYLTLQLL---ELGIPVVVVLNKMDEAERK  121 (156)
T ss_dssp             SEEEEEEEGGGH-HHHHHHHHHHH---HTTSSEEEEEETHHHHHHT
T ss_pred             CEEEEECCCCCH-HHHHHHHHHHH---HcCCCEEEEEeCHHHHHHc
Confidence            999999999883 32223333333   3479999999999997653

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 ....

>cd04163 Era Era subfamily

Probab=99.77  E-value=2.6e-17  Score=128.92  Aligned_cols=133  Identities=46%  Similarity=0.657  Sum_probs=96.8

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      ..+++++|.+|+|||||+|++++.+.....+.+.++...........+..+.+|||||+..... .....+.......+.
T Consensus         3 ~~~i~~~G~~g~GKttl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~~~~~-~~~~~~~~~~~~~~~   81 (168)
T cd04163           3 SGFVAIVGRPNVGKSTLLNALVGQKISIVSPKPQTTRNRIRGIYTDDDAQIIFVDTPGIHKPKK-KLGERMVKAAWSALK   81 (168)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCceEeccCCCCceeceEEEEEEcCCeEEEEEECCCCCcchH-HHHHHHHHHHHHHHH
Confidence            4689999999999999999999998776777777777776666667778899999999765432 222223334455678


Q ss_pred             CccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCC-ChHhHHHHHHH
Q 025346          195 NADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLI-KPGEIAKKLEV  250 (254)
Q Consensus       195 ~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~-~~~~~~~~~~~  250 (254)
                      .+|++++|+|+++........+...+..  .+.|+++|+||+|+. ..+++.+....
T Consensus        82 ~~d~i~~v~d~~~~~~~~~~~~~~~~~~--~~~~~iiv~nK~Dl~~~~~~~~~~~~~  136 (168)
T cd04163          82 DVDLVLFVVDASEPIGEGDEFILELLKK--SKTPVILVLNKIDLVKDKEDLLPLLEK  136 (168)
T ss_pred             hCCEEEEEEECCCccCchHHHHHHHHHH--hCCCEEEEEEchhccccHHHHHHHHHH
Confidence            9999999999998644444444343332  368999999999998 45555444433

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.

>cd04120 Rab12 Rab12 subfamily

Probab=99.76  E-value=1.5e-17  Score=136.10  Aligned_cols=117  Identities=19%  Similarity=0.246  Sum_probs=84.0

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCc-eEEEEEEEEe--cCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQT-TRHRILGICS--GPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~t-t~~~~~~~~~--~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .|+++|..|+|||||++++....+.  ..+..| +.+.....+.  +....+.+|||+|  +..+.       ..+..++
T Consensus         2 ~vvvlG~~gVGKTSli~r~~~~~f~--~~~~~Ti~~~~~~~~i~~~~~~v~l~iwDtaG--qe~~~-------~l~~~y~   70 (202)
T cd04120           2 QVIIIGSRGVGKTSLMRRFTDDTFC--EACKSGVGVDFKIKTVELRGKKIRLQIWDTAG--QERFN-------SITSAYY   70 (202)
T ss_pred             EEEEECcCCCCHHHHHHHHHhCCCC--CcCCCcceeEEEEEEEEECCEEEEEEEEeCCC--chhhH-------HHHHHHh
Confidence            4899999999999999999988874  233333 2233322233  3347899999999  33322       3345668


Q ss_pred             cCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhH
Q 025346          194 INADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEI  244 (254)
Q Consensus       194 ~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~  244 (254)
                      +++|++|+|+|+++  +++.+..|+..+.+....+.|+++|+||+|+...+++
T Consensus        71 ~~ad~iIlVfDvtd~~Sf~~l~~w~~~i~~~~~~~~piilVgNK~DL~~~~~v  123 (202)
T cd04120          71 RSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDREI  123 (202)
T ss_pred             cCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECccccccccc
Confidence            99999999999988  4666777776554444467999999999999765544

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

>cd01894 EngA1 EngA1 subfamily

Probab=99.76  E-value=1.8e-17  Score=129.23  Aligned_cols=123  Identities=35%  Similarity=0.467  Sum_probs=92.2

Q ss_pred             EEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccE
Q 025346          119 AVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADC  198 (254)
Q Consensus       119 ~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~  198 (254)
                      +++|.+|+|||||++++++.........+++|...........+..+.+|||||+..... .+...+...+...+..+|+
T Consensus         1 ~l~G~~~~GKssl~~~l~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~DtpG~~~~~~-~~~~~~~~~~~~~~~~~d~   79 (157)
T cd01894           1 AIVGRPNVGKSTLFNRLTGRRDAIVEDTPGVTRDRIYGEAEWGGREFILIDTGGIEPDDE-GISKEIREQAELAIEEADV   79 (157)
T ss_pred             CccCCCCCCHHHHHHHHhCCcEEeecCCCCceeCceeEEEEECCeEEEEEECCCCCCchh-HHHHHHHHHHHHHHHhCCE
Confidence            478999999999999999987655677888888777777777788999999999765432 2333343455566788999


Q ss_pred             EEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhH
Q 025346          199 IVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEI  244 (254)
Q Consensus       199 iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~  244 (254)
                      +++|+|+.+........+...++.  .+.|+++|+||+|+...+..
T Consensus        80 ii~v~d~~~~~~~~~~~~~~~~~~--~~~piiiv~nK~D~~~~~~~  123 (157)
T cd01894          80 ILFVVDGREGLTPADEEIAKYLRK--SKKPVILVVNKVDNIKEEDE  123 (157)
T ss_pred             EEEEEeccccCCccHHHHHHHHHh--cCCCEEEEEECcccCChHHH
Confidence            999999987554444444444432  35899999999999887654

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.

>KOG1191 consensus Mitochondrial GTPase [Translation, ribosomal structure and biogenesis]

Probab=99.76  E-value=1.8e-18  Score=152.97  Aligned_cols=224  Identities=25%  Similarity=0.254  Sum_probs=147.2

Q ss_pred             CCccccccCCcchhhhccccccCCceeeeeecc---cccccccc------------hHHHHHHHHhhhcccccCCCCCCC
Q 025346           11 FGSLFPHYSTLTAYREIKFGFQGRSSSITCRSN---EHQSLVLS------------EKEVQQQKLWSNQREMDLDDGDEM   75 (254)
Q Consensus        11 ~~~~~p~~~~l~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~------------~~~~~~~~~~~~~~~~~~~d~~~~   75 (254)
                      .+-+-|.++...+|.|...++.+....+.-+..   +.+..++.            +.......++.-.-.++|.++...
T Consensus       154 ir~a~~geft~Raf~ngk~~Ltq~eg~~~lI~a~t~~q~~~Al~~v~g~~~~l~~~~r~~lIe~~a~l~a~idf~e~~~l  233 (531)
T KOG1191|consen  154 IRLAEPGEFTRRAFLNGKLDLTQAEGIIDLIVAETESQRRAALDEVAGEALALCFGWRKILIEALAGLEARIDFEEERPL  233 (531)
T ss_pred             ccccCchhhhhhhhhccccchhhhcChhhhhhhhhHhhhhhhhhhhcchhHHhhhhHHHHHHHHHhccceeechhhcCch
Confidence            345678899999999999998776655443332   22211111            222222233333344566654333


Q ss_pred             CccChHhhhhhccCCcCCCCCCCchhhhhc--cccCCCCCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEE
Q 025346           76 EFDDASSFLSLSEKPDRNMASPDDYEIEEF--DYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHR  153 (254)
Q Consensus        76 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~~~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~  153 (254)
                      +......+..-...      ++.++. .++  .........+..++++|.||+|||||+|.+...+..++++.++||++.
T Consensus       234 ~~~~t~~~~~~~~~------l~d~v~-s~l~~~~~~e~lq~gl~iaIvGrPNvGKSSLlNaL~~~drsIVSpv~GTTRDa  306 (531)
T KOG1191|consen  234 EEIETVEIFIESLS------LLDDVL-SHLNKADEIERLQSGLQIAIVGRPNVGKSSLLNALSREDRSIVSPVPGTTRDA  306 (531)
T ss_pred             hhccchhhhhHHHH------HHHHHH-HHHHhhhhHHHhhcCCeEEEEcCCCCCHHHHHHHHhcCCceEeCCCCCcchhh
Confidence            32222211111111      111111 111  111223345678999999999999999999999999999999999999


Q ss_pred             EEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCc----hhHHHHHHHhhcccC-----
Q 025346          154 ILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAP----ERIDEILEEGVGDHK-----  224 (254)
Q Consensus       154 ~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~----~~~~~~~~~~~~~~~-----  224 (254)
                      +...++..|+++.++||+|+.+.....++....+.....+..+|+|++|+|+..+.    ..+...+...-....     
T Consensus       307 iea~v~~~G~~v~L~DTAGiRe~~~~~iE~~gI~rA~k~~~~advi~~vvda~~~~t~sd~~i~~~l~~~~~g~~~~~~~  386 (531)
T KOG1191|consen  307 IEAQVTVNGVPVRLSDTAGIREESNDGIEALGIERARKRIERADVILLVVDAEESDTESDLKIARILETEGVGLVVIVNK  386 (531)
T ss_pred             heeEeecCCeEEEEEeccccccccCChhHHHhHHHHHHHHhhcCEEEEEecccccccccchHHHHHHHHhccceEEEecc
Confidence            99999999999999999999886667777777788888899999999999994422    222333333222111     


Q ss_pred             -CCCCEEEEEecCCCCCh
Q 025346          225 -DKLPILLVLNKKDLIKP  241 (254)
Q Consensus       225 -~~~piivV~nK~Dl~~~  241 (254)
                       .+.|++++.||.|+..+
T Consensus       387 ~~~~~~i~~~nk~D~~s~  404 (531)
T KOG1191|consen  387 MEKQRIILVANKSDLVSK  404 (531)
T ss_pred             ccccceEEEechhhccCc
Confidence             34799999999999876

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

Probab=99.76  E-value=1.8e-17  Score=130.39  Aligned_cols=126  Identities=20%  Similarity=0.245  Sum_probs=97.7

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCce-EEEE--EEEEecCCeeEEEEecCCCcccchhhhhHHHHHH
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTT-RHRI--LGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKN  188 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt-~~~~--~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~  188 (254)
                      ..+..|++++|..++||||||++++...+.  ..|..|- .+-.  .-.+.+..+++++|||+|  ++++..       .
T Consensus        19 ~~k~~KlVflGdqsVGKTslItRf~yd~fd--~~YqATIGiDFlskt~~l~d~~vrLQlWDTAG--QERFrs-------l   87 (221)
T KOG0094|consen   19 PLKKYKLVFLGDQSVGKTSLITRFMYDKFD--NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAG--QERFRS-------L   87 (221)
T ss_pred             cceEEEEEEEccCccchHHHHHHHHHhhhc--ccccceeeeEEEEEEEEEcCcEEEEEEEeccc--HHHHhh-------h
Confidence            344579999999999999999999998875  3333322 2222  223445578999999999  554444       4


Q ss_pred             HHHHccCccEEEEEEeCCC--CchhHHHHHHHhhcccCCC-CCEEEEEecCCCCChHhHHHHH
Q 025346          189 VRSAGINADCIVVLVDACK--APERIDEILEEGVGDHKDK-LPILLVLNKKDLIKPGEIAKKL  248 (254)
Q Consensus       189 ~~~~~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~-~piivV~nK~Dl~~~~~~~~~~  248 (254)
                      ...|++++.++|.|+|+++  +++....|+.........+ .-+++|+||.||.++++++...
T Consensus        88 ipsY~Rds~vaviVyDit~~~Sfe~t~kWi~dv~~e~gs~~viI~LVGnKtDL~dkrqvs~eE  150 (221)
T KOG0094|consen   88 IPSYIRDSSVAVIVYDITDRNSFENTSKWIEDVRRERGSDDVIIFLVGNKTDLSDKRQVSIEE  150 (221)
T ss_pred             hhhhccCCeEEEEEEeccccchHHHHHHHHHHHHhccCCCceEEEEEcccccccchhhhhHHH
Confidence            5567999999999999987  7889999999998887764 7789999999999998876543

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.76  E-value=2.4e-17  Score=151.23  Aligned_cols=124  Identities=29%  Similarity=0.383  Sum_probs=98.4

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      .++|+++|.+|+|||||+|++++.....+.+.+++|++.........+..+.+|||||+... ...+...+...+..++.
T Consensus        38 ~~~V~IvG~~nvGKSSL~nrl~~~~~~~v~~~~gvT~d~~~~~~~~~~~~~~l~DT~G~~~~-~~~~~~~~~~~~~~~~~  116 (472)
T PRK03003         38 LPVVAVVGRPNVGKSTLVNRILGRREAVVEDVPGVTRDRVSYDAEWNGRRFTVVDTGGWEPD-AKGLQASVAEQAEVAMR  116 (472)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhCcCcccccCCCCCCEeeEEEEEEECCcEEEEEeCCCcCCc-chhHHHHHHHHHHHHHH
Confidence            46899999999999999999999887778889999998888877888889999999997532 23344445556667789


Q ss_pred             CccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          195 NADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       195 ~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      .+|++++|+|+++........+...++  ..+.|+++|+||+|+...
T Consensus       117 ~aD~il~VvD~~~~~s~~~~~i~~~l~--~~~~piilV~NK~Dl~~~  161 (472)
T PRK03003        117 TADAVLFVVDATVGATATDEAVARVLR--RSGKPVILAANKVDDERG  161 (472)
T ss_pred             hCCEEEEEEECCCCCCHHHHHHHHHHH--HcCCCEEEEEECccCCcc
Confidence            999999999999865544444444444  357899999999999653

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

Probab=99.75  E-value=5.7e-18  Score=133.00  Aligned_cols=122  Identities=23%  Similarity=0.306  Sum_probs=95.1

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEE--EEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRH--RILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~--~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      ...|++++|.+++|||||+.++...+|... ..+.....  .....+....+++.||||+|  +++++++.+++      
T Consensus         4 ~~~KvvLLG~~~VGKSSlV~Rfvk~~F~e~-~e~TIGaaF~tktv~~~~~~ikfeIWDTAG--QERy~slapMY------   74 (200)
T KOG0092|consen    4 REFKVVLLGDSGVGKSSLVLRFVKDQFHEN-IEPTIGAAFLTKTVTVDDNTIKFEIWDTAG--QERYHSLAPMY------   74 (200)
T ss_pred             ceEEEEEECCCCCCchhhhhhhhhCccccc-cccccccEEEEEEEEeCCcEEEEEEEEcCC--cccccccccce------
Confidence            346899999999999999999999988632 12222211  22223344568899999999  66677776654      


Q ss_pred             HccCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHH
Q 025346          192 AGINADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIA  245 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~  245 (254)
                       +++|+++|+|+|+++  ++...+.|+.++.+...+++-+.+|+||+||...+++.
T Consensus        75 -yRgA~AAivvYDit~~~SF~~aK~WvkeL~~~~~~~~vialvGNK~DL~~~R~V~  129 (200)
T KOG0092|consen   75 -YRGANAAIVVYDITDEESFEKAKNWVKELQRQASPNIVIALVGNKADLLERREVE  129 (200)
T ss_pred             -ecCCcEEEEEEecccHHHHHHHHHHHHHHHhhCCCCeEEEEecchhhhhhccccc
Confidence             899999999999988  67889999999888877888889999999999866654

>cd01898 Obg Obg subfamily

Probab=99.75  E-value=1.7e-17  Score=131.45  Aligned_cols=129  Identities=26%  Similarity=0.268  Sum_probs=88.6

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCe-eEEEEecCCCcccchhhhhHHHHHHHHHHccC
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEY-QMILYDTPGIIEKKIHMLDSMMMKNVRSAGIN  195 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~-~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~  195 (254)
                      .|+++|.+|+|||||+|++.+... .++..+++|.....+.....+. .+.+|||||+.+..... + .....+...+..
T Consensus         2 ~v~ivG~~~~GKStl~~~l~~~~~-~v~~~~~~t~~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~-~-~~~~~~~~~~~~   78 (170)
T cd01898           2 DVGLVGLPNAGKSTLLSAISNAKP-KIADYPFTTLVPNLGVVRVDDGRSFVVADIPGLIEGASEG-K-GLGHRFLRHIER   78 (170)
T ss_pred             CeEEECCCCCCHHHHHHHHhcCCc-cccCCCccccCCcceEEEcCCCCeEEEEecCcccCccccc-C-CchHHHHHHHHh
Confidence            489999999999999999998665 3666677776666665555555 89999999975322110 0 111223344567


Q ss_pred             ccEEEEEEeCCCC---chhHHHHHHHhhccc--CCCCCEEEEEecCCCCChHhHHHHH
Q 025346          196 ADCIVVLVDACKA---PERIDEILEEGVGDH--KDKLPILLVLNKKDLIKPGEIAKKL  248 (254)
Q Consensus       196 ~d~iv~vid~~~~---~~~~~~~~~~~~~~~--~~~~piivV~nK~Dl~~~~~~~~~~  248 (254)
                      +|++++|+|+++.   .+....+...+....  ..+.|+++|+||+|+.+.....+..
T Consensus        79 ~d~vi~v~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~p~ivv~NK~Dl~~~~~~~~~~  136 (170)
T cd01898          79 TRLLLHVIDLSGDDDPVEDYKTIRNELELYNPELLEKPRIVVLNKIDLLDEEELFELL  136 (170)
T ss_pred             CCEEEEEEecCCCCCHHHHHHHHHHHHHHhCccccccccEEEEEchhcCCchhhHHHH
Confidence            9999999999875   344555555443322  1368999999999998776654433

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.

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

Probab=99.75  E-value=5.6e-17  Score=126.27  Aligned_cols=123  Identities=33%  Similarity=0.419  Sum_probs=91.3

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccC
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGIN  195 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~  195 (254)
                      .+++++|++|+|||||++++.+.......+.++++...........+.++.+|||||+.+... .............+..
T Consensus         2 ~~i~l~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~DtpG~~~~~~-~~~~~~~~~~~~~~~~   80 (157)
T cd04164           2 IKVVIVGKPNVGKSSLLNALAGRDRAIVSDIAGTTRDVIEESIDIGGIPVRLIDTAGIRETED-EIEKIGIERAREAIEE   80 (157)
T ss_pred             cEEEEECCCCCCHHHHHHHHHCCceEeccCCCCCccceEEEEEEeCCEEEEEEECCCcCCCcc-hHHHHHHHHHHHHHhh
Confidence            479999999999999999999988766777888888777666777788999999999765432 2222222344456789


Q ss_pred             ccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          196 ADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       196 ~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      +|++++|+|+++............    ..+.|+++|+||+|+.+...
T Consensus        81 ~~~~v~v~d~~~~~~~~~~~~~~~----~~~~~vi~v~nK~D~~~~~~  124 (157)
T cd04164          81 ADLVLFVIDASRGLDEEDLEILEL----PADKPIIVVLNKSDLLPDSE  124 (157)
T ss_pred             CCEEEEEEECCCCCCHHHHHHHHh----hcCCCEEEEEEchhcCCccc
Confidence            999999999997444333222211    35789999999999986543

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.

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

Probab=99.74  E-value=2.1e-17  Score=129.07  Aligned_cols=124  Identities=20%  Similarity=0.275  Sum_probs=98.3

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCC-CceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKP-QTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~-~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      ..|++++|..|+|||+|+.++..+.|..+.+.. +..-......++....++++|||+|  ++.       +..-..+++
T Consensus         6 ~fKyIiiGd~gVGKSclllrf~~krF~~~hd~TiGvefg~r~~~id~k~IKlqiwDtaG--qe~-------frsv~~syY   76 (216)
T KOG0098|consen    6 LFKYIIIGDTGVGKSCLLLRFTDKRFQPVHDLTIGVEFGARMVTIDGKQIKLQIWDTAG--QES-------FRSVTRSYY   76 (216)
T ss_pred             eEEEEEECCCCccHHHHHHHHhccCccccccceeeeeeceeEEEEcCceEEEEEEecCC--cHH-------HHHHHHHHh
Confidence            458999999999999999999999986544421 1111223345667788999999999  333       335566789


Q ss_pred             cCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHHH
Q 025346          194 INADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKK  247 (254)
Q Consensus       194 ~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~~  247 (254)
                      +++-++++|+|+++  ++..+..|+.++.+....|.-+++++||+||...+++++.
T Consensus        77 r~a~GalLVydit~r~sF~hL~~wL~D~rq~~~~NmvImLiGNKsDL~~rR~Vs~E  132 (216)
T KOG0098|consen   77 RGAAGALLVYDITRRESFNHLTSWLEDARQHSNENMVIMLIGNKSDLEARREVSKE  132 (216)
T ss_pred             ccCcceEEEEEccchhhHHHHHHHHHHHHHhcCCCcEEEEEcchhhhhccccccHH
Confidence            99999999999987  6788999999988877789999999999999988877544

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=99.74  E-value=4.1e-17  Score=143.92  Aligned_cols=130  Identities=27%  Similarity=0.300  Sum_probs=92.7

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEec-CCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSG-PEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~-~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      ..++|+++|.+|+|||||+|++++.+. .+.+.+++|.+.....+.. ++..+.+|||||+...........+ ......
T Consensus       188 ~~~~ValvG~~NvGKSSLln~L~~~~~-~v~~~~~tT~d~~~~~i~~~~~~~i~l~DT~G~~~~l~~~lie~f-~~tle~  265 (351)
T TIGR03156       188 DVPTVALVGYTNAGKSTLFNALTGADV-YAADQLFATLDPTTRRLDLPDGGEVLLTDTVGFIRDLPHELVAAF-RATLEE  265 (351)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCce-eeccCCccccCCEEEEEEeCCCceEEEEecCcccccCCHHHHHHH-HHHHHH
Confidence            347899999999999999999999874 4678888888877766665 5679999999997443222222223 334456


Q ss_pred             ccCccEEEEEEeCCCCchhH-HHHHHHhhccc-CCCCCEEEEEecCCCCChHhHH
Q 025346          193 GINADCIVVLVDACKAPERI-DEILEEGVGDH-KDKLPILLVLNKKDLIKPGEIA  245 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~~~~~-~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~~~~  245 (254)
                      +..+|++++|+|++++.... ...+..++... ..+.|+++|+||+|+.+..++.
T Consensus       266 ~~~ADlil~VvD~s~~~~~~~~~~~~~~L~~l~~~~~piIlV~NK~Dl~~~~~v~  320 (351)
T TIGR03156       266 VREADLLLHVVDASDPDREEQIEAVEKVLEELGAEDIPQLLVYNKIDLLDEPRIE  320 (351)
T ss_pred             HHhCCEEEEEEECCCCchHHHHHHHHHHHHHhccCCCCEEEEEEeecCCChHhHH
Confidence            88999999999998754221 11122223322 2468999999999998765543

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).

>cd01895 EngA2 EngA2 subfamily

Probab=99.74  E-value=1e-16  Score=126.71  Aligned_cols=125  Identities=27%  Similarity=0.346  Sum_probs=89.0

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccch--hhhhHHHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKI--HMLDSMMMKNVRSA  192 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~--~~~~~~~~~~~~~~  192 (254)
                      ..+++++|.+|+|||||++++++.......+.++++...........+..+.+|||||+.+...  ..++..........
T Consensus         2 ~~~i~i~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiDtpG~~~~~~~~~~~e~~~~~~~~~~   81 (174)
T cd01895           2 PIRIAIIGRPNVGKSSLVNALLGEERVIVSDIAGTTRDSIDVPFEYDGKKYTLIDTAGIRRKGKVEEGIEKYSVLRTLKA   81 (174)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHhCccceeccCCCCCccCceeeEEEECCeeEEEEECCCCccccchhccHHHHHHHHHHHH
Confidence            4579999999999999999999987655677778877766666666777899999999754421  11112111223345


Q ss_pred             ccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          193 GINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      +..+|++++|+|+.++.......+.....  ..+.|+++|+||+|+...
T Consensus        82 ~~~~d~vi~v~d~~~~~~~~~~~~~~~~~--~~~~~~iiv~nK~Dl~~~  128 (174)
T cd01895          82 IERADVVLLVIDATEGITEQDLRIAGLIL--EEGKALVIVVNKWDLVEK  128 (174)
T ss_pred             HhhcCeEEEEEeCCCCcchhHHHHHHHHH--hcCCCEEEEEeccccCCc
Confidence            67999999999998865443322222222  246899999999999876

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.

>cd01861 Rab6 Rab6 subfamily

Probab=99.74  E-value=6.8e-17  Score=126.81  Aligned_cols=115  Identities=18%  Similarity=0.252  Sum_probs=85.1

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCC--eeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPE--YQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      +++++|++|+|||||++++++.++. ....+.++.+.....+..++  ..+.+|||||.  ..+       ...+..++.
T Consensus         2 ki~liG~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~~~D~~G~--~~~-------~~~~~~~~~   71 (161)
T cd01861           2 KLVFLGDQSVGKTSIITRFMYDTFD-NQYQATIGIDFLSKTMYLEDKTVRLQLWDTAGQ--ERF-------RSLIPSYIR   71 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCC-ccCCCceeeeEEEEEEEECCEEEEEEEEECCCc--HHH-------HHHHHHHhc
Confidence            7999999999999999999998875 34455555554444444333  57999999993  222       123445678


Q ss_pred             CccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          195 NADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       195 ~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      .+|++++|+|+++  +++....++..+......+.|+++|+||+|+...
T Consensus        72 ~~~~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~~  120 (161)
T cd01861          72 DSSVAVVVYDITNRQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDLSDK  120 (161)
T ss_pred             cCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEEEChhcccc
Confidence            9999999999987  3566677777766555457999999999999543

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

>cd04122 Rab14 Rab14 subfamily

Probab=99.74  E-value=4.1e-17  Score=129.13  Aligned_cols=117  Identities=21%  Similarity=0.269  Sum_probs=83.5

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEE---EEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRI---LGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~---~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      .+++++|++|+|||||++++...++.  ..++++.....   ....++....+.+|||||.  ..+       ...+..+
T Consensus         3 ~ki~iiG~~~vGKTsli~~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~--~~~-------~~~~~~~   71 (166)
T cd04122           3 FKYIIIGDMGVGKSCLLHQFTEKKFM--ADCPHTIGVEFGTRIIEVNGQKIKLQIWDTAGQ--ERF-------RAVTRSY   71 (166)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCC--CCCCcccceeEEEEEEEECCEEEEEEEEECCCc--HHH-------HHHHHHH
Confidence            47999999999999999999988764  33443332221   1223344567899999993  222       1233456


Q ss_pred             ccCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          193 GINADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       193 ~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      ++.++++++|+|+++  ++..+..|+..+.....++.|+++|+||+|+..+.+
T Consensus        72 ~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iiiv~nK~Dl~~~~~  124 (166)
T cd04122          72 YRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLEAQRD  124 (166)
T ss_pred             hcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccC
Confidence            889999999999987  446666777666554456789999999999976543

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

>COG0218 Predicted GTPase [General function prediction only]

Probab=99.74  E-value=1.4e-16  Score=127.09  Aligned_cols=136  Identities=27%  Similarity=0.366  Sum_probs=102.5

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCc-cccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchh-hhhH---HH
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQK-LSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIH-MLDS---MM  185 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~-~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~-~~~~---~~  185 (254)
                      +....+-|+++|.+++|||||||.+++++ .++++..||.|+......++..   +.++|.||++-.... ....   ..
T Consensus        20 P~~~~~EIaF~GRSNVGKSSlIN~l~~~k~LArtSktPGrTq~iNff~~~~~---~~lVDlPGYGyAkv~k~~~e~w~~~   96 (200)
T COG0218          20 PEDDLPEIAFAGRSNVGKSSLINALTNQKNLARTSKTPGRTQLINFFEVDDE---LRLVDLPGYGYAKVPKEVKEKWKKL   96 (200)
T ss_pred             CCCCCcEEEEEccCcccHHHHHHHHhCCcceeecCCCCCccceeEEEEecCc---EEEEeCCCcccccCCHHHHHHHHHH
Confidence            44567789999999999999999999966 7889999999988776555433   889999998754321 1111   22


Q ss_pred             HHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHHHHHHH
Q 025346          186 MKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLEVT  251 (254)
Q Consensus       186 ~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~~~~~~  251 (254)
                      ...+...-....+++.++|+.++....+....+++.  ..++|+++|+||+|.+...+..+.+..+
T Consensus        97 i~~YL~~R~~L~~vvlliD~r~~~~~~D~em~~~l~--~~~i~~~vv~tK~DKi~~~~~~k~l~~v  160 (200)
T COG0218          97 IEEYLEKRANLKGVVLLIDARHPPKDLDREMIEFLL--ELGIPVIVVLTKADKLKKSERNKQLNKV  160 (200)
T ss_pred             HHHHHhhchhheEEEEEEECCCCCcHHHHHHHHHHH--HcCCCeEEEEEccccCChhHHHHHHHHH
Confidence            233444444678999999999988888877777666  3589999999999999987765544433

>cd01874 Cdc42 Cdc42 subfamily

Probab=99.74  E-value=4.5e-17  Score=130.41  Aligned_cols=115  Identities=24%  Similarity=0.238  Sum_probs=80.3

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEE--EecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGI--CSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~--~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .+++++|.+|+|||||++++..+.+.  ..+.+|........  ..+....+.+|||+|.  ..+..+       ...++
T Consensus         2 ~ki~vvG~~~vGKTsl~~~~~~~~f~--~~~~pt~~~~~~~~~~~~~~~~~l~i~Dt~G~--~~~~~~-------~~~~~   70 (175)
T cd01874           2 IKCVVVGDGAVGKTCLLISYTTNKFP--SEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQ--EDYDRL-------RPLSY   70 (175)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCC--CCCCCceeeeeEEEEEECCEEEEEEEEECCCc--cchhhh-------hhhhc
Confidence            47999999999999999999988873  34555544333222  2333467899999994  333222       22357


Q ss_pred             cCccEEEEEEeCCCC--chhHHH-HHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          194 INADCIVVLVDACKA--PERIDE-ILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       194 ~~~d~iv~vid~~~~--~~~~~~-~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      ..+|++++|+|+++.  ++.+.. |+..+.. ...+.|+++|+||+|+....
T Consensus        71 ~~a~~~ilv~d~~~~~s~~~~~~~w~~~i~~-~~~~~piilvgnK~Dl~~~~  121 (175)
T cd01874          71 PQTDVFLVCFSVVSPSSFENVKEKWVPEITH-HCPKTPFLLVGTQIDLRDDP  121 (175)
T ss_pred             ccCCEEEEEEECCCHHHHHHHHHHHHHHHHH-hCCCCCEEEEEECHhhhhCh
Confidence            899999999999873  445543 5444433 34579999999999997653

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

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.74  E-value=3.7e-17  Score=148.52  Aligned_cols=124  Identities=35%  Similarity=0.448  Sum_probs=101.0

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINA  196 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~  196 (254)
                      +|+++|.+|+|||||+|++++...+.+.+.+++|++.......+.+..+.+|||||+.... ..+...+...+...+..+
T Consensus         1 ~i~ivG~~nvGKStL~n~l~~~~~~~v~~~~g~t~d~~~~~~~~~~~~~~liDTpG~~~~~-~~~~~~~~~~~~~~~~~a   79 (429)
T TIGR03594         1 VVAIVGRPNVGKSTLFNRLTGKRDAIVSDTPGVTRDRKYGDAEWGGREFILIDTGGIEEDD-DGLDKQIREQAEIAIEEA   79 (429)
T ss_pred             CEEEECCCCCCHHHHHHHHhCCCcceecCCCCcccCceEEEEEECCeEEEEEECCCCCCcc-hhHHHHHHHHHHHHHhhC
Confidence            4899999999999999999998877788999999988888888888999999999975432 334455556677788999


Q ss_pred             cEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          197 DCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       197 d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      |++++|+|+..+.......+...++.  .+.|+++|+||+|+...+.
T Consensus        80 d~vl~vvD~~~~~~~~d~~i~~~l~~--~~~piilVvNK~D~~~~~~  124 (429)
T TIGR03594        80 DVILFVVDGREGLTPEDEEIAKWLRK--SGKPVILVANKIDGKKEDA  124 (429)
T ss_pred             CEEEEEEeCCCCCCHHHHHHHHHHHH--hCCCEEEEEECccCCcccc
Confidence            99999999998766666555555543  4689999999999986543

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.

>cd01864 Rab19 Rab19 subfamily

Probab=99.74  E-value=8.6e-17  Score=127.09  Aligned_cols=118  Identities=18%  Similarity=0.177  Sum_probs=81.7

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecC--CeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGP--EYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~--~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      ..+++++|++|+|||||++++....+..... +..+.+.....+...  ...+.+|||||.  ..+       ......+
T Consensus         3 ~~kv~vvG~~~~GKTsli~~l~~~~~~~~~~-~t~~~~~~~~~~~~~~~~~~l~i~D~~G~--~~~-------~~~~~~~   72 (165)
T cd01864           3 LFKIILIGDSNVGKTCVVQRFKSGTFSERQG-NTIGVDFTMKTLEIEGKRVKLQIWDTAGQ--ERF-------RTITQSY   72 (165)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhhCCCcccCC-CccceEEEEEEEEECCEEEEEEEEECCCh--HHH-------HHHHHHH
Confidence            3689999999999999999999877642221 222222222223333  367899999993  221       1234455


Q ss_pred             ccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          193 GINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      ++.+|++++|+|+++.  ++.+..|+..+......+.|+++|+||+|+...+
T Consensus        73 ~~~~d~~llv~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~  124 (165)
T cd01864          73 YRSANGAIIAYDITRRSSFESVPHWIEEVEKYGASNVVLLLIGNKCDLEEQR  124 (165)
T ss_pred             hccCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECccccccc
Confidence            7899999999999883  4556667776655445679999999999997553

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.

>cd04142 RRP22 RRP22 subfamily

Probab=99.73  E-value=6e-17  Score=132.25  Aligned_cols=123  Identities=23%  Similarity=0.319  Sum_probs=81.3

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEE--EecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGI--CSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~--~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      +|+++|.+|+|||||++++.+.++... ..|.++.......  .++....+.+|||||....... ............+.
T Consensus         2 kI~ivG~~~vGKTsLi~~~~~~~f~~~-~~pt~~~~~~~~~i~~~~~~~~l~i~Dt~G~~~~~~~-~~~e~~~~~~~~~~   79 (198)
T cd04142           2 RVAVLGAPGVGKTAIVRQFLAQEFPEE-YIPTEHRRLYRPAVVLSGRVYDLHILDVPNMQRYPGT-AGQEWMDPRFRGLR   79 (198)
T ss_pred             EEEEECCCCCcHHHHHHHHHcCCCCcc-cCCccccccceeEEEECCEEEEEEEEeCCCcccCCcc-chhHHHHHHHhhhc
Confidence            799999999999999999999887532 2333332322222  2333467899999996432211 11111122334578


Q ss_pred             CccEEEEEEeCCCC--chhHHHHHHHhhccc---CCCCCEEEEEecCCCCCh
Q 025346          195 NADCIVVLVDACKA--PERIDEILEEGVGDH---KDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       195 ~~d~iv~vid~~~~--~~~~~~~~~~~~~~~---~~~~piivV~nK~Dl~~~  241 (254)
                      .+|++++|+|+++.  ++....++..+....   ..++|+++|+||+|+...
T Consensus        80 ~ad~iilv~D~~~~~S~~~~~~~~~~i~~~~~~~~~~~piiivgNK~Dl~~~  131 (198)
T cd04142          80 NSRAFILVYDICSPDSFHYVKLLRQQILETRPAGNKEPPIVVVGNKRDQQRH  131 (198)
T ss_pred             cCCEEEEEEECCCHHHHHHHHHHHHHHHHhcccCCCCCCEEEEEECcccccc
Confidence            99999999999874  444555655554432   367999999999999654

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.

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=99.73  E-value=6.6e-17  Score=141.60  Aligned_cols=126  Identities=29%  Similarity=0.306  Sum_probs=95.5

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEec-CCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSG-PEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~-~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      ..|+++|.+++|||||+|++...+.. ++++++||.....+.+.. +..++.+|||||+.+.....  ..+...+...+.
T Consensus       159 adVglVG~PNaGKSTLln~ls~a~~~-va~ypfTT~~p~~G~v~~~~~~~~~i~D~PGli~ga~~~--~gLg~~flrhie  235 (335)
T PRK12299        159 ADVGLVGLPNAGKSTLISAVSAAKPK-IADYPFTTLHPNLGVVRVDDYKSFVIADIPGLIEGASEG--AGLGHRFLKHIE  235 (335)
T ss_pred             CCEEEEcCCCCCHHHHHHHHHcCCCc-cCCCCCceeCceEEEEEeCCCcEEEEEeCCCccCCCCcc--ccHHHHHHHHhh
Confidence            46999999999999999999987754 789999999998888876 56789999999986543221  112245556678


Q ss_pred             CccEEEEEEeCCCC--chhHHHHHHHhhcccC--CCCCEEEEEecCCCCChHhH
Q 025346          195 NADCIVVLVDACKA--PERIDEILEEGVGDHK--DKLPILLVLNKKDLIKPGEI  244 (254)
Q Consensus       195 ~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~--~~~piivV~nK~Dl~~~~~~  244 (254)
                      .++++++|+|+++.  .+....|..++.....  .+.|+++|+||+|+.+..++
T Consensus       236 ~a~vlI~ViD~s~~~s~e~~~~~~~EL~~~~~~L~~kp~IIV~NKiDL~~~~~~  289 (335)
T PRK12299        236 RTRLLLHLVDIEAVDPVEDYKTIRNELEKYSPELADKPRILVLNKIDLLDEEEE  289 (335)
T ss_pred             hcCEEEEEEcCCCCCCHHHHHHHHHHHHHhhhhcccCCeEEEEECcccCCchhH
Confidence            99999999999863  4555555555443322  46899999999999876543

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

Probab=99.73  E-value=2.5e-16  Score=126.49  Aligned_cols=134  Identities=27%  Similarity=0.335  Sum_probs=88.4

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCc-cccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhh-hhHHHHH-
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQK-LSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHM-LDSMMMK-  187 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~-~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~-~~~~~~~-  187 (254)
                      +..+.++++++|.+|+|||||+|++.+.. ...+++.+++|........+   ..+.+|||||+....... ....+.. 
T Consensus        14 ~~~~~~~i~ivG~~~~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~---~~~~liDtpG~~~~~~~~~~~~~~~~~   90 (179)
T TIGR03598        14 PPDDGPEIAFAGRSNVGKSSLINALTNRKKLARTSKTPGRTQLINFFEVN---DGFRLVDLPGYGYAKVSKEEKEKWQKL   90 (179)
T ss_pred             CCCCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCcceEEEEEEeC---CcEEEEeCCCCccccCChhHHHHHHHH
Confidence            44567799999999999999999999876 45566677777665433332   369999999975432111 1111111 


Q ss_pred             --HHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHHHHH
Q 025346          188 --NVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLE  249 (254)
Q Consensus       188 --~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~~~~  249 (254)
                        .+......++++++|+|+++........+...+.  ..+.|+++|+||+|+..+.+.....+
T Consensus        91 ~~~~l~~~~~~~~ii~vvd~~~~~~~~~~~~~~~~~--~~~~pviiv~nK~D~~~~~~~~~~~~  152 (179)
T TIGR03598        91 IEEYLEKRENLKGVVLLMDIRHPLKELDLEMLEWLR--ERGIPVLIVLTKADKLKKSELNKQLK  152 (179)
T ss_pred             HHHHHHhChhhcEEEEEecCCCCCCHHHHHHHHHHH--HcCCCEEEEEECcccCCHHHHHHHHH
Confidence              2222234578999999998865555444333333  24689999999999987655444333

Members of this protein family are a GTPase associated with ribosome biogenesis, typified by YsxC from Bacillus subutilis. The family is widely but not universally distributed among bacteria. Members commonly are called EngB based on homology to EngA, one of several other GTPases of ribosome biogenesis. Cutoffs as set find essentially all bacterial members, but also identify large numbers of eukaryotic (probably organellar) sequences. This protein is found in about 80 percent of bacterial genomes.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.73  E-value=9.3e-17  Score=146.13  Aligned_cols=122  Identities=34%  Similarity=0.449  Sum_probs=97.5

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccC
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGIN  195 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~  195 (254)
                      ++|+++|.+|+|||||+|++.+.....+.+.+++|++.........+..+.+|||||+.... .............++..
T Consensus         2 ~~I~ivG~~~vGKStL~n~l~~~~~~~v~~~~~~t~d~~~~~~~~~~~~~~liDT~G~~~~~-~~~~~~~~~~~~~~~~~   80 (435)
T PRK00093          2 PVVAIVGRPNVGKSTLFNRLTGKRDAIVADTPGVTRDRIYGEAEWLGREFILIDTGGIEPDD-DGFEKQIREQAELAIEE   80 (435)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeeCCCCCCcccceEEEEEECCcEEEEEECCCCCCcc-hhHHHHHHHHHHHHHHh
Confidence            57999999999999999999998877788899999888888788888999999999986522 22334444556667889


Q ss_pred             ccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          196 ADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       196 ~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      +|++++|+|++++.......+..+++.  .+.|+++|+||+|+..
T Consensus        81 ad~il~vvd~~~~~~~~~~~~~~~l~~--~~~piilv~NK~D~~~  123 (435)
T PRK00093         81 ADVILFVVDGRAGLTPADEEIAKILRK--SNKPVILVVNKVDGPD  123 (435)
T ss_pred             CCEEEEEEECCCCCCHHHHHHHHHHHH--cCCcEEEEEECccCcc
Confidence            999999999988766555555444443  3789999999999765

>cd01865 Rab3 Rab3 subfamily

Probab=99.73  E-value=1.1e-16  Score=126.59  Aligned_cols=116  Identities=14%  Similarity=0.129  Sum_probs=81.4

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceE-EEE--EEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTR-HRI--LGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~-~~~--~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      .+++++|.+|+|||||++++.+.++..  .+.++.. ...  ....+.....+.+|||||.  ..+.       ..+..+
T Consensus         2 ~ki~i~G~~~~GKSsli~~l~~~~~~~--~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~g~--~~~~-------~~~~~~   70 (165)
T cd01865           2 FKLLIIGNSSVGKTSFLFRYADDSFTS--AFVSTVGIDFKVKTVFRNDKRVKLQIWDTAGQ--ERYR-------TITTAY   70 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCC--CCCCceeeEEEEEEEEECCEEEEEEEEECCCh--HHHH-------HHHHHH
Confidence            479999999999999999999988642  2222221 111  1122334478999999993  2221       234566


Q ss_pred             ccCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          193 GINADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       193 ~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      ++.++++++|+|.++  +++.+..|+..+.+....+.|+++|+||+|+...+
T Consensus        71 ~~~~~~~l~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~  122 (165)
T cd01865          71 YRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVILVGNKCDMEDER  122 (165)
T ss_pred             ccCCcEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCCEEEEEECcccCccc
Confidence            899999999999987  34556677766655444578999999999997654

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

>cd04136 Rap_like Rap-like subfamily

Probab=99.72  E-value=7.2e-17  Score=126.85  Aligned_cols=116  Identities=22%  Similarity=0.246  Sum_probs=81.0

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEE--ecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGIC--SGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~--~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .+++++|.+|+|||||++++....+.  ..+.+|+........  ++....+.+|||||.  ..+..+       +..++
T Consensus         2 ~ki~i~G~~~vGKTsl~~~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~--~~~~~~-------~~~~~   70 (163)
T cd04136           2 YKVVVLGSGGVGKSALTVQFVQGIFV--EKYDPTIEDSYRKQIEVDGQQCMLEILDTAGT--EQFTAM-------RDLYI   70 (163)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCC--cccCCchhhhEEEEEEECCEEEEEEEEECCCc--cccchH-------HHHHh
Confidence            47999999999999999999988763  334444433322222  333467889999994  333322       33457


Q ss_pred             cCccEEEEEEeCCC--CchhHHHHHHHhhccc-CCCCCEEEEEecCCCCChH
Q 025346          194 INADCIVVLVDACK--APERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       194 ~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~  242 (254)
                      +.++++++|+|+++  +++....++..+.... ..+.|+++|+||+|+.+.+
T Consensus        71 ~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~  122 (163)
T cd04136          71 KNGQGFVLVYSITSQSSFNDLQDLREQILRVKDTENVPMVLVGNKCDLEDER  122 (163)
T ss_pred             hcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccc
Confidence            88999999999987  3455666666554432 3578999999999997643

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.

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=99.72  E-value=1.7e-16  Score=125.99  Aligned_cols=117  Identities=22%  Similarity=0.234  Sum_probs=82.1

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINA  196 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~  196 (254)
                      +|+++|.+|+|||||++++.+. +.  ..+.+|. ......+...+..+.+|||||.  ..       +...+..++..+
T Consensus         1 ~i~~~G~~~~GKTsl~~~l~~~-~~--~~~~~t~-g~~~~~~~~~~~~~~i~D~~G~--~~-------~~~~~~~~~~~a   67 (167)
T cd04161           1 TLLTVGLDNAGKTTLVSALQGE-IP--KKVAPTV-GFTPTKLRLDKYEVCIFDLGGG--AN-------FRGIWVNYYAEA   67 (167)
T ss_pred             CEEEECCCCCCHHHHHHHHhCC-CC--ccccCcc-cceEEEEEECCEEEEEEECCCc--HH-------HHHHHHHHHcCC
Confidence            3789999999999999999876 21  2222221 1223344557789999999993  22       223355678999


Q ss_pred             cEEEEEEeCCCC--chhHHHHHHHhhccc-CCCCCEEEEEecCCCCChHhHHH
Q 025346          197 DCIVVLVDACKA--PERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPGEIAK  246 (254)
Q Consensus       197 d~iv~vid~~~~--~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~~~~~  246 (254)
                      |++++|+|+++.  +.....++..+.+.. ..+.|+++|+||+|+.......+
T Consensus        68 ~~ii~V~D~s~~~s~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~~~~~~~  120 (167)
T cd04161          68 HGLVFVVDSSDDDRVQEVKEILRELLQHPRVSGKPILVLANKQDKKNALLGAD  120 (167)
T ss_pred             CEEEEEEECCchhHHHHHHHHHHHHHcCccccCCcEEEEEeCCCCcCCCCHHH
Confidence            999999999874  455566676665542 25789999999999987654333

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.

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

Probab=99.72  E-value=1.1e-16  Score=125.81  Aligned_cols=117  Identities=22%  Similarity=0.240  Sum_probs=81.8

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEE--EecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGI--CSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~--~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      ..+++++|.+|+|||||++++++..+  ...+++++.......  .++....+.+|||||..  .+..       ....+
T Consensus         2 ~~ki~i~G~~~~GKtsl~~~~~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~--~~~~-------~~~~~   70 (164)
T cd04145           2 TYKLVVVGGGGVGKSALTIQFIQSYF--VTDYDPTIEDSYTKQCEIDGQWAILDILDTAGQE--EFSA-------MREQY   70 (164)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHhCCC--CcccCCCccceEEEEEEECCEEEEEEEEECCCCc--chhH-------HHHHH
Confidence            35899999999999999999998765  344444544333332  33334678999999943  2222       23345


Q ss_pred             ccCccEEEEEEeCCCC--chhHHHHHHHhhccc-CCCCCEEEEEecCCCCChH
Q 025346          193 GINADCIVVLVDACKA--PERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~  242 (254)
                      +..+|++++|+|+++.  +.....++..+.+.. ..+.|+++|+||+|+....
T Consensus        71 ~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~Dl~~~~  123 (164)
T cd04145          71 MRTGEGFLLVFSVTDRGSFEEVDKFHTQILRVKDRDEFPMILVGNKADLEHQR  123 (164)
T ss_pred             HhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCCEEEEeeCccccccc
Confidence            7789999999999873  345556665554432 3578999999999997654

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

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=99.72  E-value=1.4e-16  Score=126.29  Aligned_cols=118  Identities=17%  Similarity=0.164  Sum_probs=81.6

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEE--EEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILG--ICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~--~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      ..+|+++|++|+|||||++++.+.++.. ...+..+......  ...+....+.+|||||.  ..+.       .....+
T Consensus         3 ~~ki~vvG~~~~GKSsl~~~~~~~~f~~-~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~g~--~~~~-------~~~~~~   72 (167)
T cd01867           3 LFKLLLIGDSGVGKSCLLLRFSEDSFNP-SFISTIGIDFKIRTIELDGKKIKLQIWDTAGQ--ERFR-------TITTAY   72 (167)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhhCcCCc-ccccCccceEEEEEEEECCEEEEEEEEeCCch--HHHH-------HHHHHH
Confidence            3589999999999999999999887642 2222222222222  22333467899999993  2222       223455


Q ss_pred             ccCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          193 GINADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       193 ~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      +..+|++++|+|+++  ++..+..|+..+......+.|+++|+||+|+.+..
T Consensus        73 ~~~ad~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~  124 (167)
T cd01867          73 YRGAMGIILVYDITDEKSFENIRNWMRNIEEHASEDVERMLVGNKCDMEEKR  124 (167)
T ss_pred             hCCCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECccccccc
Confidence            789999999999987  34556666666655444678999999999998543

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

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=99.72  E-value=1.6e-16  Score=125.61  Aligned_cols=117  Identities=20%  Similarity=0.203  Sum_probs=82.0

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEE--ecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGIC--SGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~--~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .+++++|++|+|||||++++.+.++.. ...++.+.......+  .+....+.+|||||.  ..+       ......++
T Consensus         3 ~ki~i~G~~~vGKSsli~~~~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~--~~~-------~~~~~~~~   72 (166)
T cd01869           3 FKLLLIGDSGVGKSCLLLRFADDTYTE-SYISTIGVDFKIRTIELDGKTIKLQIWDTAGQ--ERF-------RTITSSYY   72 (166)
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCCCCC-CCCCccceeEEEEEEEECCEEEEEEEEECCCc--HhH-------HHHHHHHh
Confidence            589999999999999999999887652 222333322222222  333467899999993  222       12334567


Q ss_pred             cCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          194 INADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       194 ~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      +.+|++++|+|+++  ++..+..|+..+......+.|+++|+||+|+....
T Consensus        73 ~~~~~ii~v~d~~~~~s~~~l~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~  123 (166)
T cd01869          73 RGAHGIIIVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTDKR  123 (166)
T ss_pred             CcCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEEChhccccc
Confidence            89999999999987  45566677766554444678999999999997654

Rab1 is found in every eukaryote and is a key regulatory component for the transport of vesicles from the ER to the Golgi apparatus. Studies on mutations of Ypt1, the yeast homolog of Rab1, showed that this protein is necessary for the budding of vesicles of the ER as well as for their transport to, and fusion with, the Golgi apparatus. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to t

>cd01868 Rab11_like Rab11-like

Probab=99.72  E-value=1.8e-16  Score=125.02  Aligned_cols=117  Identities=21%  Similarity=0.241  Sum_probs=81.6

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEe--cCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICS--GPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~--~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .+++++|.+|+|||||++++.+.++.. ...+..+.......+.  +....+.+|||||.  ..+.       .....++
T Consensus         4 ~ki~vvG~~~~GKSsli~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~--~~~~-------~~~~~~~   73 (165)
T cd01868           4 FKIVLIGDSGVGKSNLLSRFTRNEFNL-DSKSTIGVEFATRSIQIDGKTIKAQIWDTAGQ--ERYR-------AITSAYY   73 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCC-CCCCccceEEEEEEEEECCEEEEEEEEeCCCh--HHHH-------HHHHHHH
Confidence            589999999999999999999887652 2233333333232333  33357899999993  2222       2233457


Q ss_pred             cCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          194 INADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       194 ~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      ..++++++|+|+++  ++..+..|+..+......+.|+++|+||+|+...+
T Consensus        74 ~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pi~vv~nK~Dl~~~~  124 (165)
T cd01868          74 RGAVGALLVYDITKKQTFENVERWLKELRDHADSNIVIMLVGNKSDLRHLR  124 (165)
T ss_pred             CCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccc
Confidence            88999999999986  34556667666555444568999999999997543

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

>cd01866 Rab2 Rab2 subfamily

Probab=99.72  E-value=1.5e-16  Score=126.27  Aligned_cols=117  Identities=21%  Similarity=0.238  Sum_probs=82.3

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEE--EEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHR--ILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~--~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .+++++|.+|+|||||++++.+.++..... +..+...  ...........+.+|||||.  ..+       ......++
T Consensus         5 ~ki~vvG~~~vGKSsLl~~l~~~~~~~~~~-~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~--~~~-------~~~~~~~~   74 (168)
T cd01866           5 FKYIIIGDTGVGKSCLLLQFTDKRFQPVHD-LTIGVEFGARMITIDGKQIKLQIWDTAGQ--ESF-------RSITRSYY   74 (168)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCC-CccceeEEEEEEEECCEEEEEEEEECCCc--HHH-------HHHHHHHh
Confidence            589999999999999999999887643222 2222222  22233344568999999993  221       22334567


Q ss_pred             cCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          194 INADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       194 ~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      ..+|++++|+|+++  ++..+..|+..+.....++.|+++|+||+|+..+.
T Consensus        75 ~~~d~il~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pvivv~nK~Dl~~~~  125 (168)
T cd01866          75 RGAAGALLVYDITRRETFNHLTSWLEDARQHSNSNMTIMLIGNKCDLESRR  125 (168)
T ss_pred             ccCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECccccccc
Confidence            89999999999987  45566677766655445689999999999997543

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

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=99.72  E-value=1.1e-16  Score=142.84  Aligned_cols=130  Identities=26%  Similarity=0.290  Sum_probs=94.9

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCC-eeEEEEecCCCcccchhhhhHHHHHHHHHHccC
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPE-YQMILYDTPGIIEKKIHMLDSMMMKNVRSAGIN  195 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~-~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~  195 (254)
                      .|+++|.+|+|||||+|++++.+. .++++|+||+....+.+...+ ..+.++||||+.......  ......+...+..
T Consensus       161 dValVG~PNaGKSTLln~Lt~~k~-~vs~~p~TT~~p~~Giv~~~~~~~i~~vDtPGi~~~a~~~--~~Lg~~~l~~i~r  237 (390)
T PRK12298        161 DVGLLGLPNAGKSTFIRAVSAAKP-KVADYPFTTLVPNLGVVRVDDERSFVVADIPGLIEGASEG--AGLGIRFLKHLER  237 (390)
T ss_pred             cEEEEcCCCCCHHHHHHHHhCCcc-cccCCCCCccCcEEEEEEeCCCcEEEEEeCCCccccccch--hhHHHHHHHHHHh
Confidence            699999999999999999998875 589999999999999887764 469999999986543221  1122334456889


Q ss_pred             ccEEEEEEeCCC-----CchhHHHHHHHhhccc--CCCCCEEEEEecCCCCChHhHHHHHH
Q 025346          196 ADCIVVLVDACK-----APERIDEILEEGVGDH--KDKLPILLVLNKKDLIKPGEIAKKLE  249 (254)
Q Consensus       196 ~d~iv~vid~~~-----~~~~~~~~~~~~~~~~--~~~~piivV~nK~Dl~~~~~~~~~~~  249 (254)
                      ++++++|+|++.     .......+..++....  ..+.|+++|+||+|+....++.+...
T Consensus       238 advlL~VVD~s~~~~~d~~e~~~~l~~eL~~~~~~L~~kP~IlVlNKiDl~~~~el~~~l~  298 (390)
T PRK12298        238 CRVLLHLIDIAPIDGSDPVENARIIINELEKYSPKLAEKPRWLVFNKIDLLDEEEAEERAK  298 (390)
T ss_pred             CCEEEEEeccCcccccChHHHHHHHHHHHHhhhhhhcCCCEEEEEeCCccCChHHHHHHHH
Confidence            999999999872     2233344444433321  13689999999999987766544433

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=99.72  E-value=1.2e-16  Score=127.56  Aligned_cols=118  Identities=17%  Similarity=0.171  Sum_probs=80.8

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEE--EEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRIL--GICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~--~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .+++++|.+|+|||||++++...++.  ..+.++......  ...++....+.+|||||.  ..+..       .+..++
T Consensus         3 ~ki~vvG~~~vGKTsL~~~~~~~~f~--~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~--~~~~~-------l~~~~~   71 (172)
T cd04141           3 YKIVMLGAGGVGKSAVTMQFISHSFP--DYHDPTIEDAYKQQARIDNEPALLDILDTAGQ--AEFTA-------MRDQYM   71 (172)
T ss_pred             eEEEEECCCCCcHHHHHHHHHhCCCC--CCcCCcccceEEEEEEECCEEEEEEEEeCCCc--hhhHH-------HhHHHh
Confidence            57999999999999999999988774  233333332222  233344567999999993  33222       233457


Q ss_pred             cCccEEEEEEeCCC--CchhHHHHHHHhhcc-cCCCCCEEEEEecCCCCChHhH
Q 025346          194 INADCIVVLVDACK--APERIDEILEEGVGD-HKDKLPILLVLNKKDLIKPGEI  244 (254)
Q Consensus       194 ~~~d~iv~vid~~~--~~~~~~~~~~~~~~~-~~~~~piivV~nK~Dl~~~~~~  244 (254)
                      ..+|++++|+|+++  ++.....|+..+.+. ...+.|+++|+||+|+...+++
T Consensus        72 ~~~d~~ilv~d~~~~~Sf~~~~~~~~~i~~~~~~~~~piilvgNK~Dl~~~~~v  125 (172)
T cd04141          72 RCGEGFIICYSVTDRHSFQEASEFKKLITRVRLTEDIPLVLVGNKVDLESQRQV  125 (172)
T ss_pred             hcCCEEEEEEECCchhHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhhhhcCcc
Confidence            88999999999987  345555554443332 2357999999999999765443

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

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.72  E-value=2.1e-16  Score=143.62  Aligned_cols=131  Identities=27%  Similarity=0.321  Sum_probs=97.6

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccch--hhhhHHHHHHHHH
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKI--HMLDSMMMKNVRS  191 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~--~~~~~~~~~~~~~  191 (254)
                      ...+++++|.+|+|||||+|++++.+...+++.+++|.+.....+...+..+.+|||||+.....  +.++.........
T Consensus       171 ~~~~v~ivG~~~~GKSsLin~l~~~~~~~~~~~~gtt~~~~~~~~~~~~~~~~liDT~G~~~~~~~~~~~e~~~~~~~~~  250 (429)
T TIGR03594       171 GPIKIAIIGRPNVGKSTLVNALLGEERVIVSDIAGTTRDSIDIPFERNGKKYLLIDTAGIRRKGKVTEGVEKYSVLRTLK  250 (429)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHCCCeeecCCCCCceECcEeEEEEECCcEEEEEECCCccccccchhhHHHHHHHHHHH
Confidence            34689999999999999999999988766888999999888777777778999999999754321  1122222233445


Q ss_pred             HccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCC-ChHhHHH
Q 025346          192 AGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLI-KPGEIAK  246 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~-~~~~~~~  246 (254)
                      .+..+|++++|+|++++.......+.....  ..+.|+++|+||+|+. +.+...+
T Consensus       251 ~~~~ad~~ilV~D~~~~~~~~~~~~~~~~~--~~~~~iiiv~NK~Dl~~~~~~~~~  304 (429)
T TIGR03594       251 AIERADVVLLVLDATEGITEQDLRIAGLIL--EAGKALVIVVNKWDLVKDEKTREE  304 (429)
T ss_pred             HHHhCCEEEEEEECCCCccHHHHHHHHHHH--HcCCcEEEEEECcccCCCHHHHHH
Confidence            688999999999999876655544333332  2468999999999998 4443333

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

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=99.72  E-value=1.5e-16  Score=125.65  Aligned_cols=118  Identities=20%  Similarity=0.231  Sum_probs=79.8

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccc---cccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLS---IVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~---~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      +++++|++|+|||||++++.+....   .......+|.......+..++..+.+|||||...  +       ...+..++
T Consensus         1 ~i~~vG~~~~GKstLi~~l~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~l~Dt~G~~~--~-------~~~~~~~~   71 (167)
T cd04160           1 SVLILGLDNAGKTTFLEQLKTLFSKYKGLPPSKITPTVGLNIGTIEVGNARLKFWDLGGQES--L-------RSLWDKYY   71 (167)
T ss_pred             CEEEEecCCCCHHHHHHHHhhhcccccCCcccccCCccccceEEEEECCEEEEEEECCCChh--h-------HHHHHHHh
Confidence            4889999999999999999864321   0111223333333444556688999999999432  1       12344568


Q ss_pred             cCccEEEEEEeCCCC--chhHHHHHHHhhccc-CCCCCEEEEEecCCCCChHh
Q 025346          194 INADCIVVLVDACKA--PERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       194 ~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~~  243 (254)
                      ..+|++++|+|+++.  ......++..+.+.. ..+.|+++|+||+|+.....
T Consensus        72 ~~~~~~v~vvd~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~D~~~~~~  124 (167)
T cd04160          72 AECHAIIYVIDSTDRERFEESKSALEKVLRNEALEGVPLLILANKQDLPDALS  124 (167)
T ss_pred             CCCCEEEEEEECchHHHHHHHHHHHHHHHhChhhcCCCEEEEEEccccccCCC
Confidence            899999999999874  334445555544432 25799999999999976543

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.

>cd04149 Arf6 Arf6 subfamily

Probab=99.72  E-value=2.9e-16  Score=124.86  Aligned_cols=114  Identities=18%  Similarity=0.208  Sum_probs=80.8

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      +..+|+++|.+|+|||||++++....+..  ..|+++...  .........+.+|||||.  ..+.       ..+..++
T Consensus         8 ~~~kv~i~G~~~~GKTsli~~l~~~~~~~--~~~t~g~~~--~~~~~~~~~~~l~Dt~G~--~~~~-------~~~~~~~   74 (168)
T cd04149           8 KEMRILMLGLDAAGKTTILYKLKLGQSVT--TIPTVGFNV--ETVTYKNVKFNVWDVGGQ--DKIR-------PLWRHYY   74 (168)
T ss_pred             CccEEEEECcCCCCHHHHHHHHccCCCcc--ccCCcccce--EEEEECCEEEEEEECCCC--HHHH-------HHHHHHh
Confidence            35689999999999999999998766532  222222221  233456788999999994  2221       2234568


Q ss_pred             cCccEEEEEEeCCC--CchhHHHHHHHhhccc-CCCCCEEEEEecCCCCC
Q 025346          194 INADCIVVLVDACK--APERIDEILEEGVGDH-KDKLPILLVLNKKDLIK  240 (254)
Q Consensus       194 ~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~  240 (254)
                      ..+|++++|+|+++  ++.....++...+... ..+.|+++|+||+|+..
T Consensus        75 ~~a~~ii~v~D~t~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~  124 (168)
T cd04149          75 TGTQGLIFVVDSADRDRIDEARQELHRIINDREMRDALLLVFANKQDLPD  124 (168)
T ss_pred             ccCCEEEEEEeCCchhhHHHHHHHHHHHhcCHhhcCCcEEEEEECcCCcc
Confidence            89999999999988  3555666666665432 25689999999999864

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

>cd01875 RhoG RhoG subfamily

Probab=99.72  E-value=1.4e-16  Score=129.38  Aligned_cols=115  Identities=23%  Similarity=0.239  Sum_probs=81.0

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEE--EEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILG--ICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~--~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      ..+++++|.+|+|||||+.++..+.+.  ..+.+|.......  .+++....+.+|||+|  +..+..+       ...+
T Consensus         3 ~~ki~~vG~~~vGKTsli~~~~~~~f~--~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G--~e~~~~l-------~~~~   71 (191)
T cd01875           3 SIKCVVVGDGAVGKTCLLICYTTNAFP--KEYIPTVFDNYSAQTAVDGRTVSLNLWDTAG--QEEYDRL-------RTLS   71 (191)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCC--cCCCCceEeeeEEEEEECCEEEEEEEEECCC--chhhhhh-------hhhh
Confidence            358999999999999999999988774  2333343332221  2344457899999999  4433333       3345


Q ss_pred             ccCccEEEEEEeCCC--CchhHHH-HHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          193 GINADCIVVLVDACK--APERIDE-ILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       193 ~~~~d~iv~vid~~~--~~~~~~~-~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      ++++|++|+|+|+++  +++.+.. |...+.. ...+.|+++|+||+||.+.
T Consensus        72 ~~~a~~~ilvydit~~~Sf~~~~~~w~~~i~~-~~~~~piilvgNK~DL~~~  122 (191)
T cd01875          72 YPQTNVFIICFSIASPSSYENVRHKWHPEVCH-HCPNVPILLVGTKKDLRND  122 (191)
T ss_pred             ccCCCEEEEEEECCCHHHHHHHHHHHHHHHHh-hCCCCCEEEEEeChhhhcC
Confidence            889999999999987  3555643 4444433 3467999999999999654

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

>cd04144 Ras2 Ras2 subfamily

Probab=99.72  E-value=7e-17  Score=130.90  Aligned_cols=116  Identities=20%  Similarity=0.221  Sum_probs=79.6

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEE--EEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILG--ICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~--~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      +|+++|.+|+|||||++++....+.  ..+++++......  ..++....+.+|||||.  ..+..       ....++.
T Consensus         1 ki~ivG~~~vGKTsli~~l~~~~f~--~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~--~~~~~-------~~~~~~~   69 (190)
T cd04144           1 KLVVLGDGGVGKTALTIQLCLNHFV--ETYDPTIEDSYRKQVVVDGQPCMLEVLDTAGQ--EEYTA-------LRDQWIR   69 (190)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCC--ccCCCchHhhEEEEEEECCEEEEEEEEECCCc--hhhHH-------HHHHHHH
Confidence            4899999999999999999987764  3344444322222  23344456899999993  22222       2334678


Q ss_pred             CccEEEEEEeCCCC--chhHHHHHHHhhccc---CCCCCEEEEEecCCCCChHh
Q 025346          195 NADCIVVLVDACKA--PERIDEILEEGVGDH---KDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       195 ~~d~iv~vid~~~~--~~~~~~~~~~~~~~~---~~~~piivV~nK~Dl~~~~~  243 (254)
                      .+|++++|+|+++.  +..+..++..+....   ..+.|+++|+||+|+.+.+.
T Consensus        70 ~ad~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilvgNK~Dl~~~~~  123 (190)
T cd04144          70 EGEGFILVYSITSRSTFERVERFREQIQRVKDESAADVPIMIVGNKCDKVYERE  123 (190)
T ss_pred             hCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCCEEEEEEChhccccCc
Confidence            99999999999873  455666665554332   25789999999999965433

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.

>cd01878 HflX HflX subfamily

Probab=99.71  E-value=2.4e-16  Score=129.06  Aligned_cols=129  Identities=27%  Similarity=0.350  Sum_probs=84.7

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCC-eeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPE-YQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~-~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      ..++++++|.+|+|||||+|++.+..+. +.+.+++|...........+ ..+.+|||||+...........+.. ....
T Consensus        40 ~~~~I~iiG~~g~GKStLl~~l~~~~~~-~~~~~~~t~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~-~~~~  117 (204)
T cd01878          40 GIPTVALVGYTNAGKSTLFNALTGADVY-AEDQLFATLDPTTRRLRLPDGREVLLTDTVGFIRDLPHQLVEAFRS-TLEE  117 (204)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHhcchhc-cCCccceeccceeEEEEecCCceEEEeCCCccccCCCHHHHHHHHH-HHHH
Confidence            3468999999999999999999998753 44445555554444444434 3899999999754322222222222 2334


Q ss_pred             ccCccEEEEEEeCCCCchh--HHHHHHHhhccc-CCCCCEEEEEecCCCCChHhHH
Q 025346          193 GINADCIVVLVDACKAPER--IDEILEEGVGDH-KDKLPILLVLNKKDLIKPGEIA  245 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~~~~--~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~~~~  245 (254)
                      +..+|++++|+|+++....  ...+. ..+... ..+.|+++|+||+|+.......
T Consensus       118 ~~~~d~ii~v~D~~~~~~~~~~~~~~-~~l~~~~~~~~~viiV~NK~Dl~~~~~~~  172 (204)
T cd01878         118 VAEADLLLHVVDASDPDYEEQIETVE-KVLKELGAEDIPMILVLNKIDLLDDEELE  172 (204)
T ss_pred             HhcCCeEEEEEECCCCChhhHHHHHH-HHHHHcCcCCCCEEEEEEccccCChHHHH
Confidence            6789999999999874322  22222 222222 2468999999999998765543

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.

>cd04140 ARHI_like ARHI subfamily

Probab=99.71  E-value=1.2e-16  Score=126.45  Aligned_cols=117  Identities=24%  Similarity=0.254  Sum_probs=78.6

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEE--EEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRH--RILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~--~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .+|+++|.+|+|||||++++++..+..  .+.++...  ......+.....+.+|||||..  .+..+       ...++
T Consensus         2 ~kv~~vG~~~vGKTsli~~~~~~~f~~--~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~--~~~~~-------~~~~~   70 (165)
T cd04140           2 YRVVVFGAGGVGKSSLVLRFVKGTFRE--SYIPTIEDTYRQVISCSKNICTLQITDTTGSH--QFPAM-------QRLSI   70 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCC--CcCCcchheEEEEEEECCEEEEEEEEECCCCC--cchHH-------HHHHh
Confidence            479999999999999999999887642  22222221  1122234445779999999953  22222       22346


Q ss_pred             cCccEEEEEEeCCC--CchhHHHHHHHhhcc---cCCCCCEEEEEecCCCCChHh
Q 025346          194 INADCIVVLVDACK--APERIDEILEEGVGD---HKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       194 ~~~d~iv~vid~~~--~~~~~~~~~~~~~~~---~~~~~piivV~nK~Dl~~~~~  243 (254)
                      ..++++++|+|+++  ++..+..++..+...   ...+.|+++|+||+|+.+.++
T Consensus        71 ~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~  125 (165)
T cd04140          71 SKGHAFILVYSVTSKQSLEELKPIYELICEIKGNNIEKIPIMLVGNKCDESHKRE  125 (165)
T ss_pred             hcCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCCEEEEEECccccccCe
Confidence            78999999999987  344555555443322   225799999999999976443

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

>cd04121 Rab40 Rab40 subfamily

Probab=99.71  E-value=2.1e-16  Score=128.05  Aligned_cols=117  Identities=19%  Similarity=0.211  Sum_probs=83.9

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCC-CceEEEEEE--EEecCCeeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKP-QTTRHRILG--ICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~-~tt~~~~~~--~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      ..+|+++|..|+|||||+.++....+.  ..+. ..+......  .+++....+.+|||+|.  ..+.       ..+..
T Consensus         6 ~~KivviG~~~vGKTsll~~~~~~~~~--~~~~~t~~~~~~~~~i~~~~~~~~l~iwDt~G~--~~~~-------~l~~~   74 (189)
T cd04121           6 LLKFLLVGDSDVGKGEILASLQDGSTE--SPYGYNMGIDYKTTTILLDGRRVKLQLWDTSGQ--GRFC-------TIFRS   74 (189)
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcCCCC--CCCCCcceeEEEEEEEEECCEEEEEEEEeCCCc--HHHH-------HHHHH
Confidence            468999999999999999999987664  2222 222222222  23344578999999993  3222       23445


Q ss_pred             HccCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          192 AGINADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      +++.+|++++|+|+++  +++.+..|+.++... .++.|++||+||+|+...+.
T Consensus        75 ~~~~ad~illVfD~t~~~Sf~~~~~w~~~i~~~-~~~~piilVGNK~DL~~~~~  127 (189)
T cd04121          75 YSRGAQGIILVYDITNRWSFDGIDRWIKEIDEH-APGVPKILVGNRLHLAFKRQ  127 (189)
T ss_pred             HhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHh-CCCCCEEEEEECccchhccC
Confidence            6789999999999987  567777787776543 36899999999999976433

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

>cd04134 Rho3 Rho3 subfamily

Probab=99.71  E-value=9.5e-17  Score=130.03  Aligned_cols=116  Identities=22%  Similarity=0.239  Sum_probs=79.3

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEE--EEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRIL--GICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~--~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .+|+++|.+|+|||||++++.+..+..  .+.++......  ...++....+.+|||||.  ..+..+       ...++
T Consensus         1 ~kivivG~~~vGKTsli~~~~~~~~~~--~~~~t~~~~~~~~i~~~~~~~~l~i~Dt~G~--~~~~~l-------~~~~~   69 (189)
T cd04134           1 RKVVVLGDGACGKTSLLNVFTRGYFPQ--VYEPTVFENYVHDIFVDGLHIELSLWDTAGQ--EEFDRL-------RSLSY   69 (189)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCC--ccCCcceeeeEEEEEECCEEEEEEEEECCCC--hhcccc-------ccccc
Confidence            379999999999999999999987742  22233222222  223344568999999994  322222       22347


Q ss_pred             cCccEEEEEEeCCCC--chhHH-HHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          194 INADCIVVLVDACKA--PERID-EILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       194 ~~~d~iv~vid~~~~--~~~~~-~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      ..++++++|+|+++.  +..+. .|+..+.. ...+.|+++|+||+|+.+..+
T Consensus        70 ~~a~~~ilv~dv~~~~sf~~~~~~~~~~i~~-~~~~~piilvgNK~Dl~~~~~  121 (189)
T cd04134          70 ADTDVIMLCFSVDSPDSLENVESKWLGEIRE-HCPGVKLVLVALKCDLREARN  121 (189)
T ss_pred             cCCCEEEEEEECCCHHHHHHHHHHHHHHHHH-hCCCCCEEEEEEChhhccChh
Confidence            899999999999884  44444 35555443 345799999999999987654

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.

>cd04112 Rab26 Rab26 subfamily

Probab=99.71  E-value=1.8e-16  Score=128.65  Aligned_cols=115  Identities=21%  Similarity=0.233  Sum_probs=80.9

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceE-EEEE--EEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTR-HRIL--GICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~-~~~~--~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      +|+++|.+|+|||||++++.+..+. ...+++++. ....  ..+++....+.+|||||  +..+.       .....++
T Consensus         2 Ki~vvG~~~vGKTSli~~~~~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G--~~~~~-------~~~~~~~   71 (191)
T cd04112           2 KVMLLGDSGVGKTCLLVRFKDGAFL-NGNFIATVGIDFRNKVVTVDGVKVKLQIWDTAG--QERFR-------SVTHAYY   71 (191)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCC-ccCcCCcccceeEEEEEEECCEEEEEEEEeCCC--cHHHH-------HhhHHHc
Confidence            7999999999999999999988764 223333332 2211  22334457899999999  32221       2234567


Q ss_pred             cCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          194 INADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       194 ~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      ..+|++++|+|+++.  ++.+..|+..+......+.|+++|+||+|+..+
T Consensus        72 ~~ad~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~~  121 (191)
T cd04112          72 RDAHALLLLYDITNKASFDNIRAWLTEIKEYAQEDVVIMLLGNKADMSGE  121 (191)
T ss_pred             cCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEcccchhc
Confidence            899999999999873  455666666665544457899999999999754

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.

>KOG0078 consensus GTP-binding protein SEC4, small G protein superfamily, and related Ras family GTP-binding proteins [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=99.71  E-value=1.3e-16  Score=127.50  Aligned_cols=125  Identities=19%  Similarity=0.177  Sum_probs=95.3

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCc-eEE--EEEEEEecCCeeEEEEecCCCcccchhhhhHHHHH
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQT-TRH--RILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMK  187 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~t-t~~--~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~  187 (254)
                      +.....+++++|.+++|||+++.+|....+.  ..+..| ..+  .....+++....+++|||+|  +++       +..
T Consensus         8 ~~d~~~kvlliGDs~vGKt~~l~rf~d~~f~--~~~~sTiGIDFk~kti~l~g~~i~lQiWDtaG--Qer-------f~t   76 (207)
T KOG0078|consen    8 DYDYLFKLLLIGDSGVGKTCLLLRFSDDSFN--TSFISTIGIDFKIKTIELDGKKIKLQIWDTAG--QER-------FRT   76 (207)
T ss_pred             CcceEEEEEEECCCCCchhHhhhhhhhccCc--CCccceEEEEEEEEEEEeCCeEEEEEEEEccc--chh-------HHH
Confidence            3445679999999999999999999988874  222211 111  22233455667899999999  443       335


Q ss_pred             HHHHHccCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHH
Q 025346          188 NVRSAGINADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAK  246 (254)
Q Consensus       188 ~~~~~~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~  246 (254)
                      .+.+|+++|+++++|+|+++  +++.+..|+..+-+....+.|+++|+||+|+..++++..
T Consensus        77 i~~sYyrgA~gi~LvyDitne~Sfeni~~W~~~I~e~a~~~v~~~LvGNK~D~~~~R~V~~  137 (207)
T KOG0078|consen   77 ITTAYYRGAMGILLVYDITNEKSFENIRNWIKNIDEHASDDVVKILVGNKCDLEEKRQVSK  137 (207)
T ss_pred             HHHHHHhhcCeeEEEEEccchHHHHHHHHHHHHHHhhCCCCCcEEEeeccccccccccccH
Confidence            56788999999999999987  678888888877776667899999999999999777653

>cd04125 RabA_like RabA-like subfamily

Probab=99.71  E-value=1.7e-16  Score=128.25  Aligned_cols=117  Identities=19%  Similarity=0.191  Sum_probs=81.4

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEE--EEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRI--LGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~--~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .+|+++|.+|+|||||++++.+..+.. ...+..+.+..  ....++....+.+|||||.  ..+.       ..+..++
T Consensus         1 ~ki~v~G~~~vGKSsli~~~~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~g~--~~~~-------~~~~~~~   70 (188)
T cd04125           1 FKVVIIGDYGVGKSSLLKRFTEDEFSE-STKSTIGVDFKIKTVYIENKIIKLQIWDTNGQ--ERFR-------SLNNSYY   70 (188)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCC-CCCCceeeEEEEEEEEECCEEEEEEEEECCCc--HHHH-------hhHHHHc
Confidence            379999999999999999999887742 11222222222  2223344567899999993  2221       2344568


Q ss_pred             cCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          194 INADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       194 ~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      ..+|++++|+|+++  ++..+..|+..+......+.|+++|+||+|+.+..
T Consensus        71 ~~~d~iilv~d~~~~~s~~~i~~~~~~i~~~~~~~~~~ivv~nK~Dl~~~~  121 (188)
T cd04125          71 RGAHGYLLVYDVTDQESFENLKFWINEINRYARENVIKVIVANKSDLVNNK  121 (188)
T ss_pred             cCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCCCcccc
Confidence            89999999999987  34556667666655445568999999999998544

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.

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=99.71  E-value=1.5e-16  Score=130.01  Aligned_cols=116  Identities=18%  Similarity=0.240  Sum_probs=81.7

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceE-EEEEEEEe-------cCCeeEEEEecCCCcccchhhhhHHHHHH
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTR-HRILGICS-------GPEYQMILYDTPGIIEKKIHMLDSMMMKN  188 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~-~~~~~~~~-------~~~~~~~liDtpG~~~~~~~~~~~~~~~~  188 (254)
                      +|+++|.+|+|||||++++....+..  .+.+|.. ........       .....+.+|||+|  +..+..+       
T Consensus         2 KIvlvGd~gVGKTSLi~~~~~~~f~~--~~~~Tig~~~~~k~~~~~~~~~~~~~~~l~IwDtaG--~e~~~~l-------   70 (202)
T cd04102           2 RVLVVGDSGVGKSSLVHLICKNQVLG--RPSWTVGCSVDVKHHTYKEGTPEEKTFFVELWDVGG--SESVKST-------   70 (202)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCC--CCCcceeeeEEEEEEEEcCCCCCCcEEEEEEEecCC--chhHHHH-------
Confidence            79999999999999999999987642  2322221 11111111       2346799999999  3333322       


Q ss_pred             HHHHccCccEEEEEEeCCC--CchhHHHHHHHhhccc-------------------CCCCCEEEEEecCCCCChHh
Q 025346          189 VRSAGINADCIVVLVDACK--APERIDEILEEGVGDH-------------------KDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       189 ~~~~~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~-------------------~~~~piivV~nK~Dl~~~~~  243 (254)
                      ...++.+++++|+|+|+++  +++.+..|+.++....                   ..++|+++|+||+|+.+.+.
T Consensus        71 ~~~~yr~ad~iIlVyDvtn~~Sf~~l~~W~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~PiilVGnK~Dl~~~r~  146 (202)
T cd04102          71 RAVFYNQVNGIILVHDLTNRKSSQNLQRWSLEALNKDTFPTGLLVTNGDYDSEQFGGNQIPLLVIGTKLDQIPEKE  146 (202)
T ss_pred             HHHHhCcCCEEEEEEECcChHHHHHHHHHHHHHHHhhccccccccccccccccccCCCCceEEEEEECccchhhcc
Confidence            3345889999999999988  4667778877765421                   24689999999999987653

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.

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=99.71  E-value=1.9e-16  Score=125.36  Aligned_cols=116  Identities=18%  Similarity=0.235  Sum_probs=82.2

Q ss_pred             EEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCcc
Q 025346          118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINAD  197 (254)
Q Consensus       118 ~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d  197 (254)
                      |+++|.+|+|||||++++.+..+.  ..+.+|... ....++..+..+.+|||||.  ..+.       ..+..+++.+|
T Consensus         2 i~ivG~~~vGKTsli~~~~~~~~~--~~~~pt~g~-~~~~i~~~~~~l~i~Dt~G~--~~~~-------~~~~~~~~~ad   69 (164)
T cd04162           2 ILVLGLDGAGKTSLLHSLSSERSL--ESVVPTTGF-NSVAIPTQDAIMELLEIGGS--QNLR-------KYWKRYLSGSQ   69 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcCCCc--ccccccCCc-ceEEEeeCCeEEEEEECCCC--cchh-------HHHHHHHhhCC
Confidence            789999999999999999987653  223223221 12334566789999999994  2222       23345688999


Q ss_pred             EEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHH
Q 025346          198 CIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAK  246 (254)
Q Consensus       198 ~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~  246 (254)
                      ++++|+|+++.  +.....++..+.... .++|+++|+||+|+.....+++
T Consensus        70 ~ii~V~D~t~~~s~~~~~~~l~~~~~~~-~~~piilv~NK~Dl~~~~~~~~  119 (164)
T cd04162          70 GLIFVVDSADSERLPLARQELHQLLQHP-PDLPLVVLANKQDLPAARSVQE  119 (164)
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHhCC-CCCcEEEEEeCcCCcCCCCHHH
Confidence            99999999884  345556666655432 6799999999999987655543

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.

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=99.71  E-value=2e-16  Score=124.61  Aligned_cols=114  Identities=18%  Similarity=0.200  Sum_probs=79.9

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEE--EEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRI--LGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~--~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      +|+++|++|+|||||++++.+.++.. ...+..+.+..  .....+....+.+|||||.  ..+.       .....++.
T Consensus         2 ki~~vG~~~vGKTsli~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~--~~~~-------~~~~~~~~   71 (168)
T cd04119           2 KVISMGNSGVGKSCIIKRYCEGRFVS-KYLPTIGIDYGVKKVSVRNKEVRVNFFDLSGH--PEYL-------EVRNEFYK   71 (168)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCC-CCCCccceeEEEEEEEECCeEEEEEEEECCcc--HHHH-------HHHHHHhc
Confidence            79999999999999999999988642 22222222221  2223345678999999994  2211       23345578


Q ss_pred             CccEEEEEEeCCCC--chhHHHHHHHhhcccC-----CCCCEEEEEecCCCCC
Q 025346          195 NADCIVVLVDACKA--PERIDEILEEGVGDHK-----DKLPILLVLNKKDLIK  240 (254)
Q Consensus       195 ~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~-----~~~piivV~nK~Dl~~  240 (254)
                      .++++++|+|.++.  +.....|+..+.+...     .+.|+++|+||+|+..
T Consensus        72 ~~d~~ilv~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  124 (168)
T cd04119          72 DTQGVLLVYDVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDLTK  124 (168)
T ss_pred             cCCEEEEEEECCCHHHHHhHHHHHHHHHHhccccccCCCceEEEEEEchhccc
Confidence            99999999999873  4556666666655433     4689999999999974

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.

>cd04117 Rab15 Rab15 subfamily

Probab=99.71  E-value=2.6e-16  Score=124.10  Aligned_cols=117  Identities=15%  Similarity=0.189  Sum_probs=81.7

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEE--ecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGIC--SGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~--~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      +++++|++|+|||||++++....+. ....+....+.....+  ......+.+|||||.  ..+..       ....++.
T Consensus         2 ki~vvG~~~~GKTsli~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~--~~~~~-------~~~~~~~   71 (161)
T cd04117           2 RLLLIGDSGVGKTCLLCRFTDNEFH-SSHISTIGVDFKMKTIEVDGIKVRIQIWDTAGQ--ERYQT-------ITKQYYR   71 (161)
T ss_pred             EEEEECcCCCCHHHHHHHHhcCCCC-CCCCCceeeEEEEEEEEECCEEEEEEEEeCCCc--HhHHh-------hHHHHhc
Confidence            6999999999999999999988774 2222222222222222  333467899999993  32222       2334578


Q ss_pred             CccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          195 NADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       195 ~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      .+|++++|+|+++  +++.+..|+..+......+.|+++|+||+|+...+.
T Consensus        72 ~~~~~i~v~d~~~~~sf~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~  122 (161)
T cd04117          72 RAQGIFLVYDISSERSYQHIMKWVSDVDEYAPEGVQKILIGNKADEEQKRQ  122 (161)
T ss_pred             CCcEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccC
Confidence            9999999999987  456667777666554445789999999999976554

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

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

Probab=99.71  E-value=1.9e-16  Score=123.98  Aligned_cols=115  Identities=22%  Similarity=0.197  Sum_probs=79.7

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEE--EecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGI--CSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~--~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .+|+++|.+|+|||||++++.+..+.  ..+.+++.......  ++.....+.+|||||.  ..+..       .+..++
T Consensus         2 ~ki~iiG~~~vGKTsl~~~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~--~~~~~-------l~~~~~   70 (162)
T cd04138           2 YKLVVVGAGGVGKSALTIQLIQNHFV--DEYDPTIEDSYRKQVVIDGETCLLDILDTAGQ--EEYSA-------MRDQYM   70 (162)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCc--CCcCCcchheEEEEEEECCEEEEEEEEECCCC--cchHH-------HHHHHH
Confidence            47999999999999999999988763  33444443333322  3333456889999994  32222       233467


Q ss_pred             cCccEEEEEEeCCCC--chhHHHHHHHhhccc-CCCCCEEEEEecCCCCCh
Q 025346          194 INADCIVVLVDACKA--PERIDEILEEGVGDH-KDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       194 ~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~  241 (254)
                      ..++++++|+|.++.  +.....++..+.+.. ..+.|+++|+||+|+...
T Consensus        71 ~~~~~~i~v~~~~~~~s~~~~~~~~~~i~~~~~~~~~piivv~nK~Dl~~~  121 (162)
T cd04138          71 RTGEGFLCVFAINSRKSFEDIHTYREQIKRVKDSDDVPMVLVGNKCDLAAR  121 (162)
T ss_pred             hcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccc
Confidence            889999999999873  345555665555432 357899999999999763

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.

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.71  E-value=2.5e-16  Score=150.93  Aligned_cols=124  Identities=31%  Similarity=0.414  Sum_probs=102.0

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      .++|+++|.+|+|||||+|++++.+...+.+.+++|++.......+.+..+.+|||||+... ...+...+..+...++.
T Consensus       275 ~~~V~IvG~~nvGKSSL~n~l~~~~~~iv~~~pGvT~d~~~~~~~~~~~~~~liDT~G~~~~-~~~~~~~~~~~~~~~~~  353 (712)
T PRK09518        275 VGVVAIVGRPNVGKSTLVNRILGRREAVVEDTPGVTRDRVSYDAEWAGTDFKLVDTGGWEAD-VEGIDSAIASQAQIAVS  353 (712)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCceeecCCCCeeEEEEEEEEEECCEEEEEEeCCCcCCC-CccHHHHHHHHHHHHHH
Confidence            46899999999999999999999888778899999999888887888889999999997632 23455556667777889


Q ss_pred             CccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          195 NADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       195 ~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      .+|++++|+|++++....+..+...++  ..+.|+++|+||+|+...
T Consensus       354 ~aD~iL~VvDa~~~~~~~d~~i~~~Lr--~~~~pvIlV~NK~D~~~~  398 (712)
T PRK09518        354 LADAVVFVVDGQVGLTSTDERIVRMLR--RAGKPVVLAVNKIDDQAS  398 (712)
T ss_pred             hCCEEEEEEECCCCCCHHHHHHHHHHH--hcCCCEEEEEECcccccc
Confidence            999999999999877666655555444  357999999999999754

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=99.71  E-value=1.8e-16  Score=144.18  Aligned_cols=128  Identities=25%  Similarity=0.310  Sum_probs=94.0

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccC
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGIN  195 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~  195 (254)
                      ..|+++|.+|+|||||+|++.+.+.. ++++|+||.....+.+...+.++.++||||+......  ...+...+...+..
T Consensus       160 adV~LVG~PNAGKSTLln~Ls~akpk-IadypfTTl~P~lGvv~~~~~~f~laDtPGliegas~--g~gLg~~fLrhier  236 (500)
T PRK12296        160 ADVGLVGFPSAGKSSLISALSAAKPK-IADYPFTTLVPNLGVVQAGDTRFTVADVPGLIPGASE--GKGLGLDFLRHIER  236 (500)
T ss_pred             ceEEEEEcCCCCHHHHHHHHhcCCcc-ccccCcccccceEEEEEECCeEEEEEECCCCccccch--hhHHHHHHHHHHHh
Confidence            47999999999999999999988765 6899999999999988888889999999998643211  11122334556788


Q ss_pred             ccEEEEEEeCCC------CchhHHHHHHHhhccc-----------CCCCCEEEEEecCCCCChHhHHH
Q 025346          196 ADCIVVLVDACK------APERIDEILEEGVGDH-----------KDKLPILLVLNKKDLIKPGEIAK  246 (254)
Q Consensus       196 ~d~iv~vid~~~------~~~~~~~~~~~~~~~~-----------~~~~piivV~nK~Dl~~~~~~~~  246 (254)
                      ++++++|+|+++      +......+..++....           ..+.|+++|+||+|+.+..++.+
T Consensus       237 advLv~VVD~s~~e~~rdp~~d~~~i~~EL~~y~~~l~~~~~~~~l~~kP~IVVlNKiDL~da~el~e  304 (500)
T PRK12296        237 CAVLVHVVDCATLEPGRDPLSDIDALEAELAAYAPALDGDLGLGDLAERPRLVVLNKIDVPDARELAE  304 (500)
T ss_pred             cCEEEEEECCcccccccCchhhHHHHHHHHHHhhhcccccchhhhhcCCCEEEEEECccchhhHHHHH
Confidence            999999999974      2223333332332211           24689999999999987655543

>cd04171 SelB SelB subfamily

Probab=99.71  E-value=4.6e-16  Score=122.15  Aligned_cols=115  Identities=23%  Similarity=0.227  Sum_probs=75.7

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccc--cCCCCceEEEEEEEEecC-CeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIV--TNKPQTTRHRILGICSGP-EYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~--~~~~~tt~~~~~~~~~~~-~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .++++|.+|+|||||++++.+......  ...+++|........... +..+.+|||||...         +...+...+
T Consensus         2 ~i~i~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~DtpG~~~---------~~~~~~~~~   72 (164)
T cd04171           2 IIGTAGHIDHGKTTLIKALTGIETDRLPEEKKRGITIDLGFAYLDLPSGKRLGFIDVPGHEK---------FIKNMLAGA   72 (164)
T ss_pred             EEEEEecCCCCHHHHHHHHhCcccccchhhhccCceEEeeeEEEEecCCcEEEEEECCChHH---------HHHHHHhhh
Confidence            589999999999999999997532211  223455555444444444 67899999999421         223344567


Q ss_pred             cCccEEEEEEeCCCCchhH-HHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          194 INADCIVVLVDACKAPERI-DEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       194 ~~~d~iv~vid~~~~~~~~-~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      ..+|++++|+|+++..... ...+. ..... ...|+++|+||+|+....
T Consensus        73 ~~ad~ii~V~d~~~~~~~~~~~~~~-~~~~~-~~~~~ilv~NK~Dl~~~~  120 (164)
T cd04171          73 GGIDLVLLVVAADEGIMPQTREHLE-ILELL-GIKRGLVVLTKADLVDED  120 (164)
T ss_pred             hcCCEEEEEEECCCCccHhHHHHHH-HHHHh-CCCcEEEEEECccccCHH
Confidence            8999999999998743222 22222 22211 224999999999998764

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

>cd04113 Rab4 Rab4 subfamily

Probab=99.71  E-value=2.8e-16  Score=123.52  Aligned_cols=116  Identities=19%  Similarity=0.217  Sum_probs=80.7

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEE--EEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRI--LGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~--~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      +++++|++|+|||||++++.+.++... ..+..+....  ....+.....+.+|||||..  .+       ......++.
T Consensus         2 ki~v~G~~~vGKTsli~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~l~l~D~~G~~--~~-------~~~~~~~~~   71 (161)
T cd04113           2 KFIIIGSSGTGKSCLLHRFVENKFKED-SQHTIGVEFGSKIIRVGGKRVKLQIWDTAGQE--RF-------RSVTRSYYR   71 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCCC-CCCceeeeEEEEEEEECCEEEEEEEEECcchH--HH-------HHhHHHHhc
Confidence            799999999999999999998876422 2222222222  22233444678999999942  21       123345578


Q ss_pred             CccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          195 NADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       195 ~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      .+|++++|+|+++  ++..+..++..+.....++.|+++|+||+|+....
T Consensus        72 ~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~  121 (161)
T cd04113          72 GAAGALLVYDITNRTSFEALPTWLSDARALASPNIVVILVGNKSDLADQR  121 (161)
T ss_pred             CCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcchhc
Confidence            9999999999988  34556667666544445789999999999997643

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

>cd04175 Rap1 Rap1 subgroup

Probab=99.71  E-value=1.5e-16  Score=125.53  Aligned_cols=115  Identities=21%  Similarity=0.252  Sum_probs=81.2

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEE--ecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGIC--SGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~--~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .+++++|.+|+|||||++++....+.  ..+++++.......+  .+....+.+|||||.  ..+..+       ...++
T Consensus         2 ~ki~~~G~~~~GKTsli~~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~--~~~~~~-------~~~~~   70 (164)
T cd04175           2 YKLVVLGSGGVGKSALTVQFVQGIFV--EKYDPTIEDSYRKQVEVDGQQCMLEILDTAGT--EQFTAM-------RDLYM   70 (164)
T ss_pred             cEEEEECCCCCCHHHHHHHHHhCCCC--cccCCcchheEEEEEEECCEEEEEEEEECCCc--ccchhH-------HHHHH
Confidence            47999999999999999999977653  344455543333223  333567889999994  333332       33457


Q ss_pred             cCccEEEEEEeCCC--CchhHHHHHHHhhccc-CCCCCEEEEEecCCCCCh
Q 025346          194 INADCIVVLVDACK--APERIDEILEEGVGDH-KDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       194 ~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~  241 (254)
                      ..+|++++|+|.++  +++....++..+.... ..+.|+++|+||+|+...
T Consensus        71 ~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~  121 (164)
T cd04175          71 KNGQGFVLVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDE  121 (164)
T ss_pred             hhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcchhc
Confidence            88999999999976  3455666766665432 367999999999999754

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

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=99.71  E-value=1.4e-16  Score=128.41  Aligned_cols=115  Identities=17%  Similarity=0.182  Sum_probs=82.0

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEE--EEecCCeeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILG--ICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~--~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      ...+++++|.+|+|||||++++....+.  ..+.+|.......  .++.....+.+|||+|  +..+..+       ...
T Consensus         4 ~~~KivvvGd~~vGKTsli~~~~~~~f~--~~~~pT~~~~~~~~~~~~~~~~~l~iwDtaG--~e~~~~~-------~~~   72 (182)
T cd04172           4 VKCKIVVVGDSQCGKTALLHVFAKDCFP--ENYVPTVFENYTASFEIDTQRIELSLWDTSG--SPYYDNV-------RPL   72 (182)
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhCCCC--CccCCceeeeeEEEEEECCEEEEEEEEECCC--chhhHhh-------hhh
Confidence            3468999999999999999999998774  3444443332222  2344557899999999  4333332       234


Q ss_pred             HccCccEEEEEEeCCC--CchhH-HHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          192 AGINADCIVVLVDACK--APERI-DEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~--~~~~~-~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      +++++|++++|+|+++  +++.+ ..|+..+.. ..++.|+++|+||+||..
T Consensus        73 ~~~~ad~~ilvyDit~~~Sf~~~~~~w~~~i~~-~~~~~piilVgNK~DL~~  123 (182)
T cd04172          73 SYPDSDAVLICFDISRPETLDSVLKKWKGEIQE-FCPNTKMLLVGCKSDLRT  123 (182)
T ss_pred             hcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHH-HCCCCCEEEEeEChhhhc
Confidence            5889999999999988  45555 456555544 346799999999999854

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

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=99.71  E-value=1.7e-16  Score=138.93  Aligned_cols=131  Identities=27%  Similarity=0.316  Sum_probs=95.0

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCC-eeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPE-YQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~-~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      ..|+++|.+++|||||++++...+.. ++++++||..+..+.+...+ .++.++||||+.......  ..+...+...+.
T Consensus       158 adV~lvG~pnaGKSTLl~~lt~~~~~-va~y~fTT~~p~ig~v~~~~~~~~~i~D~PGli~~a~~~--~gLg~~flrhie  234 (329)
T TIGR02729       158 ADVGLVGLPNAGKSTLISAVSAAKPK-IADYPFTTLVPNLGVVRVDDGRSFVIADIPGLIEGASEG--AGLGHRFLKHIE  234 (329)
T ss_pred             ccEEEEcCCCCCHHHHHHHHhcCCcc-ccCCCCCccCCEEEEEEeCCceEEEEEeCCCcccCCccc--ccHHHHHHHHHH
Confidence            46999999999999999999987654 78899999888888777665 889999999986433211  112234455578


Q ss_pred             CccEEEEEEeCCCC-----chhHHHHHHHhhccc--CCCCCEEEEEecCCCCChHhHHHHHH
Q 025346          195 NADCIVVLVDACKA-----PERIDEILEEGVGDH--KDKLPILLVLNKKDLIKPGEIAKKLE  249 (254)
Q Consensus       195 ~~d~iv~vid~~~~-----~~~~~~~~~~~~~~~--~~~~piivV~nK~Dl~~~~~~~~~~~  249 (254)
                      .++++++|+|+++.     .+....+..++....  ..+.|+++|+||+|+..++...+..+
T Consensus       235 rad~ll~VvD~s~~~~~~~~e~l~~l~~EL~~~~~~l~~kp~IIV~NK~DL~~~~~~~~~~~  296 (329)
T TIGR02729       235 RTRVLLHLIDISPLDGRDPIEDYEIIRNELKKYSPELAEKPRIVVLNKIDLLDEEELAELLK  296 (329)
T ss_pred             hhCEEEEEEcCccccccCHHHHHHHHHHHHHHhhhhhccCCEEEEEeCccCCChHHHHHHHH
Confidence            89999999999853     234444444433321  14689999999999987765544433

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.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.71  E-value=4.8e-16  Score=141.45  Aligned_cols=132  Identities=26%  Similarity=0.314  Sum_probs=99.4

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchh--hhhHHHHHHHHH
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIH--MLDSMMMKNVRS  191 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~--~~~~~~~~~~~~  191 (254)
                      ...+++++|.+|+|||||+|++++.....+++.+++|++.....+...+..+.+|||||+......  .++.........
T Consensus       172 ~~~~v~ivG~~n~GKStlin~ll~~~~~~~~~~~gtt~~~~~~~~~~~~~~~~lvDT~G~~~~~~~~~~~e~~~~~~~~~  251 (435)
T PRK00093        172 EPIKIAIIGRPNVGKSSLINALLGEERVIVSDIAGTTRDSIDTPFERDGQKYTLIDTAGIRRKGKVTEGVEKYSVIRTLK  251 (435)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCceeecCCCCceEEEEEEEEEECCeeEEEEECCCCCCCcchhhHHHHHHHHHHHH
Confidence            467999999999999999999999887668889999999887777778888999999997543211  122222233445


Q ss_pred             HccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHHH
Q 025346          192 AGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKK  247 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~~  247 (254)
                      .+..+|++++|+|++.+.......+.....  ..+.|+++|+||+|+.+++...+.
T Consensus       252 ~~~~ad~~ilViD~~~~~~~~~~~i~~~~~--~~~~~~ivv~NK~Dl~~~~~~~~~  305 (435)
T PRK00093        252 AIERADVVLLVIDATEGITEQDLRIAGLAL--EAGRALVIVVNKWDLVDEKTMEEF  305 (435)
T ss_pred             HHHHCCEEEEEEeCCCCCCHHHHHHHHHHH--HcCCcEEEEEECccCCCHHHHHHH
Confidence            678999999999999876655544443333  246899999999999866544433

>smart00175 RAB Rab subfamily of small GTPases

Probab=99.71  E-value=3.4e-16  Score=122.99  Aligned_cols=115  Identities=23%  Similarity=0.241  Sum_probs=79.5

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEe--cCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICS--GPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~--~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      +|+++|++|+|||||++++.+..+. ....+..+.........  .....+.+|||||.  ..+.       .....++.
T Consensus         2 kv~v~G~~~~GKTtli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~--~~~~-------~~~~~~~~   71 (164)
T smart00175        2 KIILIGDSGVGKSSLLSRFTDGKFS-EQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQ--ERFR-------SITSSYYR   71 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCC-CCCCCceeeEEEEEEEEECCEEEEEEEEECCCh--HHHH-------HHHHHHhC
Confidence            7999999999999999999988763 22223323222222222  33367899999993  2211       23345578


Q ss_pred             CccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          195 NADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       195 ~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      .+|++++|+|+++.  ++.+..|+..+......+.|+++|+||+|+...
T Consensus        72 ~~d~~ilv~d~~~~~s~~~~~~~l~~~~~~~~~~~pivvv~nK~D~~~~  120 (164)
T smart00175       72 GAVGALLVYDITNRESFENLKNWLKELREYADPNVVIMLVGNKSDLEDQ  120 (164)
T ss_pred             CCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcccc
Confidence            89999999999873  344555666655544468999999999999764

Rab GTPases are implicated in vesicle trafficking.

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=99.71  E-value=1.6e-16  Score=125.21  Aligned_cols=115  Identities=23%  Similarity=0.236  Sum_probs=78.7

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEE--EEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRIL--GICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~--~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      +|+++|++|+|||||++++.+..+.  ..+.+++.+...  ...+.....+.+|||||..  .+..+       ...++.
T Consensus         2 ki~v~G~~~~GKTsli~~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~g~~--~~~~~-------~~~~~~   70 (164)
T smart00173        2 KLVVLGSGGVGKSALTIQFVQGHFV--DDYDPTIEDSYRKQIEIDGEVCLLDILDTAGQE--EFSAM-------RDQYMR   70 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCcCC--cccCCchhhhEEEEEEECCEEEEEEEEECCCcc--cchHH-------HHHHHh
Confidence            7999999999999999999987764  233333332222  2233445688999999943  22222       234577


Q ss_pred             CccEEEEEEeCCCC--chhHHHHHHHhhccc-CCCCCEEEEEecCCCCChH
Q 025346          195 NADCIVVLVDACKA--PERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       195 ~~d~iv~vid~~~~--~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~  242 (254)
                      .++++++|+|+++.  +.....+...+.+.. ..+.|+++|+||+|+....
T Consensus        71 ~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~pii~v~nK~Dl~~~~  121 (164)
T smart00173       71 TGEGFLLVYSITDRQSFEEIKKFREQILRVKDRDDVPIVLVGNKCDLESER  121 (164)
T ss_pred             hCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccc
Confidence            89999999999873  345555555544332 2468999999999997643

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

>cd04154 Arl2 Arl2 subfamily

Probab=99.71  E-value=4.5e-16  Score=124.07  Aligned_cols=117  Identities=19%  Similarity=0.284  Sum_probs=81.0

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      ....+++++|++|+|||||++++.+..+....   +|.. ........++..+.+|||||..  .+       ...+..+
T Consensus        12 ~~~~kv~ivG~~~~GKTsL~~~l~~~~~~~~~---~t~g-~~~~~~~~~~~~l~l~D~~G~~--~~-------~~~~~~~   78 (173)
T cd04154          12 EREMRILILGLDNAGKTTILKKLLGEDIDTIS---PTLG-FQIKTLEYEGYKLNIWDVGGQK--TL-------RPYWRNY   78 (173)
T ss_pred             CCccEEEEECCCCCCHHHHHHHHccCCCCCcC---Cccc-cceEEEEECCEEEEEEECCCCH--HH-------HHHHHHH
Confidence            44578999999999999999999987543222   2211 1122233457889999999942  21       1234456


Q ss_pred             ccCccEEEEEEeCCCC--chhHHHHHHHhhcc-cCCCCCEEEEEecCCCCChH
Q 025346          193 GINADCIVVLVDACKA--PERIDEILEEGVGD-HKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~-~~~~~piivV~nK~Dl~~~~  242 (254)
                      +..+|++++|+|+++.  +.....++..++.. ...+.|+++|+||+|+....
T Consensus        79 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~  131 (173)
T cd04154          79 FESTDALIWVVDSSDRLRLDDCKRELKELLQEERLAGATLLILANKQDLPGAL  131 (173)
T ss_pred             hCCCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcccccCC
Confidence            8899999999999884  44455556555432 23679999999999997643

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.

>cd04157 Arl6 Arl6 subfamily

Probab=99.71  E-value=3.2e-16  Score=123.05  Aligned_cols=114  Identities=21%  Similarity=0.208  Sum_probs=77.4

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINA  196 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~  196 (254)
                      +|+++|.+|+|||||++++.+.... ...+.+|.. .........+..+.+|||||..  .+.       ..+..++..+
T Consensus         1 ~i~~vG~~~~GKTsl~~~l~~~~~~-~~~~~~t~g-~~~~~~~~~~~~~~l~Dt~G~~--~~~-------~~~~~~~~~~   69 (162)
T cd04157           1 NILVVGLDNSGKTTIINQLKPENAQ-SQIIVPTVG-FNVESFEKGNLSFTAFDMSGQG--KYR-------GLWEHYYKNI   69 (162)
T ss_pred             CEEEECCCCCCHHHHHHHHcccCCC-cceecCccc-cceEEEEECCEEEEEEECCCCH--hhH-------HHHHHHHccC
Confidence            4789999999999999999986532 122222221 1122344567889999999942  221       2344567899


Q ss_pred             cEEEEEEeCCCCc--hhHHHHHHHhhccc---CCCCCEEEEEecCCCCCh
Q 025346          197 DCIVVLVDACKAP--ERIDEILEEGVGDH---KDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       197 d~iv~vid~~~~~--~~~~~~~~~~~~~~---~~~~piivV~nK~Dl~~~  241 (254)
                      |++++|+|+++..  .....++..+.+..   ..+.|+++|+||+|+...
T Consensus        70 d~ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~~  119 (162)
T cd04157          70 QGIIFVIDSSDRLRLVVVKDELELLLNHPDIKHRRVPILFFANKMDLPDA  119 (162)
T ss_pred             CEEEEEEeCCcHHHHHHHHHHHHHHHcCcccccCCCCEEEEEeCccccCC
Confidence            9999999998743  33445555544421   257999999999999764

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

>cd01893 Miro1 Miro1 subfamily

Probab=99.70  E-value=1.9e-16  Score=125.36  Aligned_cols=116  Identities=22%  Similarity=0.279  Sum_probs=78.4

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEE-EEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccC
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHR-ILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGIN  195 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~-~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~  195 (254)
                      +++++|.+|+|||||++++....+..  .++.+.... ....+......+.+|||||.....         ..+..++..
T Consensus         2 kv~ivG~~~vGKTsl~~~l~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~---------~~~~~~~~~   70 (166)
T cd01893           2 RIVLIGDEGVGKSSLIMSLVSEEFPE--NVPRVLPEITIPADVTPERVPTTIVDTSSRPQDR---------ANLAAEIRK   70 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCcCCc--cCCCcccceEeeeeecCCeEEEEEEeCCCchhhh---------HHHhhhccc
Confidence            79999999999999999999987742  233322211 122334566789999999953221         223344688


Q ss_pred             ccEEEEEEeCCCCc--hhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          196 ADCIVVLVDACKAP--ERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       196 ~d~iv~vid~~~~~--~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      +|++++|+|+++..  +.+...+...++....+.|+++|+||+|+.+...
T Consensus        71 ad~~ilv~d~~~~~s~~~~~~~~~~~i~~~~~~~pviiv~nK~Dl~~~~~  120 (166)
T cd01893          71 ANVICLVYSVDRPSTLERIRTKWLPLIRRLGVKVPIILVGNKSDLRDGSS  120 (166)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEchhcccccc
Confidence            99999999998743  3333333333333345799999999999976543

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.

>cd04131 Rnd Rnd subfamily

Probab=99.70  E-value=1.4e-16  Score=127.86  Aligned_cols=113  Identities=17%  Similarity=0.167  Sum_probs=80.2

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEE--EEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILG--ICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~--~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .+++++|.+|+|||||++++.+..+.  ..+.+|.......  .++.....+.+|||+|  +..+..+       ...++
T Consensus         2 ~Kiv~vG~~~vGKTsli~~~~~~~f~--~~~~~t~~~~~~~~~~~~~~~~~l~iwDt~G--~~~~~~~-------~~~~~   70 (178)
T cd04131           2 CKIVVVGDVQCGKTALLQVFAKDCYP--ETYVPTVFENYTASFEIDEQRIELSLWDTSG--SPYYDNV-------RPLCY   70 (178)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCcCC--CCcCCceEEEEEEEEEECCEEEEEEEEECCC--chhhhhc-------chhhc
Confidence            47999999999999999999988774  3344443322222  2344557899999999  3333332       22357


Q ss_pred             cCccEEEEEEeCCC--CchhH-HHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          194 INADCIVVLVDACK--APERI-DEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       194 ~~~d~iv~vid~~~--~~~~~-~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      +.+|++++|+|+++  +++.+ ..|+..+.+ ..++.|+++|+||+||..
T Consensus        71 ~~a~~~ilvfdit~~~Sf~~~~~~w~~~i~~-~~~~~~iilVgnK~DL~~  119 (178)
T cd04131          71 PDSDAVLICFDISRPETLDSVLKKWRGEIQE-FCPNTKVLLVGCKTDLRT  119 (178)
T ss_pred             CCCCEEEEEEECCChhhHHHHHHHHHHHHHH-HCCCCCEEEEEEChhhhc
Confidence            89999999999987  45554 456655543 346799999999999854

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.

>cd04158 ARD1 ARD1 subfamily

Probab=99.70  E-value=3.4e-16  Score=124.42  Aligned_cols=112  Identities=16%  Similarity=0.175  Sum_probs=81.0

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINA  196 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~  196 (254)
                      +++++|.+|+|||||++++.+..+.  . +.+| ...........+..+.+|||||....         ...+..++..+
T Consensus         1 ~vvlvG~~~~GKTsl~~~l~~~~~~--~-~~~T-~~~~~~~~~~~~~~i~l~Dt~G~~~~---------~~~~~~~~~~a   67 (169)
T cd04158           1 RVVTLGLDGAGKTTILFKLKQDEFM--Q-PIPT-IGFNVETVEYKNLKFTIWDVGGKHKL---------RPLWKHYYLNT   67 (169)
T ss_pred             CEEEECCCCCCHHHHHHHHhcCCCC--C-cCCc-CceeEEEEEECCEEEEEEECCCChhc---------chHHHHHhccC
Confidence            5889999999999999999987543  2 2222 22222345567889999999994321         12344567899


Q ss_pred             cEEEEEEeCCCC--chhHHHHHHHhhccc-CCCCCEEEEEecCCCCCh
Q 025346          197 DCIVVLVDACKA--PERIDEILEEGVGDH-KDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       197 d~iv~vid~~~~--~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~  241 (254)
                      |++++|+|+++.  +.....++..+.... ..+.|+++|+||+|+...
T Consensus        68 d~ii~V~D~s~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~  115 (169)
T cd04158          68 QAVVFVVDSSHRDRVSEAHSELAKLLTEKELRDALLLIFANKQDVAGA  115 (169)
T ss_pred             CEEEEEEeCCcHHHHHHHHHHHHHHhcChhhCCCCEEEEEeCcCcccC
Confidence            999999999873  566667777766543 245899999999999654

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

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=99.70  E-value=2.4e-16  Score=130.67  Aligned_cols=115  Identities=14%  Similarity=0.146  Sum_probs=81.0

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEE--EEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRIL--GICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~--~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .+|+++|.+|+|||||++++....+.  ..+.+|......  ..+++....+.+|||+|  +..+..+       ...++
T Consensus         2 ~KIvvvGd~~vGKTsLi~~~~~~~f~--~~y~pTi~~~~~~~~~~~~~~v~L~iwDt~G--~e~~~~l-------~~~~~   70 (222)
T cd04173           2 CKIVVVGDAECGKTALLQVFAKDAYP--GSYVPTVFENYTASFEIDKRRIELNMWDTSG--SSYYDNV-------RPLAY   70 (222)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCC--CccCCccccceEEEEEECCEEEEEEEEeCCC--cHHHHHH-------hHHhc
Confidence            47999999999999999999988774  334444332222  23344567899999999  3333333       22458


Q ss_pred             cCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          194 INADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       194 ~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      ..+|++++|+|+++.  ++.+...|...+....++.|+++|+||+|+...
T Consensus        71 ~~~d~illvfdis~~~Sf~~i~~~w~~~~~~~~~~~piiLVgnK~DL~~~  120 (222)
T cd04173          71 PDSDAVLICFDISRPETLDSVLKKWQGETQEFCPNAKVVLVGCKLDMRTD  120 (222)
T ss_pred             cCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEEECcccccc
Confidence            999999999999884  455544444444445578999999999999653

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

>cd04176 Rap2 Rap2 subgroup

Probab=99.70  E-value=2e-16  Score=124.60  Aligned_cols=115  Identities=23%  Similarity=0.221  Sum_probs=79.7

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEE--EEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRIL--GICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~--~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .+++++|.+|+|||||++++....+.  ..+.++......  ...++....+.+|||||.  ..+..+       +..++
T Consensus         2 ~ki~i~G~~~vGKTsl~~~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~--~~~~~~-------~~~~~   70 (163)
T cd04176           2 YKVVVLGSGGVGKSALTVQFVSGTFI--EKYDPTIEDFYRKEIEVDSSPSVLEILDTAGT--EQFASM-------RDLYI   70 (163)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCC--CCCCCchhheEEEEEEECCEEEEEEEEECCCc--ccccch-------HHHHH
Confidence            47999999999999999999988764  223333322222  223344456889999994  333333       23457


Q ss_pred             cCccEEEEEEeCCC--CchhHHHHHHHhhccc-CCCCCEEEEEecCCCCCh
Q 025346          194 INADCIVVLVDACK--APERIDEILEEGVGDH-KDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       194 ~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~  241 (254)
                      ..+|++++|+|+++  ++.....++..+.... ..+.|+++|+||+|+...
T Consensus        71 ~~ad~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piviv~nK~Dl~~~  121 (163)
T cd04176          71 KNGQGFIVVYSLVNQQTFQDIKPMRDQIVRVKGYEKVPIILVGNKVDLESE  121 (163)
T ss_pred             hhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchhc
Confidence            88999999999988  3456666665555432 257999999999999654

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

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=99.70  E-value=3.4e-16  Score=124.70  Aligned_cols=115  Identities=24%  Similarity=0.343  Sum_probs=81.6

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceE-EEEEE--EEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTR-HRILG--ICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~-~~~~~--~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      +|+++|.+|+|||||++++.++.+.  ..+.+|.. .....  ...+....+.+|||||.  ..+.       .....++
T Consensus         2 ki~ivG~~~vGKTsli~~~~~~~f~--~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~--~~~~-------~~~~~~~   70 (170)
T cd04108           2 KVIVVGDLSVGKTCLINRFCKDVFD--KNYKATIGVDFEMERFEILGVPFSLQLWDTAGQ--ERFK-------CIASTYY   70 (170)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCC--CCCCCceeeEEEEEEEEECCEEEEEEEEeCCCh--HHHH-------hhHHHHh
Confidence            6899999999999999999998774  33333332 22222  22344568999999993  3222       2234558


Q ss_pred             cCccEEEEEEeCCC--CchhHHHHHHHhhccc-CCCCCEEEEEecCCCCChH
Q 025346          194 INADCIVVLVDACK--APERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       194 ~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~  242 (254)
                      +.+|++++|+|+++  ++.....|+..+.+.. ..+.|+++|+||+|+.+..
T Consensus        71 ~~ad~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~  122 (170)
T cd04108          71 RGAQAIIIVFDLTDVASLEHTRQWLEDALKENDPSSVLLFLVGTKKDLSSPA  122 (170)
T ss_pred             cCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEChhcCccc
Confidence            89999999999987  5666777777665443 3357899999999996543

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

>PLN00223 ADP-ribosylation factor; Provisional

Probab=99.70  E-value=5.2e-16  Score=124.94  Aligned_cols=118  Identities=16%  Similarity=0.168  Sum_probs=82.3

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      +..+++++|.+++|||||++++....+..  ..|....  ........+..+.+|||||.  ..       +...+..++
T Consensus        16 ~~~ki~ivG~~~~GKTsl~~~l~~~~~~~--~~pt~g~--~~~~~~~~~~~~~i~D~~Gq--~~-------~~~~~~~~~   82 (181)
T PLN00223         16 KEMRILMVGLDAAGKTTILYKLKLGEIVT--TIPTIGF--NVETVEYKNISFTVWDVGGQ--DK-------IRPLWRHYF   82 (181)
T ss_pred             CccEEEEECCCCCCHHHHHHHHccCCCcc--ccCCcce--eEEEEEECCEEEEEEECCCC--HH-------HHHHHHHHh
Confidence            34689999999999999999998766532  2222222  22234566789999999993  22       223455678


Q ss_pred             cCccEEEEEEeCCCC--chhHHHHHHHhhcc-cCCCCCEEEEEecCCCCChHhH
Q 025346          194 INADCIVVLVDACKA--PERIDEILEEGVGD-HKDKLPILLVLNKKDLIKPGEI  244 (254)
Q Consensus       194 ~~~d~iv~vid~~~~--~~~~~~~~~~~~~~-~~~~~piivV~nK~Dl~~~~~~  244 (254)
                      .++|++|+|+|+++.  ......++...+.. ...+.|+++|+||+|+.+....
T Consensus        83 ~~a~~iI~V~D~s~~~s~~~~~~~l~~~l~~~~~~~~piilv~NK~Dl~~~~~~  136 (181)
T PLN00223         83 QNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNA  136 (181)
T ss_pred             ccCCEEEEEEeCCcHHHHHHHHHHHHHHhcCHhhCCCCEEEEEECCCCCCCCCH
Confidence            999999999999873  44444555554432 2257899999999999765433

>cd04133 Rop_like Rop subfamily

Probab=99.70  E-value=1.7e-16  Score=127.17  Aligned_cols=114  Identities=22%  Similarity=0.222  Sum_probs=81.7

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEE--EEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILG--ICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~--~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .+++++|.+|+|||||+.++..+.+.  ..+.+|.......  ..++....+.+|||+|  +..+..+..       .++
T Consensus         2 ~kivv~G~~~vGKTsli~~~~~~~f~--~~~~~Ti~~~~~~~~~~~~~~v~l~i~Dt~G--~~~~~~~~~-------~~~   70 (176)
T cd04133           2 IKCVTVGDGAVGKTCMLICYTSNKFP--TDYIPTVFDNFSANVSVDGNTVNLGLWDTAG--QEDYNRLRP-------LSY   70 (176)
T ss_pred             eEEEEECCCCCcHHHHHHHHhcCCCC--CCCCCcceeeeEEEEEECCEEEEEEEEECCC--Cccccccch-------hhc
Confidence            37999999999999999999998874  2333343322222  2344457899999999  444443332       358


Q ss_pred             cCccEEEEEEeCCC--CchhH-HHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          194 INADCIVVLVDACK--APERI-DEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       194 ~~~d~iv~vid~~~--~~~~~-~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      ++++++++|+|.++  +++.+ ..|+..+.+. ..+.|+++|+||+|+.+.
T Consensus        71 ~~a~~~ilvyd~~~~~Sf~~~~~~w~~~i~~~-~~~~piilvgnK~Dl~~~  120 (176)
T cd04133          71 RGADVFVLAFSLISRASYENVLKKWVPELRHY-APNVPIVLVGTKLDLRDD  120 (176)
T ss_pred             CCCcEEEEEEEcCCHHHHHHHHHHHHHHHHHh-CCCCCEEEEEeChhhccC
Confidence            89999999999987  45565 4566665433 457999999999999654

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,

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.70  E-value=3.4e-16  Score=143.67  Aligned_cols=127  Identities=27%  Similarity=0.302  Sum_probs=92.2

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhh-hHHHH-HHHHH
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHML-DSMMM-KNVRS  191 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~-~~~~~-~~~~~  191 (254)
                      ...+++++|.+|+|||||+|++++.....+++.+++|.+.....+...+..+.+|||||+........ ...+. .....
T Consensus       210 ~~~kI~iiG~~nvGKSSLin~l~~~~~~~~s~~~gtT~d~~~~~~~~~~~~~~l~DTaG~~~~~~~~~~~e~~~~~~~~~  289 (472)
T PRK03003        210 GPRRVALVGKPNVGKSSLLNKLAGEERSVVDDVAGTTVDPVDSLIELGGKTWRFVDTAGLRRRVKQASGHEYYASLRTHA  289 (472)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCcccccCCCCccCCcceEEEEECCEEEEEEECCCccccccccchHHHHHHHHHHH
Confidence            45799999999999999999999988766888999998887777777788899999999743221111 11111 11223


Q ss_pred             HccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          192 AGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      .+..+|++++|+|+++........+.....  ..+.|+++|+||+|+...+
T Consensus       290 ~i~~ad~vilV~Da~~~~s~~~~~~~~~~~--~~~~piIiV~NK~Dl~~~~  338 (472)
T PRK03003        290 AIEAAEVAVVLIDASEPISEQDQRVLSMVI--EAGRALVLAFNKWDLVDED  338 (472)
T ss_pred             HHhcCCEEEEEEeCCCCCCHHHHHHHHHHH--HcCCCEEEEEECcccCChh
Confidence            568999999999999865443332222222  3578999999999998643

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

Probab=99.70  E-value=4.5e-16  Score=124.56  Aligned_cols=115  Identities=20%  Similarity=0.212  Sum_probs=81.4

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      ...+++++|.+|+|||||++++...++.  . +.+|+.... .........+.+|||||.  ..+       ...+..++
T Consensus        12 ~~~ki~l~G~~~~GKTsL~~~~~~~~~~--~-~~~t~~~~~-~~~~~~~~~l~l~D~~G~--~~~-------~~~~~~~~   78 (175)
T smart00177       12 KEMRILMVGLDAAGKTTILYKLKLGESV--T-TIPTIGFNV-ETVTYKNISFTVWDVGGQ--DKI-------RPLWRHYY   78 (175)
T ss_pred             CccEEEEEcCCCCCHHHHHHHHhcCCCC--C-cCCccccce-EEEEECCEEEEEEECCCC--hhh-------HHHHHHHh
Confidence            3478999999999999999999866653  2 222322211 233456788999999994  222       23345668


Q ss_pred             cCccEEEEEEeCCCC--chhHHHHHHHhhccc-CCCCCEEEEEecCCCCCh
Q 025346          194 INADCIVVLVDACKA--PERIDEILEEGVGDH-KDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       194 ~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~  241 (254)
                      ..+|++|+|+|+++.  ++....++..+++.. ..+.|+++|+||+|+.+.
T Consensus        79 ~~ad~ii~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~  129 (175)
T smart00177       79 TNTQGLIFVVDSNDRDRIDEAREELHRMLNEDELRDAVILVFANKQDLPDA  129 (175)
T ss_pred             CCCCEEEEEEECCCHHHHHHHHHHHHHHhhCHhhcCCcEEEEEeCcCcccC
Confidence            999999999999874  455666666655432 256899999999999654

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).

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=99.70  E-value=5.3e-16  Score=126.85  Aligned_cols=113  Identities=21%  Similarity=0.255  Sum_probs=78.2

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCce-EEEEEEE--Ee-cCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTT-RHRILGI--CS-GPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt-~~~~~~~--~~-~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      +|+++|.+|+|||||++++.+..+.  ..+.+|. .+.....  .+ +....+.+|||||.  ..+.       ..+..+
T Consensus         2 KivivG~~~vGKTsli~~l~~~~~~--~~~~~t~~~d~~~~~v~~~~~~~~~l~l~Dt~G~--~~~~-------~~~~~~   70 (201)
T cd04107           2 KVLVIGDLGVGKTSIIKRYVHGIFS--QHYKATIGVDFALKVIEWDPNTVVRLQLWDIAGQ--ERFG-------GMTRVY   70 (201)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCC--CCCCCceeEEEEEEEEEECCCCEEEEEEEECCCc--hhhh-------hhHHHH
Confidence            7999999999999999999988764  2232332 2222222  23 44678999999994  2222       223456


Q ss_pred             ccCccEEEEEEeCCC--CchhHHHHHHHhhcc----cCCCCCEEEEEecCCCCC
Q 025346          193 GINADCIVVLVDACK--APERIDEILEEGVGD----HKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       193 ~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~----~~~~~piivV~nK~Dl~~  240 (254)
                      +..++++++|+|+++  +++.+..|+..+...    ...++|+++|+||+|+.+
T Consensus        71 ~~~a~~~ilv~D~t~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~NK~Dl~~  124 (201)
T cd04107          71 YRGAVGAIIVFDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPCLLLANKCDLKK  124 (201)
T ss_pred             hCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhcccCCCCCcEEEEEECCCccc
Confidence            899999999999987  355565565544322    135789999999999973

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.

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

Probab=99.70  E-value=5.2e-16  Score=125.18  Aligned_cols=115  Identities=23%  Similarity=0.220  Sum_probs=80.9

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      .+..+++++|.+|+|||||++++.+..+..+.+    |...........+..+.+|||||....         ...+..+
T Consensus        15 ~~~~~i~ivG~~~~GKTsli~~l~~~~~~~~~~----t~~~~~~~~~~~~~~~~~~D~~G~~~~---------~~~~~~~   81 (184)
T smart00178       15 NKHAKILFLGLDNAGKTTLLHMLKNDRLAQHQP----TQHPTSEELAIGNIKFTTFDLGGHQQA---------RRLWKDY   81 (184)
T ss_pred             cccCEEEEECCCCCCHHHHHHHHhcCCCcccCC----ccccceEEEEECCEEEEEEECCCCHHH---------HHHHHHH
Confidence            445789999999999999999999887643221    222223344456788999999994221         1334466


Q ss_pred             ccCccEEEEEEeCCCC--chhHHHHHHHhhccc-CCCCCEEEEEecCCCCC
Q 025346          193 GINADCIVVLVDACKA--PERIDEILEEGVGDH-KDKLPILLVLNKKDLIK  240 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~  240 (254)
                      +..+|++++|+|+++.  ......++..+++.. ..+.|+++|+||+|+..
T Consensus        82 ~~~ad~ii~vvD~~~~~~~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~  132 (184)
T smart00178       82 FPEVNGIVYLVDAYDKERFAESKRELDALLSDEELATVPFLILGNKIDAPY  132 (184)
T ss_pred             hCCCCEEEEEEECCcHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccC
Confidence            8899999999999874  344444555554421 25789999999999963

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

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

Probab=99.70  E-value=1.6e-16  Score=126.45  Aligned_cols=112  Identities=21%  Similarity=0.208  Sum_probs=76.3

Q ss_pred             EEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEE--EecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccC
Q 025346          118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGI--CSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGIN  195 (254)
Q Consensus       118 ~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~--~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~  195 (254)
                      |+++|.+|+|||||++++.+..+.  ..+.++........  .++....+.+|||||..  .+..+.       ..++..
T Consensus         1 i~i~G~~~vGKTsli~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~--~~~~~~-------~~~~~~   69 (174)
T smart00174        1 LVVVGDGAVGKTCLLISYTTNAFP--EDYVPTVFENYSADVEVDGKPVELGLWDTAGQE--DYDRLR-------PLSYPD   69 (174)
T ss_pred             CEEECCCCCCHHHHHHHHHhCCCC--CCCCCcEEeeeeEEEEECCEEEEEEEEECCCCc--ccchhc-------hhhcCC
Confidence            578999999999999999998774  23333333322222  23344579999999943  222222       234789


Q ss_pred             ccEEEEEEeCCCC--chhHHH-HHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          196 ADCIVVLVDACKA--PERIDE-ILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       196 ~d~iv~vid~~~~--~~~~~~-~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      +|++++|+|+++.  ++.+.. |+..+.. ..++.|+++|+||+|+...
T Consensus        70 ~d~~ilv~d~~~~~s~~~~~~~~~~~i~~-~~~~~piilv~nK~Dl~~~  117 (174)
T smart00174       70 TDVFLICFSVDSPASFENVKEKWYPEVKH-FCPNTPIILVGTKLDLRED  117 (174)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHh-hCCCCCEEEEecChhhhhC
Confidence            9999999999873  444443 4444433 3468999999999999763

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

>PTZ00369 Ras-like protein; Provisional

Probab=99.70  E-value=2.9e-16  Score=127.15  Aligned_cols=117  Identities=22%  Similarity=0.212  Sum_probs=81.9

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEE--EEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILG--ICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~--~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      ..+++++|.+|+|||||++++....+.  ..+.+|.......  .++.....+.+|||||...  +..+       +..+
T Consensus         5 ~~Ki~iiG~~~~GKTsLi~~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~--~~~l-------~~~~   73 (189)
T PTZ00369          5 EYKLVVVGGGGVGKSALTIQFIQNHFI--DEYDPTIEDSYRKQCVIDEETCLLDILDTAGQEE--YSAM-------RDQY   73 (189)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCC--cCcCCchhhEEEEEEEECCEEEEEEEEeCCCCcc--chhh-------HHHH
Confidence            468999999999999999999988763  2333333222222  3344456788999999433  2222       3345


Q ss_pred             ccCccEEEEEEeCCCC--chhHHHHHHHhhccc-CCCCCEEEEEecCCCCChH
Q 025346          193 GINADCIVVLVDACKA--PERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~  242 (254)
                      +..++++++|+|+++.  ++....|+..+.... ..+.|+++|+||+|+....
T Consensus        74 ~~~~d~iilv~D~s~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~  126 (189)
T PTZ00369         74 MRTGQGFLCVYSITSRSSFEEIASFREQILRVKDKDRVPMILVGNKCDLDSER  126 (189)
T ss_pred             hhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccc
Confidence            7899999999999873  455666666655432 3578999999999986543

>cd04109 Rab28 Rab28 subfamily

Probab=99.70  E-value=4.4e-16  Score=128.71  Aligned_cols=115  Identities=18%  Similarity=0.160  Sum_probs=79.8

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCc-eEEEEEEEEec---CCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQT-TRHRILGICSG---PEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~t-t~~~~~~~~~~---~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      +++++|.+|+|||||++++.+..+.  ..+.+| +.+.....+..   ....+.+|||||.  ..+.       ..+..+
T Consensus         2 Ki~ivG~~~vGKSsLi~~l~~~~~~--~~~~~T~~~d~~~~~i~~~~~~~~~~~i~Dt~G~--~~~~-------~l~~~~   70 (215)
T cd04109           2 KIVVLGDGAVGKTSLCRRFAKEGFG--KSYKQTIGLDFFSKRVTLPGNLNVTLQVWDIGGQ--SIGG-------KMLDKY   70 (215)
T ss_pred             EEEEECcCCCCHHHHHHHHhcCCCC--CCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCc--HHHH-------HHHHHH
Confidence            7999999999999999999988764  333333 33333322322   3578999999993  2222       233455


Q ss_pred             ccCccEEEEEEeCCC--CchhHHHHHHHhhccc---CCCCCEEEEEecCCCCChH
Q 025346          193 GINADCIVVLVDACK--APERIDEILEEGVGDH---KDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       193 ~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~---~~~~piivV~nK~Dl~~~~  242 (254)
                      ++.+|++++|+|+++  +++.+..|+..+.+..   ..+.|+++|+||+|+.+.+
T Consensus        71 ~~~ad~iilV~D~t~~~s~~~~~~w~~~l~~~~~~~~~~~piilVgNK~DL~~~~  125 (215)
T cd04109          71 IYGAHAVFLVYDVTNSQSFENLEDWYSMVRKVLKSSETQPLVVLVGNKTDLEHNR  125 (215)
T ss_pred             hhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhccccCCCceEEEEEECccccccc
Confidence            889999999999987  4555666666554432   2356899999999997554

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

>cd04127 Rab27A Rab27a subfamily

Probab=99.70  E-value=4.8e-16  Score=124.45  Aligned_cols=118  Identities=17%  Similarity=0.124  Sum_probs=79.9

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEe------------cCCeeEEEEecCCCcccchhhhh
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICS------------GPEYQMILYDTPGIIEKKIHMLD  182 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~------------~~~~~~~liDtpG~~~~~~~~~~  182 (254)
                      ..+++++|++|+|||||++++....+.. ...+..+.+.......            .....+.+|||||.  ..     
T Consensus         4 ~~ki~ivG~~~vGKTsli~~~~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~--~~-----   75 (180)
T cd04127           4 LIKFLALGDSGVGKTSFLYQYTDNKFNP-KFITTVGIDFREKRVVYNSSGPGGTLGRGQRIHLQLWDTAGQ--ER-----   75 (180)
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCCCCc-cCCCccceEEEEEEEEEcCccccccccCCCEEEEEEEeCCCh--HH-----
Confidence            3589999999999999999999887642 1122222222111111            23467999999993  22     


Q ss_pred             HHHHHHHHHHccCccEEEEEEeCCC--CchhHHHHHHHhhccc-CCCCCEEEEEecCCCCChH
Q 025346          183 SMMMKNVRSAGINADCIVVLVDACK--APERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       183 ~~~~~~~~~~~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~  242 (254)
                        +...+..++..+|++++|+|+++  ++..+..|+..+.... ..+.|+++|+||+|+.+.+
T Consensus        76 --~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~  136 (180)
T cd04127          76 --FRSLTTAFFRDAMGFLLIFDLTNEQSFLNVRNWMSQLQTHAYCENPDIVLCGNKADLEDQR  136 (180)
T ss_pred             --HHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEeCccchhcC
Confidence              22334456889999999999987  3455666666554432 3578999999999997643

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

>cd04132 Rho4_like Rho4-like subfamily

Probab=99.70  E-value=4.5e-16  Score=125.50  Aligned_cols=113  Identities=19%  Similarity=0.200  Sum_probs=76.9

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEe---cCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICS---GPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~---~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      +|+++|.+|+|||||++++.+..+.  ..+.++..........   .....+.+|||||.  ..+..       ....++
T Consensus         2 ki~vvG~~~vGKTsli~~l~~~~~~--~~~~~t~~~~~~~~i~~~~~~~~~l~i~Dt~G~--~~~~~-------~~~~~~   70 (187)
T cd04132           2 KIVVVGDGGCGKTCLLIVYSQGKFP--EEYVPTVFENYVTNIQGPNGKIIELALWDTAGQ--EEYDR-------LRPLSY   70 (187)
T ss_pred             eEEEECCCCCCHHHHHHHHHhCcCC--CCCCCeeeeeeEEEEEecCCcEEEEEEEECCCc--hhHHH-------HHHHhC
Confidence            7999999999999999999988774  3333333322222222   33567999999993  22222       223357


Q ss_pred             cCccEEEEEEeCCCC--chhHHH-HHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          194 INADCIVVLVDACKA--PERIDE-ILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       194 ~~~d~iv~vid~~~~--~~~~~~-~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      ..+|++++|+|+++.  ++.... |+..+. ....+.|+++|+||+|+...
T Consensus        71 ~~ad~ii~v~d~~~~~s~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~  120 (187)
T cd04132          71 PDVDVLLICYAVDNPTSLDNVEDKWFPEVN-HFCPGTPIMLVGLKTDLRKD  120 (187)
T ss_pred             CCCCEEEEEEECCCHHHHHHHHHHHHHHHH-HhCCCCCEEEEEeChhhhhC
Confidence            899999999999873  344433 443333 33467999999999999653

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.

>cd01860 Rab5_related Rab5-related subfamily

Probab=99.70  E-value=8.4e-16  Score=120.82  Aligned_cols=116  Identities=20%  Similarity=0.171  Sum_probs=81.1

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCcccc-ccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSI-VTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~-~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      .+++++|++|+|||||++++.+.++.. ..+..+.+........+.....+.+|||||.  ..+.       .....+++
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~v~~~~~~~~~~i~D~~G~--~~~~-------~~~~~~~~   72 (163)
T cd01860           2 FKLVLLGDSSVGKSSLVLRFVKNEFSENQESTIGAAFLTQTVNLDDTTVKFEIWDTAGQ--ERYR-------SLAPMYYR   72 (163)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCch--HHHH-------HHHHHHhc
Confidence            479999999999999999999988753 1122222222223334455678999999993  2221       22334578


Q ss_pred             CccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          195 NADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       195 ~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      .+|++++|+|+++.  +.....++..+......+.|+++|+||+|+..
T Consensus        73 ~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~  120 (163)
T cd01860          73 GAAAAIVVYDITSEESFEKAKSWVKELQRNASPNIIIALVGNKADLES  120 (163)
T ss_pred             cCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccc
Confidence            89999999999873  45556666665554446789999999999874

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

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

Probab=99.70  E-value=1.1e-16  Score=127.28  Aligned_cols=125  Identities=32%  Similarity=0.362  Sum_probs=87.4

Q ss_pred             EEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecC-CeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccE
Q 025346          120 VLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGP-EYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADC  198 (254)
Q Consensus       120 ~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~-~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~  198 (254)
                      ++|++|+|||||+|++.+.+. .+..++++|.....+..... +..+.+|||||+.......  ......+...+..+|+
T Consensus         1 iiG~~~~GKStll~~l~~~~~-~~~~~~~~t~~~~~~~~~~~~~~~~~i~DtpG~~~~~~~~--~~~~~~~~~~~~~~d~   77 (176)
T cd01881           1 LVGLPNVGKSTLLNALTNAKP-KVANYPFTTLEPNLGVVEVPDGARIQVADIPGLIEGASEG--RGLGNQFLAHIRRADA   77 (176)
T ss_pred             CCCCCCCcHHHHHHHHhcCCc-cccCCCceeecCcceEEEcCCCCeEEEEeccccchhhhcC--CCccHHHHHHHhccCE
Confidence            479999999999999999876 46778888877777666666 8899999999974321110  0111233455778999


Q ss_pred             EEEEEeCCCCc--------hhHHHHHHHhhcccC-------CCCCEEEEEecCCCCChHhHHHH
Q 025346          199 IVVLVDACKAP--------ERIDEILEEGVGDHK-------DKLPILLVLNKKDLIKPGEIAKK  247 (254)
Q Consensus       199 iv~vid~~~~~--------~~~~~~~~~~~~~~~-------~~~piivV~nK~Dl~~~~~~~~~  247 (254)
                      +++|+|+++..        .....+...+.....       .+.|+++|+||+|+.........
T Consensus        78 ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~NK~Dl~~~~~~~~~  141 (176)
T cd01881          78 ILHVVDASEDDDIGGVDPLEDYEILNAELKLYDLETILGLLTAKPVIYVLNKIDLDDAEELEEE  141 (176)
T ss_pred             EEEEEeccCCccccccCHHHHHHHHHHHHHHhhhhhHHHHHhhCCeEEEEEchhcCchhHHHHH
Confidence            99999998752        223334333332221       36899999999999877665543

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

>PRK11058 GTPase HflX; Provisional

Probab=99.70  E-value=2.9e-16  Score=141.66  Aligned_cols=125  Identities=25%  Similarity=0.291  Sum_probs=88.8

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCC-eeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPE-YQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~-~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .++++++|.+|+|||||+|++.+.+.. +.+.+++|.+.....+...+ ..+.+|||||+...........+ ..+...+
T Consensus       197 ~p~ValVG~~NaGKSSLlN~Lt~~~~~-v~~~~~tTld~~~~~i~l~~~~~~~l~DTaG~~r~lp~~lve~f-~~tl~~~  274 (426)
T PRK11058        197 VPTVSLVGYTNAGKSTLFNRITEARVY-AADQLFATLDPTLRRIDVADVGETVLADTVGFIRHLPHDLVAAF-KATLQET  274 (426)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCcee-eccCCCCCcCCceEEEEeCCCCeEEEEecCcccccCCHHHHHHH-HHHHHHh
Confidence            468999999999999999999998876 77888888887776665544 38899999997443222222223 3345667


Q ss_pred             cCccEEEEEEeCCCCchh-HHHHHHHhhccc-CCCCCEEEEEecCCCCCh
Q 025346          194 INADCIVVLVDACKAPER-IDEILEEGVGDH-KDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       194 ~~~d~iv~vid~~~~~~~-~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~  241 (254)
                      ..+|++++|+|++++... ....+..++... ..+.|+++|+||+|+...
T Consensus       275 ~~ADlIL~VvDaS~~~~~e~l~~v~~iL~el~~~~~pvIiV~NKiDL~~~  324 (426)
T PRK11058        275 RQATLLLHVVDAADVRVQENIEAVNTVLEEIDAHEIPTLLVMNKIDMLDD  324 (426)
T ss_pred             hcCCEEEEEEeCCCccHHHHHHHHHHHHHHhccCCCCEEEEEEcccCCCc
Confidence            899999999999885321 111122222222 246899999999999754

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.70  E-value=1.9e-16  Score=139.89  Aligned_cols=126  Identities=28%  Similarity=0.367  Sum_probs=104.5

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccc--hhhhhHHHHHHHHH
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK--IHMLDSMMMKNVRS  191 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~--~~~~~~~~~~~~~~  191 (254)
                      ...+++++|.|++|||||+|++++.+...+++.++||++.+...+..++..+.++||+|+....  .+..+.+-......
T Consensus       177 ~~ikiaiiGrPNvGKSsLiN~ilgeeR~Iv~~~aGTTRD~I~~~~e~~~~~~~liDTAGiRrk~ki~e~~E~~Sv~rt~~  256 (444)
T COG1160         177 DPIKIAIIGRPNVGKSSLINAILGEERVIVSDIAGTTRDSIDIEFERDGRKYVLIDTAGIRRKGKITESVEKYSVARTLK  256 (444)
T ss_pred             CceEEEEEeCCCCCchHHHHHhccCceEEecCCCCccccceeeeEEECCeEEEEEECCCCCcccccccceEEEeehhhHh
Confidence            5689999999999999999999999999999999999999999999999999999999975322  11222222234445


Q ss_pred             HccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          192 AGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      .+..++++++|+|++.+..+.+..+.....  ..+.++++|+||.|+++.
T Consensus       257 aI~~a~vvllviDa~~~~~~qD~~ia~~i~--~~g~~~vIvvNKWDl~~~  304 (444)
T COG1160         257 AIERADVVLLVIDATEGISEQDLRIAGLIE--EAGRGIVIVVNKWDLVEE  304 (444)
T ss_pred             HHhhcCEEEEEEECCCCchHHHHHHHHHHH--HcCCCeEEEEEccccCCc
Confidence            678999999999999998888877766555  457899999999999886

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

Probab=99.69  E-value=9.1e-17  Score=127.97  Aligned_cols=122  Identities=19%  Similarity=0.226  Sum_probs=95.5

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCC-CceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKP-QTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~-~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      ..+++++|.+++|||-|+.++...++...+..+ +..-......+++...+.+||||+|  +.++.       ....+|+
T Consensus        14 lFKiVliGDS~VGKsnLlsRftrnEF~~~SksTIGvef~t~t~~vd~k~vkaqIWDTAG--QERyr-------AitSaYY   84 (222)
T KOG0087|consen   14 LFKIVLIGDSAVGKSNLLSRFTRNEFSLESKSTIGVEFATRTVNVDGKTVKAQIWDTAG--QERYR-------AITSAYY   84 (222)
T ss_pred             EEEEEEeCCCccchhHHHHHhcccccCcccccceeEEEEeeceeecCcEEEEeeecccc--hhhhc-------cccchhh
Confidence            458999999999999999999999986332221 2222222344567778899999999  44433       4456789


Q ss_pred             cCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHH
Q 025346          194 INADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIA  245 (254)
Q Consensus       194 ~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~  245 (254)
                      ++|.+.++|+|+++  .++.+..|+.++.....+++++++|+||+||.+.+.+.
T Consensus        85 rgAvGAllVYDITr~~Tfenv~rWL~ELRdhad~nivimLvGNK~DL~~lraV~  138 (222)
T KOG0087|consen   85 RGAVGALLVYDITRRQTFENVERWLKELRDHADSNIVIMLVGNKSDLNHLRAVP  138 (222)
T ss_pred             cccceeEEEEechhHHHHHHHHHHHHHHHhcCCCCeEEEEeecchhhhhccccc
Confidence            99999999999987  57889999999888888999999999999999865554

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=99.69  E-value=5.5e-16  Score=122.07  Aligned_cols=112  Identities=18%  Similarity=0.204  Sum_probs=78.9

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINA  196 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~  196 (254)
                      +|+++|.+|+|||||++++....+.  . +.+|+... ..........+.+|||||.  ..       +...+..++.++
T Consensus         2 kv~~~G~~~~GKTsli~~l~~~~~~--~-~~pt~g~~-~~~~~~~~~~~~l~D~~G~--~~-------~~~~~~~~~~~a   68 (159)
T cd04150           2 RILMVGLDAAGKTTILYKLKLGEIV--T-TIPTIGFN-VETVEYKNISFTVWDVGGQ--DK-------IRPLWRHYFQNT   68 (159)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCc--c-cCCCCCcc-eEEEEECCEEEEEEECCCC--Hh-------HHHHHHHHhcCC
Confidence            7999999999999999999877664  2 22222211 1234456788999999994  22       223345678999


Q ss_pred             cEEEEEEeCCCC--chhHHHHHHHhhcc-cCCCCCEEEEEecCCCCCh
Q 025346          197 DCIVVLVDACKA--PERIDEILEEGVGD-HKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       197 d~iv~vid~~~~--~~~~~~~~~~~~~~-~~~~~piivV~nK~Dl~~~  241 (254)
                      |++++|+|+++.  +.....++..++.. ...+.|+++|+||+|+.+.
T Consensus        69 d~~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~  116 (159)
T cd04150          69 QGLIFVVDSNDRERIGEAREELQRMLNEDELRDAVLLVFANKQDLPNA  116 (159)
T ss_pred             CEEEEEEeCCCHHHHHHHHHHHHHHHhcHHhcCCCEEEEEECCCCCCC
Confidence            999999999873  45555556555443 2246899999999999653

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

>cd00154 Rab Rab family

Probab=99.69  E-value=6.8e-16  Score=119.88  Aligned_cols=113  Identities=23%  Similarity=0.248  Sum_probs=79.5

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEE--EEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILG--ICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~--~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      +++++|++|+|||||++++.+.++... ..+..+......  ........+.+||+||..         .+.......+.
T Consensus         2 ~i~~~G~~~~GKStl~~~l~~~~~~~~-~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~---------~~~~~~~~~~~   71 (159)
T cd00154           2 KIVLIGDSGVGKTSLLLRFVDGKFDEN-YKSTIGVDFKSKTIEIDGKTVKLQIWDTAGQE---------RFRSITPSYYR   71 (159)
T ss_pred             eEEEECCCCCCHHHHHHHHHhCcCCCc-cCCceeeeeEEEEEEECCEEEEEEEEecCChH---------HHHHHHHHHhc
Confidence            799999999999999999998887532 222222222222  223345789999999942         12233455678


Q ss_pred             CccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCC
Q 025346          195 NADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLI  239 (254)
Q Consensus       195 ~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~  239 (254)
                      .+|++++|+|+++.  ......++..+......+.|+++|+||+|+.
T Consensus        72 ~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~  118 (159)
T cd00154          72 GAHGAILVYDITNRESFENLDKWLKELKEYAPENIPIILVGNKIDLE  118 (159)
T ss_pred             CCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEccccc
Confidence            89999999999873  4455566665555444679999999999996

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

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

Probab=99.69  E-value=2.7e-16  Score=122.82  Aligned_cols=119  Identities=26%  Similarity=0.280  Sum_probs=81.5

Q ss_pred             EEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEE
Q 025346          120 VLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCI  199 (254)
Q Consensus       120 ~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~i  199 (254)
                      ++|.+|+|||||++++.+... .++..+++|.......+..++..+.+|||||+........+.......... ..+|++
T Consensus         1 l~G~~~~GKssl~~~~~~~~~-~~~~~~~~t~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~-~~~d~v   78 (158)
T cd01879           1 LVGNPNVGKTTLFNALTGARQ-KVGNWPGVTVEKKEGRFKLGGKEIEIVDLPGTYSLSPYSEDEKVARDFLLG-EKPDLI   78 (158)
T ss_pred             CCCCCCCCHHHHHHHHhcCcc-cccCCCCcccccceEEEeeCCeEEEEEECCCccccCCCChhHHHHHHHhcC-CCCcEE
Confidence            479999999999999998764 366778888776666666667889999999975433221122221221111 589999


Q ss_pred             EEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhH
Q 025346          200 VVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEI  244 (254)
Q Consensus       200 v~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~  244 (254)
                      ++|+|+.+.... ..++..+..   .+.|+++|+||+|+.+...+
T Consensus        79 i~v~d~~~~~~~-~~~~~~~~~---~~~~~iiv~NK~Dl~~~~~~  119 (158)
T cd01879          79 VNVVDATNLERN-LYLTLQLLE---LGLPVVVALNMIDEAEKRGI  119 (158)
T ss_pred             EEEeeCCcchhH-HHHHHHHHH---cCCCEEEEEehhhhcccccc
Confidence            999999874322 233323222   36899999999999876443

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.

>cd04124 RabL2 RabL2 subfamily

Probab=99.69  E-value=7.8e-16  Score=121.32  Aligned_cols=113  Identities=20%  Similarity=0.241  Sum_probs=77.6

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCc--eEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQT--TRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~t--t~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      +|+++|.+|+|||||++++....+... ..+..  +........+.....+.+|||||.  ..+.       ..+..++.
T Consensus         2 ki~vvG~~~vGKTsli~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~--~~~~-------~~~~~~~~   71 (161)
T cd04124           2 KIILLGDSAVGKSKLVERFLMDGYEPQ-QLSTYALTLYKHNAKFEGKTILVDFWDTAGQ--ERFQ-------TMHASYYH   71 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCCC-cCCceeeEEEEEEEEECCEEEEEEEEeCCCc--hhhh-------hhhHHHhC
Confidence            799999999999999999998876422 11111  111122233445567899999993  2222       23445688


Q ss_pred             CccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          195 NADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       195 ~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      .+|++++|+|+++.  +.....|+..+.+ ...+.|+++|+||+|+..
T Consensus        72 ~~d~~i~v~d~~~~~s~~~~~~~~~~i~~-~~~~~p~ivv~nK~Dl~~  118 (161)
T cd04124          72 KAHACILVFDVTRKITYKNLSKWYEELRE-YRPEIPCIVVANKIDLDP  118 (161)
T ss_pred             CCCEEEEEEECCCHHHHHHHHHHHHHHHH-hCCCCcEEEEEECccCch
Confidence            99999999999873  3445566655543 335799999999999854

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

>cd01871 Rac1_like Rac1-like subfamily

Probab=99.69  E-value=4.3e-16  Score=124.59  Aligned_cols=113  Identities=21%  Similarity=0.189  Sum_probs=78.0

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEE--EEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRIL--GICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~--~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .+++++|.+|+|||||+.++....+.  ..+.++......  ...++....+.+|||||.  ..+..+       ...++
T Consensus         2 ~ki~iiG~~~vGKSsli~~~~~~~f~--~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~--~~~~~~-------~~~~~   70 (174)
T cd01871           2 IKCVVVGDGAVGKTCLLISYTTNAFP--GEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQ--EDYDRL-------RPLSY   70 (174)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCC--CcCCCcceeeeEEEEEECCEEEEEEEEECCCc--hhhhhh-------hhhhc
Confidence            47999999999999999999988763  333334333222  223344567899999993  332222       23457


Q ss_pred             cCccEEEEEEeCCCC--chhHHH-HHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          194 INADCIVVLVDACKA--PERIDE-ILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       194 ~~~d~iv~vid~~~~--~~~~~~-~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      .++|++|+|+|+++.  +..+.. |+..+.. ...+.|+++|+||+|+.+
T Consensus        71 ~~~d~~ilv~d~~~~~sf~~~~~~~~~~~~~-~~~~~piilvgnK~Dl~~  119 (174)
T cd01871          71 PQTDVFLICFSLVSPASFENVRAKWYPEVRH-HCPNTPIILVGTKLDLRD  119 (174)
T ss_pred             CCCCEEEEEEECCCHHHHHHHHHHHHHHHHH-hCCCCCEEEEeeChhhcc
Confidence            899999999999873  445543 4444333 345799999999999964

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

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=99.69  E-value=7.1e-16  Score=122.58  Aligned_cols=120  Identities=21%  Similarity=0.235  Sum_probs=81.0

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEE--EEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILG--ICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~--~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      ..+|+++|++|+|||||+++++...+.. ...+.........  ..++....+.+|||||..  .+..      ..+..+
T Consensus         2 ~~ki~vvG~~~vGKTsli~~~~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~--~~~~------~~~~~~   72 (170)
T cd04115           2 IFKIIVIGDSNVGKTCLTYRFCAGRFPE-RTEATIGVDFRERTVEIDGERIKVQLWDTAGQE--RFRK------SMVQHY   72 (170)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCCCCC-ccccceeEEEEEEEEEECCeEEEEEEEeCCChH--HHHH------hhHHHh
Confidence            3589999999999999999999877542 1222222222222  233445789999999932  2110      123445


Q ss_pred             ccCccEEEEEEeCCC--CchhHHHHHHHhhccc-CCCCCEEEEEecCCCCChHh
Q 025346          193 GINADCIVVLVDACK--APERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       193 ~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~~  243 (254)
                      ++.+|++++|+|+++  ++.....|+..+.... ..++|+++|+||+|+....+
T Consensus        73 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~  126 (170)
T cd04115          73 YRNVHAVVFVYDVTNMASFHSLPSWIEECEQHSLPNEVPRILVGNKCDLREQIQ  126 (170)
T ss_pred             hcCCCEEEEEEECCCHHHHHhHHHHHHHHHHhcCCCCCCEEEEEECccchhhcC
Confidence            789999999999987  3455666665554432 35799999999999976554

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

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=99.69  E-value=9.8e-16  Score=120.65  Aligned_cols=117  Identities=20%  Similarity=0.254  Sum_probs=79.1

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceE-EEEEE--EE-ecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTR-HRILG--IC-SGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~-~~~~~--~~-~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      +++++|.+|+|||||++++..........+.+++. +....  .. ......+.+|||||.  ..+.       ......
T Consensus         2 ki~vvG~~~~GKtsl~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G~--~~~~-------~~~~~~   72 (164)
T cd04101           2 RCAVVGDPAVGKTAFVQMFHSNGAVFPKNYLMTTGCDFVVKEVPVDTDNTVELFIFDSAGQ--ELYS-------DMVSNY   72 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCcCccCCCceEEEEEEEEEEeCCCCEEEEEEEECCCH--HHHH-------HHHHHH
Confidence            79999999999999999998653211334444442 22111  22 244578999999993  2222       223345


Q ss_pred             ccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          193 GINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      +..+|++++|+|.++.  +.....|+..+... ..+.|+++|+||+|+.+..+
T Consensus        73 ~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~-~~~~p~ilv~nK~Dl~~~~~  124 (164)
T cd04101          73 WESPSVFILVYDVSNKASFENCSRWVNKVRTA-SKHMPGVLVGNKMDLADKAE  124 (164)
T ss_pred             hCCCCEEEEEEECcCHHHHHHHHHHHHHHHHh-CCCCCEEEEEECcccccccC
Confidence            7899999999999873  44555666554433 35689999999999976543

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.

>PLN03110 Rab GTPase; Provisional

Probab=99.69  E-value=8.6e-16  Score=127.10  Aligned_cols=119  Identities=17%  Similarity=0.207  Sum_probs=84.1

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEE--EecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGI--CSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~--~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      ..+++++|++|+|||||++++.+..+.. ...+....+.....  .++....+.+|||||.  ..+.       ..+..+
T Consensus        12 ~~Ki~ivG~~~vGKStLi~~l~~~~~~~-~~~~t~g~~~~~~~v~~~~~~~~l~l~Dt~G~--~~~~-------~~~~~~   81 (216)
T PLN03110         12 LFKIVLIGDSGVGKSNILSRFTRNEFCL-ESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQ--ERYR-------AITSAY   81 (216)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCC-CCCCceeEEEEEEEEEECCEEEEEEEEECCCc--HHHH-------HHHHHH
Confidence            4689999999999999999999887642 22233323322222  3344568999999993  2222       234456


Q ss_pred             ccCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          193 GINADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       193 ~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      ++.++++++|+|+++  +++.+..|+..+......+.|+++|+||+|+...+.
T Consensus        82 ~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~  134 (216)
T PLN03110         82 YRGAVGALLVYDITKRQTFDNVQRWLRELRDHADSNIVIMMAGNKSDLNHLRS  134 (216)
T ss_pred             hCCCCEEEEEEECCChHHHHHHHHHHHHHHHhCCCCCeEEEEEEChhcccccC
Confidence            789999999999987  455666777666555456799999999999965543

>cd04126 Rab20 Rab20 subfamily

Probab=99.69  E-value=4.2e-16  Score=129.08  Aligned_cols=111  Identities=20%  Similarity=0.264  Sum_probs=80.9

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINA  196 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~  196 (254)
                      +|+++|.+|+|||||++++...++..  ..+.....  ..........+.+|||||.  ..+..+       ...++..+
T Consensus         2 KIvivG~~~vGKTSLi~r~~~~~f~~--~~~Tig~~--~~~~~~~~~~l~iwDt~G~--e~~~~l-------~~~~~~~a   68 (220)
T cd04126           2 KVVLLGDMNVGKTSLLHRYMERRFKD--TVSTVGGA--FYLKQWGPYNISIWDTAGR--EQFHGL-------GSMYCRGA   68 (220)
T ss_pred             EEEEECCCCCcHHHHHHHHhcCCCCC--CCCccceE--EEEEEeeEEEEEEEeCCCc--ccchhh-------HHHHhccC
Confidence            79999999999999999999988742  22222222  1222335677999999994  333332       23457899


Q ss_pred             cEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          197 DCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       197 d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      |++|+|+|+++  ++..+..++..+.+....+.|+++|+||+|+..
T Consensus        69 d~~IlV~Dvt~~~Sf~~l~~~~~~l~~~~~~~~piIlVgNK~DL~~  114 (220)
T cd04126          69 AAVILTYDVSNVQSLEELEDRFLGLTDTANEDCLFAVVGNKLDLTE  114 (220)
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccccc
Confidence            99999999988  466677777766655456799999999999975

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

>PLN03118 Rab family protein; Provisional

Probab=99.69  E-value=6.4e-16  Score=127.32  Aligned_cols=123  Identities=19%  Similarity=0.193  Sum_probs=80.3

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      .....+++++|.+|+|||||++++++..+....+..+.+........+.....+.+|||||.  ..+..       .+..
T Consensus        11 ~~~~~kv~ivG~~~vGKTsli~~l~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~--~~~~~-------~~~~   81 (211)
T PLN03118         11 YDLSFKILLIGDSGVGKSSLLVSFISSSVEDLAPTIGVDFKIKQLTVGGKRLKLTIWDTAGQ--ERFRT-------LTSS   81 (211)
T ss_pred             cCcceEEEEECcCCCCHHHHHHHHHhCCCCCcCCCceeEEEEEEEEECCEEEEEEEEECCCc--hhhHH-------HHHH
Confidence            34457999999999999999999998876432222222222222223344568999999994  22222       2345


Q ss_pred             HccCccEEEEEEeCCCC--chhHHHHHHHhhcc--cCCCCCEEEEEecCCCCChHh
Q 025346          192 AGINADCIVVLVDACKA--PERIDEILEEGVGD--HKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~--~~~~~piivV~nK~Dl~~~~~  243 (254)
                      +++.+|++++|+|+++.  +..+...+...+..  ...+.|+++|+||+|+...+.
T Consensus        82 ~~~~~d~~vlv~D~~~~~sf~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~~~~~  137 (211)
T PLN03118         82 YYRNAQGIILVYDVTRRETFTNLSDVWGKEVELYSTNQDCVKMLVGNKVDRESERD  137 (211)
T ss_pred             HHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccCc
Confidence            57899999999999873  34444433332322  134689999999999975443

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=99.69  E-value=4.7e-16  Score=129.68  Aligned_cols=115  Identities=15%  Similarity=0.155  Sum_probs=81.2

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEE--EEecCCeeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILG--ICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~--~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      ...+|+++|.+|+|||||++++....+.  ..+.+|.......  .+++....+.+|||+|  +..+..+       ...
T Consensus        12 ~~~KIvvvGd~~VGKTsLi~r~~~~~F~--~~y~pTi~~~~~~~i~~~~~~v~l~iwDTaG--~e~~~~~-------~~~   80 (232)
T cd04174          12 MRCKLVLVGDVQCGKTAMLQVLAKDCYP--ETYVPTVFENYTAGLETEEQRVELSLWDTSG--SPYYDNV-------RPL   80 (232)
T ss_pred             eeEEEEEECCCCCcHHHHHHHHhcCCCC--CCcCCceeeeeEEEEEECCEEEEEEEEeCCC--chhhHHH-------HHH
Confidence            4568999999999999999999988774  3343343222222  2344567899999999  4333332       234


Q ss_pred             HccCccEEEEEEeCCCC--chh-HHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          192 AGINADCIVVLVDACKA--PER-IDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~~--~~~-~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      ++.++|++++|+|+++.  +.. ...|+..+... .++.|+++|+||+|+..
T Consensus        81 ~~~~ad~vIlVyDit~~~Sf~~~~~~w~~~i~~~-~~~~piilVgNK~DL~~  131 (232)
T cd04174          81 CYSDSDAVLLCFDISRPETVDSALKKWKAEIMDY-CPSTRILLIGCKTDLRT  131 (232)
T ss_pred             HcCCCcEEEEEEECCChHHHHHHHHHHHHHHHHh-CCCCCEEEEEECccccc
Confidence            68999999999999883  444 34566655443 35789999999999854

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.

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=99.69  E-value=1.9e-16  Score=125.07  Aligned_cols=116  Identities=21%  Similarity=0.252  Sum_probs=77.7

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEE--EEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHR--ILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~--~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      +++++|++|+|||||+++++...+.  ..+++++...  .....++....+.+|||||......        .....+++
T Consensus         1 ki~vvG~~~~GKtsli~~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~--------~~~~~~~~   70 (165)
T cd04146           1 KIAVLGASGVGKSALVVRFLTKRFI--GEYDPNLESLYSRQVTIDGEQVSLEILDTAGQQQADT--------EQLERSIR   70 (165)
T ss_pred             CEEEECCCCCcHHHHHHHHHhCccc--cccCCChHHhceEEEEECCEEEEEEEEECCCCccccc--------chHHHHHH
Confidence            4899999999999999999987653  3344443222  2223344456789999999543111        11234467


Q ss_pred             CccEEEEEEeCCCC--chhHHHHHHHhhccc--CCCCCEEEEEecCCCCChH
Q 025346          195 NADCIVVLVDACKA--PERIDEILEEGVGDH--KDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       195 ~~d~iv~vid~~~~--~~~~~~~~~~~~~~~--~~~~piivV~nK~Dl~~~~  242 (254)
                      .+|++++|+|+++.  ++.+..|+..+....  ..+.|+++|+||+|+...+
T Consensus        71 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~  122 (165)
T cd04146          71 WADGFVLVYSITDRSSFDEISQLKQLIREIKKRDREIPVILVGNKADLLHYR  122 (165)
T ss_pred             hCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCchHHhC
Confidence            89999999999873  444555554443322  3479999999999986543

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

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=99.69  E-value=1e-15  Score=120.00  Aligned_cols=112  Identities=23%  Similarity=0.291  Sum_probs=77.3

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINA  196 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~  196 (254)
                      +|+++|.+|+|||||++++.+..+...  .+ +...............+.+|||||...         +...+..++..+
T Consensus         1 ~i~i~G~~~~GKTsl~~~~~~~~~~~~--~~-t~~~~~~~~~~~~~~~l~i~D~~G~~~---------~~~~~~~~~~~~   68 (160)
T cd04156           1 QVLLLGLDSAGKSTLLYKLKHAELVTT--IP-TVGFNVEMLQLEKHLSLTVWDVGGQEK---------MRTVWKCYLENT   68 (160)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCcccc--cC-ccCcceEEEEeCCceEEEEEECCCCHh---------HHHHHHHHhccC
Confidence            488999999999999999998876422  22 211111111123457899999999421         112344567899


Q ss_pred             cEEEEEEeCCCCc--hhHHHHHHHhhccc-CCCCCEEEEEecCCCCC
Q 025346          197 DCIVVLVDACKAP--ERIDEILEEGVGDH-KDKLPILLVLNKKDLIK  240 (254)
Q Consensus       197 d~iv~vid~~~~~--~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~  240 (254)
                      |++++|+|+++..  .....++..+++.. ..+.|+++|+||+|+..
T Consensus        69 ~~iv~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  115 (160)
T cd04156          69 DGLVYVVDSSDEARLDESQKELKHILKNEHIKGVPVVLLANKQDLPG  115 (160)
T ss_pred             CEEEEEEECCcHHHHHHHHHHHHHHHhchhhcCCCEEEEEECccccc
Confidence            9999999998853  55556666655432 25799999999999964

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

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=99.68  E-value=7.3e-16  Score=127.79  Aligned_cols=118  Identities=16%  Similarity=0.196  Sum_probs=82.2

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccc-cCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIV-TNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~-~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      ....+++++|.+|+|||||+++++..++... .+..+.+..............+.+|||||.  ..+..       .+..
T Consensus        11 ~~~~Ki~vvG~~gvGKTsli~~~~~~~f~~~~~~tig~~~~~~~~~~~~~~~~l~i~Dt~G~--~~~~~-------~~~~   81 (219)
T PLN03071         11 YPSFKLVIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFTNCGKIRFYCWDTAGQ--EKFGG-------LRDG   81 (219)
T ss_pred             CCceEEEEECcCCCCHHHHHHHHhhCCCCCccCCccceeEEEEEEEECCeEEEEEEEECCCc--hhhhh-------hhHH
Confidence            5567999999999999999999988776421 111112222222223344578999999994  32222       2334


Q ss_pred             HccCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          192 AGINADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      ++..++++|+|+|.++  ++..+..|+..+.+. ..+.|+++|+||+|+..
T Consensus        82 ~~~~~~~~ilvfD~~~~~s~~~i~~w~~~i~~~-~~~~piilvgNK~Dl~~  131 (219)
T PLN03071         82 YYIHGQCAIIMFDVTARLTYKNVPTWHRDLCRV-CENIPIVLCGNKVDVKN  131 (219)
T ss_pred             HcccccEEEEEEeCCCHHHHHHHHHHHHHHHHh-CCCCcEEEEEEchhhhh
Confidence            5789999999999988  456666777666543 46799999999999864

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=99.68  E-value=7.3e-16  Score=138.45  Aligned_cols=122  Identities=27%  Similarity=0.267  Sum_probs=90.3

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecC-CeeEEEEecCCCcccchhhhhHHHHHHHHHHccC
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGP-EYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGIN  195 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~-~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~  195 (254)
                      .|+++|.+++|||||++++++.+.. ++++|+||..+..+.+... +..+.++||||+......  ...+...+...+..
T Consensus       160 dVglVG~pNaGKSTLLn~Lt~ak~k-Ia~ypfTTl~PnlG~v~~~~~~~~~laD~PGliega~~--~~gLg~~fLrhier  236 (424)
T PRK12297        160 DVGLVGFPNVGKSTLLSVVSNAKPK-IANYHFTTLVPNLGVVETDDGRSFVMADIPGLIEGASE--GVGLGHQFLRHIER  236 (424)
T ss_pred             cEEEEcCCCCCHHHHHHHHHcCCCc-cccCCcceeceEEEEEEEeCCceEEEEECCCCcccccc--cchHHHHHHHHHhh
Confidence            7999999999999999999988755 6889999999888877765 688999999998653211  11222445566788


Q ss_pred             ccEEEEEEeCCCC-----chhHHHHHHHhhccc--CCCCCEEEEEecCCCCCh
Q 025346          196 ADCIVVLVDACKA-----PERIDEILEEGVGDH--KDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       196 ~d~iv~vid~~~~-----~~~~~~~~~~~~~~~--~~~~piivV~nK~Dl~~~  241 (254)
                      ++++++|+|+++.     .+....+..++....  ..+.|+++|+||+|+...
T Consensus       237 ~~llI~VID~s~~~~~dp~e~~~~i~~EL~~y~~~L~~kP~IVV~NK~DL~~~  289 (424)
T PRK12297        237 TRVIVHVIDMSGSEGRDPIEDYEKINKELKLYNPRLLERPQIVVANKMDLPEA  289 (424)
T ss_pred             CCEEEEEEeCCccccCChHHHHHHHHHHHhhhchhccCCcEEEEEeCCCCcCC
Confidence            9999999999742     233444444433321  146899999999998544

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

Probab=99.68  E-value=6.1e-16  Score=122.69  Aligned_cols=113  Identities=18%  Similarity=0.226  Sum_probs=77.3

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceE-EEEE--EEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTR-HRIL--GICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~-~~~~--~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      +++++|.+|+|||||+++++...+.  ..+.++.. ....  ...+.....+.+|||||..  .+..+.       ..++
T Consensus         2 ki~vvG~~~vGKTsli~~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~--~~~~~~-------~~~~   70 (166)
T cd00877           2 KLVLVGDGGTGKTTFVKRHLTGEFE--KKYVATLGVEVHPLDFHTNRGKIRFNVWDTAGQE--KFGGLR-------DGYY   70 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCC--CCCCCceeeEEEEEEEEECCEEEEEEEEECCCCh--hhcccc-------HHHh
Confidence            7999999999999999999977653  22222221 1111  1223445789999999953  222222       2346


Q ss_pred             cCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          194 INADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       194 ~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      ..+|++|+|+|+++.  +..+..|+..+.... .+.|+++|+||+|+...
T Consensus        71 ~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~piiiv~nK~Dl~~~  119 (166)
T cd00877          71 IGGQCAIIMFDVTSRVTYKNVPNWHRDLVRVC-GNIPIVLCGNKVDIKDR  119 (166)
T ss_pred             cCCCEEEEEEECCCHHHHHHHHHHHHHHHHhC-CCCcEEEEEEchhcccc
Confidence            789999999999873  445556666655443 37999999999999743

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

>cd04106 Rab23_lke Rab23-like subfamily

Probab=99.68  E-value=9.5e-16  Score=120.40  Aligned_cols=116  Identities=20%  Similarity=0.285  Sum_probs=79.1

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEE--EEe--cCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILG--ICS--GPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~--~~~--~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      +|+++|.+|+|||||++++.+..+.. ...+..+.+....  .+.  .....+.+|||||.  ..+.       .....+
T Consensus         2 kv~~vG~~~~GKTsl~~~~~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~~~i~D~~G~--~~~~-------~~~~~~   71 (162)
T cd04106           2 KVIVVGNGNVGKSSMIQRFVKGIFTK-DYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQ--EEFD-------AITKAY   71 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCC-CCCCcEEEEEEEEEEEEcCCCCEEEEEEeeCCch--HHHH-------HhHHHH
Confidence            79999999999999999999887642 1122222222222  222  44578999999993  2222       223456


Q ss_pred             ccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          193 GINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      ++.+|++++|+|+++.  +..+..|+..+.. ...+.|+++|+||+|+..+..
T Consensus        72 ~~~~~~~v~v~d~~~~~s~~~l~~~~~~~~~-~~~~~p~iiv~nK~Dl~~~~~  123 (162)
T cd04106          72 YRGAQACILVFSTTDRESFEAIESWKEKVEA-ECGDIPMVLVQTKIDLLDQAV  123 (162)
T ss_pred             hcCCCEEEEEEECCCHHHHHHHHHHHHHHHH-hCCCCCEEEEEEChhcccccC
Confidence            7899999999999873  4555566555432 345799999999999976543

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

>cd04123 Rab21 Rab21 subfamily

Probab=99.68  E-value=1.2e-15  Score=119.38  Aligned_cols=116  Identities=21%  Similarity=0.291  Sum_probs=79.3

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEE--ecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGIC--SGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~--~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      +++++|.+|+|||||++++.+..+.. ...+.++........  ......+.+|||||.  ..+..       ....++.
T Consensus         2 ki~i~G~~~~GKStli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~--~~~~~-------~~~~~~~   71 (162)
T cd04123           2 KVVLLGEGRVGKTSLVLRYVENKFNE-KHESTTQASFFQKTVNIGGKRIDLAIWDTAGQ--ERYHA-------LGPIYYR   71 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCC-CcCCccceeEEEEEEEECCEEEEEEEEECCch--HHHHH-------hhHHHhc
Confidence            79999999999999999999887642 222222222222222  233457999999993  22222       2334467


Q ss_pred             CccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          195 NADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       195 ~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      .+|++++|+|+++.  ++....++..+......+.|+++|+||+|+....
T Consensus        72 ~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~nK~D~~~~~  121 (162)
T cd04123          72 DADGAILVYDITDADSFQKVKKWIKELKQMRGNNISLVIVGNKIDLERQR  121 (162)
T ss_pred             cCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccc
Confidence            89999999999873  3455566655555444578999999999998543

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

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=99.68  E-value=1.5e-15  Score=121.27  Aligned_cols=113  Identities=19%  Similarity=0.233  Sum_probs=80.0

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      ..+++++|.+|+|||||++++...++...  .+  |..............+.+|||||..  .       +...+..++.
T Consensus        15 ~~kv~~~G~~~~GKTsl~~~l~~~~~~~~--~~--t~~~~~~~~~~~~~~~~l~D~~G~~--~-------~~~~~~~~~~   81 (174)
T cd04153          15 EYKVIIVGLDNAGKTTILYQFLLGEVVHT--SP--TIGSNVEEIVYKNIRFLMWDIGGQE--S-------LRSSWNTYYT   81 (174)
T ss_pred             ccEEEEECCCCCCHHHHHHHHccCCCCCc--CC--ccccceEEEEECCeEEEEEECCCCH--H-------HHHHHHHHhh
Confidence            46899999999999999999998776422  22  2112223445567899999999942  1       2233455678


Q ss_pred             CccEEEEEEeCCCC--chhHHHHHHHhhccc-CCCCCEEEEEecCCCCC
Q 025346          195 NADCIVVLVDACKA--PERIDEILEEGVGDH-KDKLPILLVLNKKDLIK  240 (254)
Q Consensus       195 ~~d~iv~vid~~~~--~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~  240 (254)
                      .+|++++|+|+++.  +.....++..+++.. ..+.|+++|+||+|+..
T Consensus        82 ~~d~vi~V~D~s~~~~~~~~~~~l~~~~~~~~~~~~p~viv~NK~Dl~~  130 (174)
T cd04153          82 NTDAVILVIDSTDRERLPLTKEELYKMLAHEDLRKAVLLVLANKQDLKG  130 (174)
T ss_pred             cCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCCEEEEEECCCCCC
Confidence            99999999999874  334445555554432 24689999999999975

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.

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=99.68  E-value=1.2e-15  Score=122.83  Aligned_cols=115  Identities=18%  Similarity=0.189  Sum_probs=80.4

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      +..+|+++|++|+|||||++++....+..   +.+|+. ......+..+..+.+|||||.  ..       +...+..++
T Consensus        16 ~~~kv~lvG~~~vGKTsli~~~~~~~~~~---~~~T~~-~~~~~~~~~~~~~~l~D~~G~--~~-------~~~~~~~~~   82 (182)
T PTZ00133         16 KEVRILMVGLDAAGKTTILYKLKLGEVVT---TIPTIG-FNVETVEYKNLKFTMWDVGGQ--DK-------LRPLWRHYY   82 (182)
T ss_pred             CccEEEEEcCCCCCHHHHHHHHhcCCccc---cCCccc-cceEEEEECCEEEEEEECCCC--Hh-------HHHHHHHHh
Confidence            34689999999999999999998766532   222222 222344567789999999994  22       223345668


Q ss_pred             cCccEEEEEEeCCCC--chhHHHHHHHhhcc-cCCCCCEEEEEecCCCCCh
Q 025346          194 INADCIVVLVDACKA--PERIDEILEEGVGD-HKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       194 ~~~d~iv~vid~~~~--~~~~~~~~~~~~~~-~~~~~piivV~nK~Dl~~~  241 (254)
                      ..+|++|+|+|+++.  +.....++..++.. ...+.|+++|+||+|+...
T Consensus        83 ~~ad~iI~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~  133 (182)
T PTZ00133         83 QNTNGLIFVVDSNDRERIGDAREELERMLSEDELRDAVLLVFANKQDLPNA  133 (182)
T ss_pred             cCCCEEEEEEeCCCHHHHHHHHHHHHHHHhCHhhcCCCEEEEEeCCCCCCC
Confidence            999999999999873  34455555555432 1246899999999998653

>cd00879 Sar1 Sar1 subfamily

Probab=99.68  E-value=1.9e-15  Score=122.17  Aligned_cols=116  Identities=25%  Similarity=0.255  Sum_probs=81.7

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      .+..+++++|++|+|||||++++.+..+....   + |.......+...+..+.+|||||...         +...+..+
T Consensus        17 ~~~~ki~ilG~~~~GKStLi~~l~~~~~~~~~---~-T~~~~~~~i~~~~~~~~l~D~~G~~~---------~~~~~~~~   83 (190)
T cd00879          17 NKEAKILFLGLDNAGKTTLLHMLKDDRLAQHV---P-TLHPTSEELTIGNIKFKTFDLGGHEQ---------ARRLWKDY   83 (190)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCCcccC---C-ccCcceEEEEECCEEEEEEECCCCHH---------HHHHHHHH
Confidence            44678999999999999999999987753221   1 22222334455678899999999422         11334566


Q ss_pred             ccCccEEEEEEeCCCC--chhHHHHHHHhhccc-CCCCCEEEEEecCCCCCh
Q 025346          193 GINADCIVVLVDACKA--PERIDEILEEGVGDH-KDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~  241 (254)
                      +..++++++|+|+++.  +.....++..+.+.. ..+.|+++|+||+|+...
T Consensus        84 ~~~ad~iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~~pvivv~NK~Dl~~~  135 (190)
T cd00879          84 FPEVDGIVFLVDAADPERFQESKEELDSLLSDEELANVPFLILGNKIDLPGA  135 (190)
T ss_pred             hccCCEEEEEEECCcHHHHHHHHHHHHHHHcCccccCCCEEEEEeCCCCCCC
Confidence            7899999999999873  344555666655433 256999999999999743

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.

>cd04116 Rab9 Rab9 subfamily

Probab=99.67  E-value=1.5e-15  Score=120.41  Aligned_cols=116  Identities=18%  Similarity=0.198  Sum_probs=79.4

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEE--EEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRI--LGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~--~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      ..+++++|.+|+|||||++++.+..+.. ...+..+....  ....+.....+.+|||||.  ..+.       ..+..+
T Consensus         5 ~~ki~vvG~~~~GKTsli~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~G~--~~~~-------~~~~~~   74 (170)
T cd04116           5 LLKVILLGDGGVGKSSLMNRYVTNKFDT-QLFHTIGVEFLNKDLEVDGHFVTLQIWDTAGQ--ERFR-------SLRTPF   74 (170)
T ss_pred             EEEEEEECCCCCCHHHHHHHHHcCCCCc-CcCCceeeEEEEEEEEECCeEEEEEEEeCCCh--HHHH-------HhHHHH
Confidence            4689999999999999999999887642 22222222222  2223455567899999993  2222       233456


Q ss_pred             ccCccEEEEEEeCCCC--chhHHHHHHHhhccc----CCCCCEEEEEecCCCCC
Q 025346          193 GINADCIVVLVDACKA--PERIDEILEEGVGDH----KDKLPILLVLNKKDLIK  240 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~----~~~~piivV~nK~Dl~~  240 (254)
                      ++.+|++++|+|+++.  ++....|...+....    ..+.|+++|+||+|+..
T Consensus        75 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  128 (170)
T cd04116          75 YRGSDCCLLTFAVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVVLGNKNDIPE  128 (170)
T ss_pred             hcCCCEEEEEEECCCHHHHHhHHHHHHHHHHhcccccCCCCcEEEEEECccccc
Confidence            7899999999999873  455666665554322    25689999999999964

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

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

Probab=99.67  E-value=9.1e-16  Score=115.74  Aligned_cols=123  Identities=19%  Similarity=0.225  Sum_probs=94.7

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCC--CceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKP--QTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~--~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .+|+++|..|+|||.|+.+|...-++. +...  +..-......+.++..++++|||+|  ++++.       ..+.+|+
T Consensus         8 fkivlvgnagvgktclvrrftqglfpp-gqgatigvdfmiktvev~gekiklqiwdtag--qerfr-------sitqsyy   77 (213)
T KOG0095|consen    8 FKIVLVGNAGVGKTCLVRRFTQGLFPP-GQGATIGVDFMIKTVEVNGEKIKLQIWDTAG--QERFR-------SITQSYY   77 (213)
T ss_pred             EEEEEEccCCcCcchhhhhhhccCCCC-CCCceeeeeEEEEEEEECCeEEEEEEeeccc--hHHHH-------HHHHHHh
Confidence            589999999999999999999776652 2222  2222233344567788999999999  44433       4455779


Q ss_pred             cCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHHHH
Q 025346          194 INADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKL  248 (254)
Q Consensus       194 ~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~~~  248 (254)
                      +.|+++|+|+|++.  +++-+.+|+.++-+..+.+.--|+|+||+|+.+.+++....
T Consensus        78 rsahalilvydiscqpsfdclpewlreie~yan~kvlkilvgnk~d~~drrevp~qi  134 (213)
T KOG0095|consen   78 RSAHALILVYDISCQPSFDCLPEWLREIEQYANNKVLKILVGNKIDLADRREVPQQI  134 (213)
T ss_pred             hhcceEEEEEecccCcchhhhHHHHHHHHHHhhcceEEEeeccccchhhhhhhhHHH
Confidence            99999999999976  67888899999888777777789999999999988776543

>cd04114 Rab30 Rab30 subfamily

Probab=99.67  E-value=1.7e-15  Score=119.94  Aligned_cols=119  Identities=18%  Similarity=0.178  Sum_probs=79.9

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEec--CCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSG--PEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~--~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      ..+++++|++|+|||||++++.+..+. ....+..+.......+..  ....+.+|||||..  .       +......+
T Consensus         7 ~~~v~v~G~~~~GKSsli~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~--~-------~~~~~~~~   76 (169)
T cd04114           7 LFKIVLIGNAGVGKTCLVRRFTQGLFP-PGQGATIGVDFMIKTVEIKGEKIKLQIWDTAGQE--R-------FRSITQSY   76 (169)
T ss_pred             eeEEEEECCCCCCHHHHHHHHHhCCCC-CCCCCceeeEEEEEEEEECCEEEEEEEEECCCcH--H-------HHHHHHHH
Confidence            468999999999999999999876653 222222222233322333  33668899999932  1       11233456


Q ss_pred             ccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          193 GINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      +..+|++++|+|+++.  +.....|+..+......+.|+++|+||+|+.+.++
T Consensus        77 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~i~v~NK~D~~~~~~  129 (169)
T cd04114          77 YRSANALILTYDITCEESFRCLPEWLREIEQYANNKVITILVGNKIDLAERRE  129 (169)
T ss_pred             hcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccc
Confidence            8899999999999863  34455565554443345789999999999976544

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.

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=99.67  E-value=2.1e-15  Score=121.49  Aligned_cols=115  Identities=22%  Similarity=0.251  Sum_probs=78.1

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCce--EEEEEEE-EecCCeeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTT--RHRILGI-CSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt--~~~~~~~-~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      ..+|+++|.+|+|||||++++....+.  ...|..+  ....... .++.+..+.+|||||.  ..+       ...+..
T Consensus         3 ~~kv~~vG~~~~GKTsli~~~~~~~~~--~~~~t~~~~~~~~~~~~~~~~~~~l~l~Dt~G~--~~~-------~~~~~~   71 (183)
T cd04152           3 SLHIVMLGLDSAGKTTVLYRLKFNEFV--NTVPTKGFNTEKIKVSLGNSKGITFHFWDVGGQ--EKL-------RPLWKS   71 (183)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCcC--CcCCccccceeEEEeeccCCCceEEEEEECCCc--HhH-------HHHHHH
Confidence            458999999999999999999987764  2233222  1111111 1345688999999993  221       123445


Q ss_pred             HccCccEEEEEEeCCCC--chhHHHHHHHhhccc-CCCCCEEEEEecCCCCC
Q 025346          192 AGINADCIVVLVDACKA--PERIDEILEEGVGDH-KDKLPILLVLNKKDLIK  240 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~  240 (254)
                      ++..+|++++|+|+++.  ......++..+.... ..+.|+++|+||+|+..
T Consensus        72 ~~~~~d~ii~v~D~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~NK~D~~~  123 (183)
T cd04152          72 YTRCTDGIVFVVDSVDVERMEEAKTELHKITRFSENQGVPVLVLANKQDLPN  123 (183)
T ss_pred             HhccCCEEEEEEECCCHHHHHHHHHHHHHHHhhhhcCCCcEEEEEECcCccc
Confidence            68899999999999874  334444555444332 25689999999999864

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.

>cd04110 Rab35 Rab35 subfamily

Probab=99.67  E-value=1.5e-15  Score=124.00  Aligned_cols=117  Identities=18%  Similarity=0.184  Sum_probs=80.2

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEE--ecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGIC--SGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~--~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      ..+|+++|++|+|||||++++.+..+. ....+....+.....+  .+....+.+|||||.  ..+.       ..+..+
T Consensus         6 ~~kivvvG~~~vGKTsli~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~G~--~~~~-------~~~~~~   75 (199)
T cd04110           6 LFKLLIIGDSGVGKSSLLLRFADNTFS-GSYITTIGVDFKIRTVEINGERVKLQIWDTAGQ--ERFR-------TITSTY   75 (199)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCC-CCcCccccceeEEEEEEECCEEEEEEEEeCCCc--hhHH-------HHHHHH
Confidence            468999999999999999999988764 1112222222222222  233467899999993  2222       234456


Q ss_pred             ccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          193 GINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      +..++++++|+|+++.  ++.+..|+..+.. .....|+++|+||+|+....
T Consensus        76 ~~~a~~iilv~D~~~~~s~~~~~~~~~~i~~-~~~~~piivVgNK~Dl~~~~  126 (199)
T cd04110          76 YRGTHGVIVVYDVTNGESFVNVKRWLQEIEQ-NCDDVCKVLVGNKNDDPERK  126 (199)
T ss_pred             hCCCcEEEEEEECCCHHHHHHHHHHHHHHHH-hCCCCCEEEEEECccccccc
Confidence            7889999999999873  4556666665443 34578999999999997643

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

>cd04128 Spg1 Spg1p

Probab=99.67  E-value=1.7e-15  Score=122.00  Aligned_cols=111  Identities=22%  Similarity=0.308  Sum_probs=77.5

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCce-EEEEEE--EEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTT-RHRILG--ICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt-~~~~~~--~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      +++++|..|+|||||++++....+.  ..+.+|. .+....  ..++....+.+|||+|.  ..+..       .+..++
T Consensus         2 Ki~vlG~~~vGKTsLi~~~~~~~f~--~~~~~T~g~~~~~~~i~~~~~~~~l~iwDt~G~--~~~~~-------~~~~~~   70 (182)
T cd04128           2 KIGLLGDAQIGKTSLMVKYVEGEFD--EDYIQTLGVNFMEKTISIRGTEITFSIWDLGGQ--REFIN-------MLPLVC   70 (182)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCC--CCCCCccceEEEEEEEEECCEEEEEEEEeCCCc--hhHHH-------hhHHHC
Confidence            7999999999999999999988774  2333333 222222  23334577999999993  33222       233468


Q ss_pred             cCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCC
Q 025346          194 INADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLI  239 (254)
Q Consensus       194 ~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~  239 (254)
                      +.+|++++|+|+++.  +..+..|+..+.+......| ++|+||+|+.
T Consensus        71 ~~a~~iilv~D~t~~~s~~~i~~~~~~~~~~~~~~~p-ilVgnK~Dl~  117 (182)
T cd04128          71 NDAVAILFMFDLTRKSTLNSIKEWYRQARGFNKTAIP-ILVGTKYDLF  117 (182)
T ss_pred             cCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCE-EEEEEchhcc
Confidence            899999999999883  55666777766554334566 6889999996

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

>cd04135 Tc10 TC10 subfamily

Probab=99.67  E-value=7.7e-16  Score=122.49  Aligned_cols=114  Identities=20%  Similarity=0.218  Sum_probs=76.5

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEE--ecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGIC--SGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~--~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      +++++|++|+|||||++++...++.  ..+.++........+  +.....+.+|||||..  .+....       ..++.
T Consensus         2 ki~i~G~~~~GKTsl~~~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~--~~~~~~-------~~~~~   70 (174)
T cd04135           2 KCVVVGDGAVGKTCLLMSYANDAFP--EEYVPTVFDHYAVSVTVGGKQYLLGLYDTAGQE--DYDRLR-------PLSYP   70 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCC--CCCCCceeeeeEEEEEECCEEEEEEEEeCCCcc--cccccc-------cccCC
Confidence            7999999999999999999988764  333344433322222  3334568899999943  222222       23478


Q ss_pred             CccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          195 NADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       195 ~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      .+|++++|+|.++.  ++.....+...+.....+.|+++|+||+|+.+.
T Consensus        71 ~~~~~ilv~~~~~~~s~~~~~~~~~~~l~~~~~~~piivv~nK~Dl~~~  119 (174)
T cd04135          71 MTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPYLLVGTQIDLRDD  119 (174)
T ss_pred             CCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEeEchhhhcC
Confidence            89999999999873  334433233333333578999999999998654

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

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=99.67  E-value=1.6e-15  Score=123.61  Aligned_cols=131  Identities=14%  Similarity=0.220  Sum_probs=90.7

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccC-CCCceEEEEEEEEecCCeeEEEEecCCCcccch--hhhhHHHHHHHHHHc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTN-KPQTTRHRILGICSGPEYQMILYDTPGIIEKKI--HMLDSMMMKNVRSAG  193 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~-~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~--~~~~~~~~~~~~~~~  193 (254)
                      +|+++|.+|+||||++|.+++.+...... .++.|...........+..+.++||||+.+...  +.+.......+....
T Consensus         2 ~i~lvG~~g~GKSsl~N~ilg~~~~~~~~~~~~~T~~~~~~~~~~~~~~i~viDTPG~~d~~~~~~~~~~~i~~~~~~~~   81 (196)
T cd01852           2 RLVLVGKTGAGKSATGNTILGREVFESKLSASSVTKTCQKESAVWDGRRVNVIDTPGLFDTSVSPEQLSKEIVRCLSLSA   81 (196)
T ss_pred             EEEEECCCCCCHHHHHHHhhCCCccccccCCCCcccccceeeEEECCeEEEEEECcCCCCccCChHHHHHHHHHHHHhcC
Confidence            69999999999999999999987543332 446676666666666788999999999976542  233333444444456


Q ss_pred             cCccEEEEEEeCCCCchhHHHHHHHhhcccCC--CCCEEEEEecCCCCChHhHHHH
Q 025346          194 INADCIVVLVDACKAPERIDEILEEGVGDHKD--KLPILLVLNKKDLIKPGEIAKK  247 (254)
Q Consensus       194 ~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~--~~piivV~nK~Dl~~~~~~~~~  247 (254)
                      .++|+++||+++.+........+..+.+.++.  ..++++|+|++|.+....+++.
T Consensus        82 ~g~~~illVi~~~~~t~~d~~~l~~l~~~fg~~~~~~~ivv~T~~d~l~~~~~~~~  137 (196)
T cd01852          82 PGPHAFLLVVPLGRFTEEEEQAVETLQELFGEKVLDHTIVLFTRGDDLEGGTLEDY  137 (196)
T ss_pred             CCCEEEEEEEECCCcCHHHHHHHHHHHHHhChHhHhcEEEEEECccccCCCcHHHH
Confidence            78999999999988333333333333333332  2689999999999876555443

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).

>cd04143 Rhes_like Rhes_like subfamily

Probab=99.67  E-value=7.3e-16  Score=129.94  Aligned_cols=113  Identities=20%  Similarity=0.318  Sum_probs=79.3

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEE--ecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGIC--SGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~--~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      +|+++|.+|+|||||+++++...+.  ..+.+|+.+.....+  .+....+.+|||+|.  ..+..+.       ..++.
T Consensus         2 KVvvlG~~gvGKTSLi~r~~~~~f~--~~y~pTi~d~~~k~~~i~~~~~~l~I~Dt~G~--~~~~~~~-------~~~~~   70 (247)
T cd04143           2 RMVVLGASKVGKTAIVSRFLGGRFE--EQYTPTIEDFHRKLYSIRGEVYQLDILDTSGN--HPFPAMR-------RLSIL   70 (247)
T ss_pred             EEEEECcCCCCHHHHHHHHHcCCCC--CCCCCChhHhEEEEEEECCEEEEEEEEECCCC--hhhhHHH-------HHHhc
Confidence            6999999999999999999988774  244444433333333  334467899999994  3322222       23467


Q ss_pred             CccEEEEEEeCCC--CchhHHHHHHHhhcc---------cCCCCCEEEEEecCCCCC
Q 025346          195 NADCIVVLVDACK--APERIDEILEEGVGD---------HKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       195 ~~d~iv~vid~~~--~~~~~~~~~~~~~~~---------~~~~~piivV~nK~Dl~~  240 (254)
                      .+|++|+|+|+++  +++.+..++.++...         ...+.|+++|+||+|+..
T Consensus        71 ~ad~iIlVfdv~~~~Sf~~i~~~~~~I~~~k~~~~~~~~~~~~~piIivgNK~Dl~~  127 (247)
T cd04143          71 TGDVFILVFSLDNRESFEEVCRLREQILETKSCLKNKTKENVKIPMVICGNKADRDF  127 (247)
T ss_pred             cCCEEEEEEeCCCHHHHHHHHHHHHHHHHhhcccccccccCCCCcEEEEEECccchh
Confidence            8999999999987  345566666555432         235789999999999975

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

>KOG1423 consensus Ras-like GTPase ERA [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=99.67  E-value=4.6e-16  Score=130.49  Aligned_cols=133  Identities=48%  Similarity=0.733  Sum_probs=102.6

Q ss_pred             CCCCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHH---HH
Q 025346          110 HPNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSM---MM  186 (254)
Q Consensus       110 ~~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~---~~  186 (254)
                      ..+.+...++++|.||+|||||.|.+++.++..++....||+..+.+.+..+..++.|+||||+........+..   ..
T Consensus        67 ~e~~k~L~vavIG~PNvGKStLtN~mig~kv~~vS~K~~TTr~~ilgi~ts~eTQlvf~DTPGlvs~~~~r~~~l~~s~l  146 (379)
T KOG1423|consen   67 EEAQKSLYVAVIGAPNVGKSTLTNQMIGQKVSAVSRKVHTTRHRILGIITSGETQLVFYDTPGLVSKKMHRRHHLMMSVL  146 (379)
T ss_pred             hhcceEEEEEEEcCCCcchhhhhhHhhCCccccccccccceeeeeeEEEecCceEEEEecCCcccccchhhhHHHHHHhh
Confidence            345667899999999999999999999999999999999999999999999999999999999876543322222   22


Q ss_pred             HHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          187 KNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       187 ~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      +.....+..||+|+.|+|+++....+.-.+...+.. ..++|-++|.||+|.+.+..
T Consensus       147 q~~~~a~q~AD~vvVv~Das~tr~~l~p~vl~~l~~-ys~ips~lvmnkid~~k~k~  202 (379)
T KOG1423|consen  147 QNPRDAAQNADCVVVVVDASATRTPLHPRVLHMLEE-YSKIPSILVMNKIDKLKQKR  202 (379)
T ss_pred             hCHHHHHhhCCEEEEEEeccCCcCccChHHHHHHHH-HhcCCceeeccchhcchhhh
Confidence            345566889999999999996433333222111111 25689999999999987654

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

Probab=99.67  E-value=2e-15  Score=118.20  Aligned_cols=113  Identities=19%  Similarity=0.201  Sum_probs=79.2

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINA  196 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~  196 (254)
                      +++++|.+|+|||||++++.+..........+.    ........+..+.+|||||...  +       ...+..++..+
T Consensus         1 ki~iiG~~~~GKssli~~~~~~~~~~~~~t~~~----~~~~~~~~~~~~~i~D~~G~~~--~-------~~~~~~~~~~~   67 (158)
T cd00878           1 RILILGLDGAGKTTILYKLKLGEVVTTIPTIGF----NVETVEYKNVSFTVWDVGGQDK--I-------RPLWKHYYENT   67 (158)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCCCCCCCCcCc----ceEEEEECCEEEEEEECCCChh--h-------HHHHHHHhccC
Confidence            589999999999999999998874322222222    2223445578899999999432  1       12344567889


Q ss_pred             cEEEEEEeCCCC--chhHHHHHHHhhccc-CCCCCEEEEEecCCCCChH
Q 025346          197 DCIVVLVDACKA--PERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       197 d~iv~vid~~~~--~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~  242 (254)
                      |++++|+|+++.  ......++..+.... ..+.|+++|+||+|+....
T Consensus        68 ~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~D~~~~~  116 (158)
T cd00878          68 NGIIFVVDSSDRERIEEAKEELHKLLNEEELKGVPLLIFANKQDLPGAL  116 (158)
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCcEEEEeeccCCcccc
Confidence            999999999874  444555555544432 3578999999999998754

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

>cd04118 Rab24 Rab24 subfamily

Probab=99.66  E-value=1.3e-15  Score=123.49  Aligned_cols=113  Identities=23%  Similarity=0.264  Sum_probs=77.7

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEE-E--EEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRI-L--GICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~-~--~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      +|+++|.+|+|||||+++++...+. ...+.++..... .  ...++....+.+|||||.  ..+..+       ...++
T Consensus         2 ki~vvG~~~vGKSsLi~~~~~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~--~~~~~~-------~~~~~   71 (193)
T cd04118           2 KVVMLGKESVGKTSLVERYVHHRFL-VGPYQNTIGAAFVAKRMVVGERVVTLGIWDTAGS--ERYEAM-------SRIYY   71 (193)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCcC-CcCcccceeeEEEEEEEEECCEEEEEEEEECCCc--hhhhhh-------hHhhc
Confidence            7999999999999999999988764 223444433222 1  222333456789999994  322222       23357


Q ss_pred             cCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          194 INADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       194 ~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      ..+|++++|+|+++.  ++....|+..+.. ...+.|+++|+||+|+..
T Consensus        72 ~~~d~iilv~d~~~~~s~~~~~~~~~~i~~-~~~~~piilv~nK~Dl~~  119 (193)
T cd04118          72 RGAKAAIVCYDLTDSSSFERAKFWVKELQN-LEEHCKIYLCGTKSDLIE  119 (193)
T ss_pred             CCCCEEEEEEECCCHHHHHHHHHHHHHHHh-cCCCCCEEEEEEcccccc
Confidence            899999999999874  3444556555443 345799999999999864

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

>cd04151 Arl1 Arl1 subfamily

Probab=99.66  E-value=1.9e-15  Score=118.61  Aligned_cols=112  Identities=20%  Similarity=0.231  Sum_probs=76.3

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINA  196 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~  196 (254)
                      +++++|.+++|||||++++....+..  ..+ +.. ......+..+..+.+|||||...         +...+..++..+
T Consensus         1 kv~lvG~~~~GKTsl~~~l~~~~~~~--~~~-t~~-~~~~~~~~~~~~~~i~Dt~G~~~---------~~~~~~~~~~~~   67 (158)
T cd04151           1 RILILGLDNAGKTTILYRLQLGEVVT--TIP-TIG-FNVETVTYKNLKFQVWDLGGQTS---------IRPYWRCYYSNT   67 (158)
T ss_pred             CEEEECCCCCCHHHHHHHHccCCCcC--cCC-ccC-cCeEEEEECCEEEEEEECCCCHH---------HHHHHHHHhcCC
Confidence            58999999999999999998766532  222 211 11223445678899999999432         113345668899


Q ss_pred             cEEEEEEeCCCCc--hhHHHHHHHhhcc-cCCCCCEEEEEecCCCCCh
Q 025346          197 DCIVVLVDACKAP--ERIDEILEEGVGD-HKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       197 d~iv~vid~~~~~--~~~~~~~~~~~~~-~~~~~piivV~nK~Dl~~~  241 (254)
                      +++++|+|+++..  .....++...++. ...+.|+++|+||+|+...
T Consensus        68 ~~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~  115 (158)
T cd04151          68 DAIIYVVDSTDRDRLGTAKEELHAMLEEEELKGAVLLVFANKQDMPGA  115 (158)
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCcEEEEEeCCCCCCC
Confidence            9999999998742  3333444443332 2246899999999999754

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.

>cd01863 Rab18 Rab18 subfamily

Probab=99.66  E-value=2.3e-15  Score=118.15  Aligned_cols=115  Identities=17%  Similarity=0.211  Sum_probs=77.4

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCcccc-ccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccC
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSI-VTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGIN  195 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~-~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~  195 (254)
                      +++++|++|+|||||++++.+..+.. ..+..+.+..............+.+|||||.  ..+.       ......++.
T Consensus         2 ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~g~--~~~~-------~~~~~~~~~   72 (161)
T cd01863           2 KILLIGDSGVGKSSLLLRFTDDTFDPDLAATIGVDFKVKTLTVDGKKVKLAIWDTAGQ--ERFR-------TLTSSYYRG   72 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCcccCCcccceEEEEEEEECCEEEEEEEEECCCc--hhhh-------hhhHHHhCC
Confidence            79999999999999999999887642 1222222222222233344578999999993  2211       223445789


Q ss_pred             ccEEEEEEeCCCC--chhHHHHHHHhhccc-CCCCCEEEEEecCCCCC
Q 025346          196 ADCIVVLVDACKA--PERIDEILEEGVGDH-KDKLPILLVLNKKDLIK  240 (254)
Q Consensus       196 ~d~iv~vid~~~~--~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~  240 (254)
                      +|++++|+|.++.  +.....++..+.... ..+.|+++|+||+|+..
T Consensus        73 ~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iv~nK~D~~~  120 (161)
T cd01863          73 AQGVILVYDVTRRDTFTNLETWLNELETYSTNNDIVKMLVGNKIDKEN  120 (161)
T ss_pred             CCEEEEEEECCCHHHHHhHHHHHHHHHHhCCCCCCcEEEEEECCcccc
Confidence            9999999999873  344555555444332 35789999999999973

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

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.66  E-value=1.9e-15  Score=144.89  Aligned_cols=128  Identities=25%  Similarity=0.290  Sum_probs=93.8

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHH--HHHH
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMK--NVRS  191 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~--~~~~  191 (254)
                      ..++++++|.+|+|||||+|++++.+...+++.++||++.....+...+..+.+|||||+...........+..  ....
T Consensus       449 ~~~kI~ivG~~nvGKSSLin~l~~~~~~~v~~~~gtT~d~~~~~~~~~~~~~~liDTaG~~~~~~~~~~~e~~~~~r~~~  528 (712)
T PRK09518        449 GLRRVALVGRPNVGKSSLLNQLTHEERAVVNDLAGTTRDPVDEIVEIDGEDWLFIDTAGIKRRQHKLTGAEYYSSLRTQA  528 (712)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCccccccCCCCCCCcCcceeEEEECCCEEEEEECCCcccCcccchhHHHHHHHHHHH
Confidence            35799999999999999999999998766788999999888777777788899999999753221111111111  1234


Q ss_pred             HccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          192 AGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      .+..+|++++|+|+++........+.....  ..+.|+++|+||+|+.+...
T Consensus       529 ~i~~advvilViDat~~~s~~~~~i~~~~~--~~~~piIiV~NK~DL~~~~~  578 (712)
T PRK09518        529 AIERSELALFLFDASQPISEQDLKVMSMAV--DAGRALVLVFNKWDLMDEFR  578 (712)
T ss_pred             HhhcCCEEEEEEECCCCCCHHHHHHHHHHH--HcCCCEEEEEEchhcCChhH
Confidence            578999999999999865544332222222  24689999999999987544

>cd00881 GTP_translation_factor GTP translation factor family

Probab=99.66  E-value=1.2e-15  Score=122.49  Aligned_cols=118  Identities=20%  Similarity=0.237  Sum_probs=80.4

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCcccccc---------------CCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhh
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVT---------------NKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHML  181 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~---------------~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~  181 (254)
                      +|+++|.+|+|||||+|.+.+.......               ...+++...........+..+.+|||||..+.     
T Consensus         1 ~v~v~G~~~~GKStlln~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~~~-----   75 (189)
T cd00881           1 NVGIAGHVDHGKTTLTERLLYVTGDIERDGTVEETFLDVLKEERERGITIKSGVATFEWPDRRVNFIDTPGHEDF-----   75 (189)
T ss_pred             CEEEEeCCCCCHHHHHHHHHHhcCCCCcCCceecccccCCHHHHHcCCCeecceEEEeeCCEEEEEEeCCCcHHH-----
Confidence            4889999999999999999887654211               11233444444445566788999999995321     


Q ss_pred             hHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHH
Q 025346          182 DSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIA  245 (254)
Q Consensus       182 ~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~  245 (254)
                          ...+..++..+|++++|+|++++.......+......  .+.|+++|+||+|+..+++..
T Consensus        76 ----~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~--~~~~i~iv~nK~D~~~~~~~~  133 (189)
T cd00881          76 ----SSEVIRGLSVSDGAILVVDANEGVQPQTREHLRIARE--GGLPIIVAINKIDRVGEEDLE  133 (189)
T ss_pred             ----HHHHHHHHHhcCEEEEEEECCCCCcHHHHHHHHHHHH--CCCCeEEEEECCCCcchhcHH
Confidence                1334455678999999999988554333322222222  578999999999999754443

This family consists primarily of translation initiation, elongation, and release factors, which play specific roles in protein translation. In addition, the family includes Snu114p, a component of the U5 small nuclear riboprotein particle which is a component of the spliceosome and is involved in excision of introns, TetM, a tetracycline resistance gene that protects the ribosome from tetracycline binding, and the unusual subfamily CysN/ATPS, which has an unrelated function (ATP sulfurylase) acquired through lateral transfer of the EF1-alpha gene and development of a new function.

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

Probab=99.66  E-value=3.9e-15  Score=117.48  Aligned_cols=113  Identities=19%  Similarity=0.198  Sum_probs=76.9

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEec---CCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSG---PEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~---~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      +.++++|.+|+|||||++++....+.. ...+++|..........   .+..+.+|||||...  +.       ..+...
T Consensus         1 ~~i~iiG~~~~GKtsli~~l~~~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~iiDtpG~~~--~~-------~~~~~~   70 (168)
T cd01887           1 PVVTVMGHVDHGKTTLLDKIRKTNVAA-GEAGGITQHIGAFEVPAEVLKIPGITFIDTPGHEA--FT-------NMRARG   70 (168)
T ss_pred             CEEEEEecCCCCHHHHHHHHHhccccc-ccCCCeEEeeccEEEecccCCcceEEEEeCCCcHH--HH-------HHHHHH
Confidence            468999999999999999999887652 33445555443334443   367899999999422  11       222344


Q ss_pred             ccCccEEEEEEeCCCCchhHH-HHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          193 GINADCIVVLVDACKAPERID-EILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~~~~~~-~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      +..+|++++|+|+++...... ..+.. ..  ..+.|+++|+||+|+...
T Consensus        71 ~~~~d~il~v~d~~~~~~~~~~~~~~~-~~--~~~~p~ivv~NK~Dl~~~  117 (168)
T cd01887          71 ASLTDIAILVVAADDGVMPQTIEAIKL-AK--AANVPFIVALNKIDKPNA  117 (168)
T ss_pred             HhhcCEEEEEEECCCCccHHHHHHHHH-HH--HcCCCEEEEEEceecccc
Confidence            678999999999987533222 22222 22  246899999999999754

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.

>cd01870 RhoA_like RhoA-like subfamily

Probab=99.66  E-value=1.2e-15  Score=121.46  Aligned_cols=116  Identities=22%  Similarity=0.240  Sum_probs=76.6

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEE--EecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGI--CSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~--~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .+++++|++|+|||||++++....+.  ..+.++........  .+.....+.+|||||..  .+..+       ....+
T Consensus         2 ~ki~iiG~~~~GKTsl~~~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~--~~~~~-------~~~~~   70 (175)
T cd01870           2 KKLVIVGDGACGKTCLLIVFSKDQFP--EVYVPTVFENYVADIEVDGKQVELALWDTAGQE--DYDRL-------RPLSY   70 (175)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCCC--CCCCCccccceEEEEEECCEEEEEEEEeCCCch--hhhhc-------ccccc
Confidence            57999999999999999999988764  22333333222222  23344678999999942  22221       12346


Q ss_pred             cCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          194 INADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       194 ~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      ..+|++++|+|+++.  +......+...+.....+.|+++|+||+|+.+..
T Consensus        71 ~~~d~~i~v~~~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~  121 (175)
T cd01870          71 PDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDE  121 (175)
T ss_pred             CCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEeeChhcccCh
Confidence            889999999999863  3444332222233334579999999999987643

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

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=99.65  E-value=1.3e-15  Score=121.35  Aligned_cols=113  Identities=21%  Similarity=0.254  Sum_probs=78.5

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEE--EecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGI--CSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~--~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      +++++|.+|+|||||++++....+.  ..+.+|+.+.....  .++....+.+|||||.  ..+..+       ...++.
T Consensus         2 k~~i~G~~~~GKtsl~~~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~--~~~~~~-------~~~~~~   70 (173)
T cd04130           2 KCVLVGDGAVGKTSLIVSYTTNGYP--TEYVPTAFDNFSVVVLVDGKPVRLQLCDTAGQ--DEFDKL-------RPLCYP   70 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCC--CCCCCceeeeeeEEEEECCEEEEEEEEECCCC--hhhccc-------cccccC
Confidence            7899999999999999999987763  44555554433322  3333467899999994  222222       223578


Q ss_pred             CccEEEEEEeCCCC--chhHH-HHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          195 NADCIVVLVDACKA--PERID-EILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       195 ~~d~iv~vid~~~~--~~~~~-~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      .+|++++|+|+++.  ++... .|+..+. ....+.|+++|+||+|+...
T Consensus        71 ~a~~~i~v~d~~~~~sf~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~  119 (173)
T cd04130          71 DTDVFLLCFSVVNPSSFQNISEKWIPEIR-KHNPKAPIILVGTQADLRTD  119 (173)
T ss_pred             CCcEEEEEEECCCHHHHHHHHHHHHHHHH-hhCCCCCEEEEeeChhhccC
Confidence            99999999999884  44443 3444443 23357999999999999653

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,

>cd04111 Rab39 Rab39 subfamily

Probab=99.65  E-value=2.3e-15  Score=124.13  Aligned_cols=117  Identities=23%  Similarity=0.311  Sum_probs=81.5

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEE---ecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGIC---SGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~---~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      .+|+++|.+|+|||||++++.+..+.... .+..+.+.....+   .+....+.+|||||.  ..+.       .....+
T Consensus         3 ~KIvvvG~~~vGKTsLi~~l~~~~~~~~~-~~ti~~d~~~~~i~~~~~~~~~l~i~Dt~G~--~~~~-------~~~~~~   72 (211)
T cd04111           3 FRLIVIGDSTVGKSSLLKRFTEGRFAEVS-DPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQ--ERFR-------SITRSY   72 (211)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCC-CceeceEEEEEEEEECCCCEEEEEEEeCCcc--hhHH-------HHHHHH
Confidence            58999999999999999999988765332 2222222222222   233468999999993  2221       223456


Q ss_pred             ccCccEEEEEEeCCC--CchhHHHHHHHhhcccC-CCCCEEEEEecCCCCChH
Q 025346          193 GINADCIVVLVDACK--APERIDEILEEGVGDHK-DKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       193 ~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~-~~~piivV~nK~Dl~~~~  242 (254)
                      +..+|++++|+|+++  ++..+..|+..+..... ...|+++|+||+|+....
T Consensus        73 ~~~~d~iilv~D~~~~~Sf~~l~~~~~~i~~~~~~~~~~iilvgNK~Dl~~~~  125 (211)
T cd04111          73 YRNSVGVLLVFDITNRESFEHVHDWLEEARSHIQPHRPVFILVGHKCDLESQR  125 (211)
T ss_pred             hcCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEcccccccc
Confidence            889999999999987  45666777776655433 357889999999997643

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.

>cd00157 Rho Rho (Ras homology) family

Probab=99.65  E-value=1.1e-15  Score=120.90  Aligned_cols=116  Identities=22%  Similarity=0.224  Sum_probs=76.4

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEE--EEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRIL--GICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~--~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      +++++|.+|+|||||++++.+.++.  ..+.++......  ....+....+.+|||||....  ....       ...+.
T Consensus         2 ki~i~G~~~~GKSsli~~l~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~l~~~D~~g~~~~--~~~~-------~~~~~   70 (171)
T cd00157           2 KIVVVGDGAVGKTCLLISYTTGKFP--TEYVPTVFDNYSATVTVDGKQVNLGLWDTAGQEEY--DRLR-------PLSYP   70 (171)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCC--CCCCCceeeeeEEEEEECCEEEEEEEEeCCCcccc--cccc-------hhhcC
Confidence            7999999999999999999988763  222222222222  223344567999999995432  1111       12357


Q ss_pred             CccEEEEEEeCCCCc--hhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          195 NADCIVVLVDACKAP--ERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       195 ~~d~iv~vid~~~~~--~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      .+|++++|+|+++..  ......+...+.....+.|+++|+||+|+.....
T Consensus        71 ~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~  121 (171)
T cd00157          71 NTDVFLICFSVDSPSSFENVKTKWIPEIRHYCPNVPIILVGTKIDLRDDEN  121 (171)
T ss_pred             CCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEEccHHhhhchh
Confidence            899999999998732  2222222232333345799999999999987654

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

>cd01862 Rab7 Rab7 subfamily

Probab=99.65  E-value=7.2e-15  Score=116.43  Aligned_cols=114  Identities=25%  Similarity=0.327  Sum_probs=75.8

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEE--EecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGI--CSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~--~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      +|+++|++|+|||||++++....+.. ...+..+.+.....  .......+.+|||||.  ..       +...+..+++
T Consensus         2 ki~viG~~~~GKSsl~~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~--~~-------~~~~~~~~~~   71 (172)
T cd01862           2 KVIILGDSGVGKTSLMNQYVNKKFSN-QYKATIGADFLTKEVTVDDKLVTLQIWDTAGQ--ER-------FQSLGVAFYR   71 (172)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCc-CcCCccceEEEEEEEEECCEEEEEEEEeCCCh--HH-------HHhHHHHHhc
Confidence            79999999999999999999887642 22222222222222  2333456889999993  21       1233445688


Q ss_pred             CccEEEEEEeCCCCc--hhHHHHHHHhhccc----CCCCCEEEEEecCCCCC
Q 025346          195 NADCIVVLVDACKAP--ERIDEILEEGVGDH----KDKLPILLVLNKKDLIK  240 (254)
Q Consensus       195 ~~d~iv~vid~~~~~--~~~~~~~~~~~~~~----~~~~piivV~nK~Dl~~  240 (254)
                      .+|++++|+|+.+..  .....|...+....    ..++|+++|+||+|+..
T Consensus        72 ~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~  123 (172)
T cd01862          72 GADCCVLVYDVTNPKSFESLDSWRDEFLIQASPSDPENFPFVVLGNKIDLEE  123 (172)
T ss_pred             CCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCccCCCCceEEEEEECccccc
Confidence            999999999998743  34444444433332    23789999999999984

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-

>PRK04213 GTP-binding protein; Provisional

Probab=99.65  E-value=1.9e-15  Score=123.35  Aligned_cols=122  Identities=25%  Similarity=0.283  Sum_probs=77.4

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccch--hhhhHHHHHHH--
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKI--HMLDSMMMKNV--  189 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~--~~~~~~~~~~~--  189 (254)
                      ...+|+++|.+|+|||||+|++.+..+. ++..+++|.......  ..  .+.+|||||+.....  ......+...+  
T Consensus         8 ~~~~i~i~G~~~~GKSsLin~l~~~~~~-~~~~~~~t~~~~~~~--~~--~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~   82 (201)
T PRK04213          8 RKPEIVFVGRSNVGKSTLVRELTGKKVR-VGKRPGVTRKPNHYD--WG--DFILTDLPGFGFMSGVPKEVQEKIKDEIVR   82 (201)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCc-cCCCCceeeCceEEe--ec--ceEEEeCCccccccccCHHHHHHHHHHHHH
Confidence            4578999999999999999999988754 666777776544322  22  689999999632210  00011121222  


Q ss_pred             --HHHccCccEEEEEEeCCCCchh-----------HHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          190 --RSAGINADCIVVLVDACKAPER-----------IDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       190 --~~~~~~~d~iv~vid~~~~~~~-----------~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                        ...+..++++++|+|.+.....           ....+...+.  ..++|+++|+||+|+...+
T Consensus        83 ~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~~~~l~~~~~--~~~~p~iiv~NK~Dl~~~~  146 (201)
T PRK04213         83 YIEDNADRILAAVLVVDGKSFIEIIERWEGRGEIPIDVEMFDFLR--ELGIPPIVAVNKMDKIKNR  146 (201)
T ss_pred             HHHhhhhhheEEEEEEeCccccccccccccCCCcHHHHHHHHHHH--HcCCCeEEEEECccccCcH
Confidence              2234567899999998653211           1111222222  2478999999999997654

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=99.65  E-value=7.7e-15  Score=119.03  Aligned_cols=130  Identities=26%  Similarity=0.320  Sum_probs=85.3

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCc-cccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchh-hhhHHHH---
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQK-LSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIH-MLDSMMM---  186 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~-~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~-~~~~~~~---  186 (254)
                      ....++++++|.+|+|||||++++++.+ ...+.+.+++|........   +..+.+|||||+...... .....+.   
T Consensus        21 ~~~~~~v~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~---~~~l~l~DtpG~~~~~~~~~~~~~~~~~~   97 (196)
T PRK00454         21 PDDGPEIAFAGRSNVGKSSLINALTNRKNLARTSKTPGRTQLINFFEV---NDKLRLVDLPGYGYAKVSKEEKEKWQKLI   97 (196)
T ss_pred             CCCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCceeEEEEEec---CCeEEEeCCCCCCCcCCCchHHHHHHHHH
Confidence            3456789999999999999999999876 4556666777765443222   468999999997532211 1111111   


Q ss_pred             HHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHH
Q 025346          187 KNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAK  246 (254)
Q Consensus       187 ~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~  246 (254)
                      ..+.......+++++|+|.+.+.......+...+.  ..+.|+++|+||+|+.+..+...
T Consensus        98 ~~~~~~~~~~~~~~~v~d~~~~~~~~~~~i~~~l~--~~~~~~iiv~nK~Dl~~~~~~~~  155 (196)
T PRK00454         98 EEYLRTRENLKGVVLLIDSRHPLKELDLQMIEWLK--EYGIPVLIVLTKADKLKKGERKK  155 (196)
T ss_pred             HHHHHhCccceEEEEEEecCCCCCHHHHHHHHHHH--HcCCcEEEEEECcccCCHHHHHH
Confidence            22222234557889999988765554433333333  24689999999999988765443

>cd00876 Ras Ras family

Probab=99.65  E-value=2.6e-15  Score=117.22  Aligned_cols=114  Identities=25%  Similarity=0.240  Sum_probs=80.9

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecC--CeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGP--EYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~--~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      +++++|++|+|||||++++++..+  ...+.+++...........  ...+.+||+||...  +.       ......+.
T Consensus         1 ki~i~G~~~~GKTsli~~l~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~g~~~--~~-------~~~~~~~~   69 (160)
T cd00876           1 KVVVLGAGGVGKSAITIQFVKGTF--VEEYDPTIEDSYRKTIVVDGETYTLDILDTAGQEE--FS-------AMRDLYIR   69 (160)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCC--CcCcCCChhHeEEEEEEECCEEEEEEEEECCChHH--HH-------HHHHHHHh
Confidence            589999999999999999998774  4455555554444444333  46789999999422  11       22334577


Q ss_pred             CccEEEEEEeCCCC--chhHHHHHHHhhcccC-CCCCEEEEEecCCCCCh
Q 025346          195 NADCIVVLVDACKA--PERIDEILEEGVGDHK-DKLPILLVLNKKDLIKP  241 (254)
Q Consensus       195 ~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~-~~~piivV~nK~Dl~~~  241 (254)
                      .+|++++|+|.++.  ......++..+..... ...|+++|+||+|+...
T Consensus        70 ~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~  119 (160)
T cd00876          70 QGDGFILVYSITDRESFEEIKGYREQILRVKDDEDIPIVLVGNKCDLENE  119 (160)
T ss_pred             cCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCccccc
Confidence            89999999999873  3445555555554433 57999999999999863

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

>cd04159 Arl10_like Arl10-like subfamily

Probab=99.65  E-value=5.3e-15  Score=114.95  Aligned_cols=116  Identities=22%  Similarity=0.271  Sum_probs=78.8

Q ss_pred             EEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCcc
Q 025346          118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINAD  197 (254)
Q Consensus       118 ~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d  197 (254)
                      ++++|++|+|||||++++.+.++. ....+......  .....+...+.+|||||...         +...+..++..+|
T Consensus         2 i~i~G~~~~GKssl~~~l~~~~~~-~~~~~t~~~~~--~~~~~~~~~~~~~D~~g~~~---------~~~~~~~~~~~~d   69 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVIAGGQFS-EDTIPTVGFNM--RKVTKGNVTLKVWDLGGQPR---------FRSMWERYCRGVN   69 (159)
T ss_pred             EEEEcCCCCCHHHHHHHHccCCCC-cCccCCCCcce--EEEEECCEEEEEEECCCCHh---------HHHHHHHHHhcCC
Confidence            789999999999999999998764 22222222221  22344558899999999421         2233455678999


Q ss_pred             EEEEEEeCCCC--chhHHHHHHHhhccc-CCCCCEEEEEecCCCCChHhHH
Q 025346          198 CIVVLVDACKA--PERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPGEIA  245 (254)
Q Consensus       198 ~iv~vid~~~~--~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~~~~  245 (254)
                      ++++|+|+++.  ......++....... ..+.|+++|+||+|+.......
T Consensus        70 ~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~  120 (159)
T cd04159          70 AIVYVVDAADRTALEAAKNELHDLLEKPSLEGIPLLVLGNKNDLPGALSVD  120 (159)
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccCCcCHH
Confidence            99999999873  233344455544322 2578999999999998765443

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.

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

Probab=99.65  E-value=8.5e-16  Score=119.86  Aligned_cols=122  Identities=22%  Similarity=0.321  Sum_probs=89.7

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCC----CceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKP----QTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKN  188 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~----~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~  188 (254)
                      ....+|+++|.+|+|||||+|++..+++.......    +.|+.   ..++...+.+++|||+|  ++++.++..     
T Consensus         7 ~~lLKViiLGDsGVGKtSLmn~yv~~kF~~qykaTIgadFltKe---v~Vd~~~vtlQiWDTAG--QERFqsLg~-----   76 (210)
T KOG0394|consen    7 RTLLKVIILGDSGVGKTSLMNQYVNKKFSQQYKATIGADFLTKE---VQVDDRSVTLQIWDTAG--QERFQSLGV-----   76 (210)
T ss_pred             ccceEEEEeCCCCccHHHHHHHHHHHHHHHHhccccchhheeeE---EEEcCeEEEEEEEeccc--HHHhhhccc-----
Confidence            34569999999999999999999999875322111    12222   23445567799999999  666665543     


Q ss_pred             HHHHccCccEEEEEEeCCC--CchhHHHHHHHhhcccC----CCCCEEEEEecCCCCCh--HhHHH
Q 025346          189 VRSAGINADCIVVLVDACK--APERIDEILEEGVGDHK----DKLPILLVLNKKDLIKP--GEIAK  246 (254)
Q Consensus       189 ~~~~~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~----~~~piivV~nK~Dl~~~--~~~~~  246 (254)
                        ..++++|++++|+|...  +++.+..|..+.+.+..    ...|++|++||+|+...  ++++.
T Consensus        77 --aFYRgaDcCvlvydv~~~~Sfe~L~~Wr~EFl~qa~~~~Pe~FPFVilGNKiD~~~~~~r~VS~  140 (210)
T KOG0394|consen   77 --AFYRGADCCVLVYDVNNPKSFENLENWRKEFLIQASPQDPETFPFVILGNKIDVDGGKSRQVSE  140 (210)
T ss_pred             --ceecCCceEEEEeecCChhhhccHHHHHHHHHHhcCCCCCCcccEEEEcccccCCCCccceeeH
Confidence              44899999999999876  67888888888776544    45799999999999763  44443

>PLN00023 GTP-binding protein; Provisional

Probab=99.65  E-value=3.4e-15  Score=128.62  Aligned_cols=120  Identities=18%  Similarity=0.220  Sum_probs=83.5

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCce-EEEEEE--EEe-------------cCCeeEEEEecCCCc
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTT-RHRILG--ICS-------------GPEYQMILYDTPGII  174 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt-~~~~~~--~~~-------------~~~~~~~liDtpG~~  174 (254)
                      +.....+|+++|..|+|||||++++.+..+.  ..+..|. ......  .++             ...+.+.||||+|  
T Consensus        17 ~~~~~iKIVLLGdsGVGKTSLI~rf~~g~F~--~~~~pTIG~d~~ik~I~~~~~~~~~~~ik~d~~k~v~LqIWDTAG--   92 (334)
T PLN00023         17 PPCGQVRVLVVGDSGVGKSSLVHLIVKGSSI--ARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSERDFFVELWDVSG--   92 (334)
T ss_pred             CCccceEEEEECCCCCcHHHHHHHHhcCCcc--cccCCceeeeEEEEEEEECCcccccccccccCCceEEEEEEECCC--
Confidence            4455679999999999999999999988764  2222222 111111  121             1246799999999  


Q ss_pred             ccchhhhhHHHHHHHHHHccCccEEEEEEeCCC--CchhHHHHHHHhhccc------------CCCCCEEEEEecCCCCC
Q 025346          175 EKKIHMLDSMMMKNVRSAGINADCIVVLVDACK--APERIDEILEEGVGDH------------KDKLPILLVLNKKDLIK  240 (254)
Q Consensus       175 ~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~------------~~~~piivV~nK~Dl~~  240 (254)
                      +..+..       .+..++.+++++|+|+|+++  +++.+..|+..+....            ..++|++||+||+||..
T Consensus        93 qErfrs-------L~~~yyr~AdgiILVyDITdr~SFenL~kWl~eI~~~~~~s~p~~s~~~~~~~ipIILVGNK~DL~~  165 (334)
T PLN00023         93 HERYKD-------CRSLFYSQINGVIFVHDLSQRRTKTSLQKWASEVAATGTFSAPLGSGGPGGLPVPYIVIGNKADIAP  165 (334)
T ss_pred             Chhhhh-------hhHHhccCCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcccccccccccccCCCCcEEEEEECccccc
Confidence            433333       34456899999999999988  4566777777765432            13589999999999976


Q ss_pred             h
Q 025346          241 P  241 (254)
Q Consensus       241 ~  241 (254)
                      .
T Consensus       166 ~  166 (334)
T PLN00023        166 K  166 (334)
T ss_pred             c
Confidence            4

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

Probab=99.64  E-value=4.1e-15  Score=120.87  Aligned_cols=114  Identities=20%  Similarity=0.244  Sum_probs=77.6

Q ss_pred             cEEEEEeCCCCChHHHHHHHhc--Ccccccc-------------CCCCceEEEEEEEEecCCeeEEEEecCCCcccchhh
Q 025346          116 GYVAVLGKPNVGKSTLANQMIG--QKLSIVT-------------NKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHM  180 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~--~~~~~~~-------------~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~  180 (254)
                      ++|+++|.+++|||||+++++.  ..+....             ...++|.......+.+.+..+.+|||||...     
T Consensus         3 r~i~ivG~~~~GKTsL~~~l~~~~~~~~~~~~~~~~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~l~DtpG~~~-----   77 (194)
T cd01891           3 RNIAIIAHVDHGKTTLVDALLKQSGTFRENEEVEERVMDSNDLERERGITILAKNTAVTYKDTKINIVDTPGHAD-----   77 (194)
T ss_pred             cEEEEEecCCCCHHHHHHHHHHHcCCCCccCcccccccccchhHHhcccccccceeEEEECCEEEEEEECCCcHH-----
Confidence            5799999999999999999996  3322110             1123344444445566788999999999532     


Q ss_pred             hhHHHHHHHHHHccCccEEEEEEeCCCCchhH-HHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          181 LDSMMMKNVRSAGINADCIVVLVDACKAPERI-DEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       181 ~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~-~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                          +...+..+++.+|++++|+|+++..... ..++....   ..++|+++|+||+|+...
T Consensus        78 ----~~~~~~~~~~~~d~~ilV~d~~~~~~~~~~~~~~~~~---~~~~p~iiv~NK~Dl~~~  132 (194)
T cd01891          78 ----FGGEVERVLSMVDGVLLLVDASEGPMPQTRFVLKKAL---ELGLKPIVVINKIDRPDA  132 (194)
T ss_pred             ----HHHHHHHHHHhcCEEEEEEECCCCccHHHHHHHHHHH---HcCCCEEEEEECCCCCCC
Confidence                2233455688999999999998754332 22233222   246899999999999643

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

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

Probab=99.64  E-value=1.3e-15  Score=119.69  Aligned_cols=117  Identities=26%  Similarity=0.387  Sum_probs=85.0

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCce-EEEEEEEE--ecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTT-RHRILGIC--SGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt-~~~~~~~~--~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      ||+++|+.++|||||++++.+..+.  ..+.++. .+.....+  +.....+.+||++|.  ..+..+.       ...+
T Consensus         1 Ki~vvG~~~vGKtsl~~~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~--~~~~~~~-------~~~~   69 (162)
T PF00071_consen    1 KIVVVGDSGVGKTSLINRLINGEFP--ENYIPTIGIDSYSKEVSIDGKPVNLEIWDTSGQ--ERFDSLR-------DIFY   69 (162)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSSTT--SSSETTSSEEEEEEEEEETTEEEEEEEEEETTS--GGGHHHH-------HHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHhhccc--ccccccccccccccccccccccccccccccccc--ccccccc-------cccc
Confidence            6899999999999999999988764  2333332 33333333  344567999999993  3333322       2347


Q ss_pred             cCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhH
Q 025346          194 INADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEI  244 (254)
Q Consensus       194 ~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~  244 (254)
                      ..+|++++|+|.++  ++..+..|+..+......+.|+++|+||+|+...+++
T Consensus        70 ~~~~~~ii~fd~~~~~S~~~~~~~~~~i~~~~~~~~~iivvg~K~D~~~~~~v  122 (162)
T PF00071_consen   70 RNSDAIIIVFDVTDEESFENLKKWLEEIQKYKPEDIPIIVVGNKSDLSDEREV  122 (162)
T ss_dssp             TTESEEEEEEETTBHHHHHTHHHHHHHHHHHSTTTSEEEEEEETTTGGGGSSS
T ss_pred             cccccccccccccccccccccccccccccccccccccceeeeccccccccccc
Confidence            89999999999987  5677777877766655557999999999999874443

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 ....

>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta)

Probab=99.64  E-value=3.4e-15  Score=122.34  Aligned_cols=117  Identities=25%  Similarity=0.331  Sum_probs=76.8

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEe--cCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICS--GPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~--~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      +.++++|++|+|||||++++...++..  ..+.++.........  ..+..+.+|||||...         +...+..++
T Consensus         1 ~~vll~G~~~sGKTsL~~~l~~~~~~~--t~~s~~~~~~~~~~~~~~~~~~~~l~D~pG~~~---------~~~~~~~~~   69 (203)
T cd04105           1 PTVLLLGPSDSGKTALFTKLTTGKYRS--TVTSIEPNVATFILNSEGKGKKFRLVDVPGHPK---------LRDKLLETL   69 (203)
T ss_pred             CeEEEEcCCCCCHHHHHHHHhcCCCCC--ccCcEeecceEEEeecCCCCceEEEEECCCCHH---------HHHHHHHHH
Confidence            368999999999999999999886532  222222221111121  3467899999999432         223344556


Q ss_pred             cCc-cEEEEEEeCCCCc---hhHHHHHHHhhcc---cCCCCCEEEEEecCCCCChHh
Q 025346          194 INA-DCIVVLVDACKAP---ERIDEILEEGVGD---HKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       194 ~~~-d~iv~vid~~~~~---~~~~~~~~~~~~~---~~~~~piivV~nK~Dl~~~~~  243 (254)
                      ..+ +++|||+|+++..   .....++..++..   ...++|+++|+||+|+.....
T Consensus        70 ~~~~~~vV~VvD~~~~~~~~~~~~~~l~~il~~~~~~~~~~pvliv~NK~Dl~~a~~  126 (203)
T cd04105          70 KNSAKGIVFVVDSATFQKNLKDVAEFLYDILTDLEKVKNKIPVLIACNKQDLFTAKP  126 (203)
T ss_pred             hccCCEEEEEEECccchhHHHHHHHHHHHHHHHHhhccCCCCEEEEecchhhcccCC
Confidence            777 9999999998752   2333444443321   235799999999999976533

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

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

Probab=99.64  E-value=1.4e-15  Score=116.13  Aligned_cols=124  Identities=19%  Similarity=0.205  Sum_probs=89.4

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCC-CCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNK-PQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~-~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      -..+++++|.+|+|||||+.+|....+....+. .+..-....-.+++...++.+|||+|  ++++..+       +.+|
T Consensus        10 ~t~KiLlIGeSGVGKSSLllrFv~~~fd~~~~~tIGvDFkvk~m~vdg~~~KlaiWDTAG--qErFRtL-------TpSy   80 (209)
T KOG0080|consen   10 TTFKILLIGESGVGKSSLLLRFVSNTFDDLHPTTIGVDFKVKVMQVDGKRLKLAIWDTAG--QERFRTL-------TPSY   80 (209)
T ss_pred             eeEEEEEEccCCccHHHHHHHHHhcccCccCCceeeeeEEEEEEEEcCceEEEEEEeccc--hHhhhcc-------CHhH
Confidence            357999999999999999999999887532222 12222222334566678899999999  5554444       4467


Q ss_pred             ccCccEEEEEEeCCC--CchhHHHHHHHhhcc-cCCCCCEEEEEecCCCCChHhHHH
Q 025346          193 GINADCIVVLVDACK--APERIDEILEEGVGD-HKDKLPILLVLNKKDLIKPGEIAK  246 (254)
Q Consensus       193 ~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~-~~~~~piivV~nK~Dl~~~~~~~~  246 (254)
                      +++|-+||+|+|++.  .+..++.|+.++-.. .++++-.++|+||+|....+.+..
T Consensus        81 yRgaqGiIlVYDVT~Rdtf~kLd~W~~Eld~Ystn~diikmlVgNKiDkes~R~V~r  137 (209)
T KOG0080|consen   81 YRGAQGIILVYDVTSRDTFVKLDIWLKELDLYSTNPDIIKMLVGNKIDKESERVVDR  137 (209)
T ss_pred             hccCceeEEEEEccchhhHHhHHHHHHHHHhhcCCccHhHhhhcccccchhcccccH
Confidence            999999999999987  566677777765433 235667789999999987666544

>PLN03108 Rab family protein; Provisional

Probab=99.64  E-value=5.3e-15  Score=121.83  Aligned_cols=118  Identities=19%  Similarity=0.205  Sum_probs=81.2

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEE--EEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRI--LGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~--~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      ..+++++|++|+|||||++++.+..+... ..+.......  ..........+.+|||||.  ..+.       .....+
T Consensus         6 ~~kivivG~~gvGKStLi~~l~~~~~~~~-~~~ti~~~~~~~~i~~~~~~i~l~l~Dt~G~--~~~~-------~~~~~~   75 (210)
T PLN03108          6 LFKYIIIGDTGVGKSCLLLQFTDKRFQPV-HDLTIGVEFGARMITIDNKPIKLQIWDTAGQ--ESFR-------SITRSY   75 (210)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCCCCCC-CCCCccceEEEEEEEECCEEEEEEEEeCCCc--HHHH-------HHHHHH
Confidence            36899999999999999999998876532 2222222221  2223334467899999993  2211       233455


Q ss_pred             ccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          193 GINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      +..+|++++|+|+++.  +..+..|+..+......+.|+++|+||+|+.+.+
T Consensus        76 ~~~ad~~vlv~D~~~~~s~~~l~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~  127 (210)
T PLN03108         76 YRGAAGALLVYDITRRETFNHLASWLEDARQHANANMTIMLIGNKCDLAHRR  127 (210)
T ss_pred             hccCCEEEEEEECCcHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCcccc
Confidence            7889999999999873  4555566665554444679999999999997643

>cd04148 RGK RGK subfamily

Probab=99.64  E-value=3.6e-15  Score=123.84  Aligned_cols=116  Identities=26%  Similarity=0.281  Sum_probs=77.9

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCce---EEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTT---RHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt---~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      +|+++|.+|+|||||++++....+. ...+.++.   .......+++....+.+|||||..  .  ...       ..++
T Consensus         2 KI~lvG~~gvGKTsLi~~~~~~~~~-~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~~--~--~~~-------~~~~   69 (221)
T cd04148           2 RVVMLGSPGVGKSSLASQFTSGEYD-DHAYDASGDDDTYERTVSVDGEESTLVVIDHWEQE--M--WTE-------DSCM   69 (221)
T ss_pred             EEEEECCCCCcHHHHHHHHhcCCcC-ccCcCCCccccceEEEEEECCEEEEEEEEeCCCcc--h--HHH-------hHHh
Confidence            7999999999999999999877663 12222221   112222334556789999999953  1  111       1234


Q ss_pred             c-CccEEEEEEeCCCC--chhHHHHHHHhhccc-CCCCCEEEEEecCCCCChHhH
Q 025346          194 I-NADCIVVLVDACKA--PERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPGEI  244 (254)
Q Consensus       194 ~-~~d~iv~vid~~~~--~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~~~  244 (254)
                      . .+|++++|+|+++.  +.....++..+.... ..+.|+++|+||+|+...+++
T Consensus        70 ~~~ad~iilV~d~td~~S~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~~~v  124 (221)
T cd04148          70 QYQGDAFVVVYSVTDRSSFERASELRIQLRRNRQLEDRPIILVGNKSDLARSREV  124 (221)
T ss_pred             hcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhcccccee
Confidence            4 89999999999883  455556665554432 257999999999999765543

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

>cd04103 Centaurin_gamma Centaurin gamma

Probab=99.64  E-value=1.9e-15  Score=118.98  Aligned_cols=107  Identities=11%  Similarity=0.187  Sum_probs=75.7

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEE-EEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccC
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHR-ILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGIN  195 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~-~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~  195 (254)
                      +++++|++|+|||||+.++....+..  .++++.... ....+++....+.+|||+|...              ..++..
T Consensus         2 ki~vvG~~gvGKTsli~~~~~~~f~~--~~~~~~~~~~~~i~~~~~~~~l~i~D~~g~~~--------------~~~~~~   65 (158)
T cd04103           2 KLGIVGNLQSGKSALVHRYLTGSYVQ--LESPEGGRFKKEVLVDGQSHLLLIRDEGGAPD--------------AQFASW   65 (158)
T ss_pred             EEEEECCCCCcHHHHHHHHHhCCCCC--CCCCCccceEEEEEECCEEEEEEEEECCCCCc--------------hhHHhc
Confidence            69999999999999999999877642  222222211 1122233346799999999421              123578


Q ss_pred             ccEEEEEEeCCC--CchhHHHHHHHhhcccC-CCCCEEEEEecCCCC
Q 025346          196 ADCIVVLVDACK--APERIDEILEEGVGDHK-DKLPILLVLNKKDLI  239 (254)
Q Consensus       196 ~d~iv~vid~~~--~~~~~~~~~~~~~~~~~-~~~piivV~nK~Dl~  239 (254)
                      +|++++|+|+++  +++.+..|+..+..... .+.|+++|+||+|+.
T Consensus        66 ~~~~ilv~d~~~~~sf~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~  112 (158)
T cd04103          66 VDAVIFVFSLENEASFQTVYNLYHQLSSYRNISEIPLILVGTQDAIS  112 (158)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeeHHHhh
Confidence            999999999988  45666677776655432 568999999999985

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.

>cd04177 RSR1 RSR1 subgroup

Probab=99.63  E-value=4e-15  Score=117.97  Aligned_cols=116  Identities=21%  Similarity=0.251  Sum_probs=79.4

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEE--EecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGI--CSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~--~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .+++++|.+|+|||||++++....+.  ..+.+++.......  .+.....+.+|||||..  .+..+       ...++
T Consensus         2 ~ki~liG~~~~GKTsli~~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~--~~~~~-------~~~~~   70 (168)
T cd04177           2 YKIVVLGAGGVGKSALTVQFVQNVFI--ESYDPTIEDSYRKQVEIDGRQCDLEILDTAGTE--QFTAM-------RELYI   70 (168)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCC--cccCCcchheEEEEEEECCEEEEEEEEeCCCcc--cchhh-------hHHHH
Confidence            37999999999999999999987763  23333333222222  33445688999999943  22222       33446


Q ss_pred             cCccEEEEEEeCCC--CchhHHHHHHHhhccc-CCCCCEEEEEecCCCCChH
Q 025346          194 INADCIVVLVDACK--APERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       194 ~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~  242 (254)
                      ..++++++|+|.++  .++....+...+.+.. ..+.|+++|+||+|+...+
T Consensus        71 ~~~~~~vlv~~~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~D~~~~~  122 (168)
T cd04177          71 KSGQGFLLVYSVTSEASLNELGELREQVLRIKDSDNVPMVLVGNKADLEDDR  122 (168)
T ss_pred             hhCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCCEEEEEEChhccccC
Confidence            78999999999987  3445555555544322 3579999999999997654

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

>cd04147 Ras_dva Ras-dva subfamily

Probab=99.63  E-value=3e-15  Score=122.16  Aligned_cols=113  Identities=18%  Similarity=0.229  Sum_probs=78.3

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCC--eeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPE--YQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      +|+++|.+|+|||||++++++.++.  ..+..++.......+...+  ..+.+|||||...  +..+       ...++.
T Consensus         1 kv~vvG~~~vGKTsll~~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~l~i~D~~G~~~--~~~~-------~~~~~~   69 (198)
T cd04147           1 RLVFMGAAGVGKTALIQRFLYDTFE--PKYRRTVEEMHRKEYEVGGVSLTLDILDTSGSYS--FPAM-------RKLSIQ   69 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCC--ccCCCchhhheeEEEEECCEEEEEEEEECCCchh--hhHH-------HHHHhh
Confidence            5899999999999999999988764  2333343322222333333  6789999999432  2222       234578


Q ss_pred             CccEEEEEEeCCCC--chhHHHHHHHhhcccC-CCCCEEEEEecCCCCC
Q 025346          195 NADCIVVLVDACKA--PERIDEILEEGVGDHK-DKLPILLVLNKKDLIK  240 (254)
Q Consensus       195 ~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~-~~~piivV~nK~Dl~~  240 (254)
                      .+|++++|+|+++.  ++....++..+..... .++|+++|+||+|+..
T Consensus        70 ~ad~vilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~  118 (198)
T cd04147          70 NSDAFALVYAVDDPESFEEVERLREEILEVKEDKFVPIVVVGNKADSLE  118 (198)
T ss_pred             cCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEcccccc
Confidence            99999999999873  4555555555554333 5799999999999976

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.

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

Probab=99.63  E-value=4.3e-15  Score=111.85  Aligned_cols=121  Identities=15%  Similarity=0.191  Sum_probs=88.1

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCce-EE-EEEEEE-ecCCeeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTT-RH-RILGIC-SGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt-~~-~~~~~~-~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      ..+++++|.+.+|||||+-+.++..+..  .+..|. .+ .....+ .....++++|||+|  ++.       +...+..
T Consensus        21 mfKlliiGnssvGKTSfl~ry~ddSFt~--afvsTvGidFKvKTvyr~~kRiklQiwDTag--qEr-------yrtiTTa   89 (193)
T KOG0093|consen   21 MFKLLIIGNSSVGKTSFLFRYADDSFTS--AFVSTVGIDFKVKTVYRSDKRIKLQIWDTAG--QER-------YRTITTA   89 (193)
T ss_pred             eeeEEEEccCCccchhhhHHhhcccccc--ceeeeeeeeEEEeEeeecccEEEEEEEeccc--chh-------hhHHHHH
Confidence            3489999999999999999999988752  111111 11 111112 23457899999999  332       3345667


Q ss_pred             HccCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHH
Q 025346          192 AGINADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAK  246 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~  246 (254)
                      ++++++++|+++|+++  ++..+..|...+....-.+.|+|+|+||||+.+++.++.
T Consensus        90 yyRgamgfiLmyDitNeeSf~svqdw~tqIktysw~naqvilvgnKCDmd~eRvis~  146 (193)
T KOG0093|consen   90 YYRGAMGFILMYDITNEESFNSVQDWITQIKTYSWDNAQVILVGNKCDMDSERVISH  146 (193)
T ss_pred             HhhccceEEEEEecCCHHHHHHHHHHHHHheeeeccCceEEEEecccCCccceeeeH
Confidence            8999999999999987  566677777766655567899999999999998876643

>cd01889 SelB_euk SelB subfamily

Probab=99.63  E-value=7e-15  Score=119.33  Aligned_cols=116  Identities=23%  Similarity=0.212  Sum_probs=74.8

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCc------cccccCCCCceEEEEEEEEe--------------cCCeeEEEEecCCCccc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQK------LSIVTNKPQTTRHRILGICS--------------GPEYQMILYDTPGIIEK  176 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~------~~~~~~~~~tt~~~~~~~~~--------------~~~~~~~liDtpG~~~~  176 (254)
                      +++++|.+++|||||++++++..      .......+++|.........              ..+..+.+|||||..  
T Consensus         2 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~~~~~e~~~g~T~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~DtpG~~--   79 (192)
T cd01889           2 NVGVLGHVDSGKTSLAKALSEIASTAAFDKNPQSQERGITLDLGFSSFYVDKPKHLRELINPGEENLQITLVDCPGHA--   79 (192)
T ss_pred             eEEEEecCCCCHHHHHHHHHhccchhhhccCHHHHHcCCeeeecceEEEecccccccccccccccCceEEEEECCCcH--
Confidence            68999999999999999998731      11122334555544332222              236789999999952  


Q ss_pred             chhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          177 KIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       177 ~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                             .+...+......+|++++|+|++++..............  .+.|+++|+||+|+.....
T Consensus        80 -------~~~~~~~~~~~~~d~vi~VvD~~~~~~~~~~~~~~~~~~--~~~~~iiv~NK~Dl~~~~~  137 (192)
T cd01889          80 -------SLIRTIIGGAQIIDLMLLVVDATKGIQTQTAECLVIGEI--LCKKLIVVLNKIDLIPEEE  137 (192)
T ss_pred             -------HHHHHHHHHHhhCCEEEEEEECCCCccHHHHHHHHHHHH--cCCCEEEEEECcccCCHHH
Confidence                   122333344678999999999988543332211112221  2579999999999986544

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

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=99.63  E-value=6.5e-15  Score=113.84  Aligned_cols=117  Identities=29%  Similarity=0.417  Sum_probs=76.3

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCC--eeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPE--YQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .+|+++|.+|+|||||++.+.+.. ......++++..........++  ..+.+|||||.  ..+..+...       ..
T Consensus         2 ~ki~~~G~~~~GKstl~~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~--~~~~~~~~~-------~~   71 (161)
T TIGR00231         2 IKIVIVGDPNVGKSTLLNRLLGNK-FITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQ--EDYRAIRRL-------YY   71 (161)
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCC-CcCcCCCCceeeeeEEEEEECCEEEEEEEEECCCc--ccchHHHHH-------HH
Confidence            479999999999999999999988 4356666777766665555555  78999999994  322222222       23


Q ss_pred             cCccEEEEEEeCCCC---chh-HHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          194 INADCIVVLVDACKA---PER-IDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       194 ~~~d~iv~vid~~~~---~~~-~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      ..++.++.++|....   ... ...+...+......+.|+++|+||+|+....
T Consensus        72 ~~~~~~i~~~d~~~~v~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~  124 (161)
T TIGR00231        72 RAVESSLRVFDIVILVLDVEEILEKQTKEIIHHAESNVPIILVGNKIDLRDAK  124 (161)
T ss_pred             hhhhEEEEEEEEeeeehhhhhHhHHHHHHHHHhcccCCcEEEEEEcccCCcch
Confidence            455566666665432   111 1122222222222378999999999998743

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.

>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases

Probab=99.63  E-value=1.9e-15  Score=112.91  Aligned_cols=111  Identities=22%  Similarity=0.313  Sum_probs=70.9

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccc---cccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLS---IVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~---~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      ||+++|.+|+|||||++++.+....   ......+.+..............+.+||++|..  .+.....       ..+
T Consensus         1 kI~V~G~~g~GKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~g~~--~~~~~~~-------~~~   71 (119)
T PF08477_consen    1 KIVVLGDSGVGKTSLIRRLCGGEFPDNSVPEETSEITIGVDVIVVDGDRQSLQFWDFGGQE--EFYSQHQ-------FFL   71 (119)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS--------SSTTSCEEEEEEEETTEEEEEEEEEESSSH--CHHCTSH-------HHH
T ss_pred             CEEEECcCCCCHHHHHHHHhcCCCcccccccccCCCcEEEEEEEecCCceEEEEEecCccc--eeccccc-------chh
Confidence            6899999999999999999988765   122233333333344444555569999999942  2222111       126


Q ss_pred             cCccEEEEEEeCCCC--chhHHH---HHHHhhcccCCCCCEEEEEecCC
Q 025346          194 INADCIVVLVDACKA--PERIDE---ILEEGVGDHKDKLPILLVLNKKD  237 (254)
Q Consensus       194 ~~~d~iv~vid~~~~--~~~~~~---~~~~~~~~~~~~~piivV~nK~D  237 (254)
                      ..+|++++|+|+++.  +..+..   ++..+.. ...++|+++|+||.|
T Consensus        72 ~~~d~~ilv~D~s~~~s~~~~~~~~~~l~~~~~-~~~~~piilv~nK~D  119 (119)
T PF08477_consen   72 KKADAVILVYDLSDPESLEYLSQLLKWLKNIRK-RDKNIPIILVGNKSD  119 (119)
T ss_dssp             HHSCEEEEEEECCGHHHHHHHHHHHHHHHHHHH-HSSCSEEEEEEE-TC
T ss_pred             hcCcEEEEEEcCCChHHHHHHHHHHHHHHHHHc-cCCCCCEEEEEeccC
Confidence            779999999999983  233332   3333322 246699999999998

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.

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=99.63  E-value=8.4e-15  Score=114.94  Aligned_cols=113  Identities=23%  Similarity=0.258  Sum_probs=79.6

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEE--EEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILG--ICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~--~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      +++++|.+|+|||||+++++...+.  ..+.+++......  ..+.....+.+|||||...  +.       ......+.
T Consensus         2 ki~~~G~~~~GKTsl~~~l~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~--~~-------~~~~~~~~   70 (164)
T cd04139           2 KVIVVGAGGVGKSALTLQFMYDEFV--EDYEPTKADSYRKKVVLDGEDVQLNILDTAGQED--YA-------AIRDNYHR   70 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCc--cccCCcchhhEEEEEEECCEEEEEEEEECCChhh--hh-------HHHHHHhh
Confidence            7999999999999999999987764  3444443332222  3334457899999999422  22       22334578


Q ss_pred             CccEEEEEEeCCCC--chhHHHHHHHhhccc-CCCCCEEEEEecCCCCC
Q 025346          195 NADCIVVLVDACKA--PERIDEILEEGVGDH-KDKLPILLVLNKKDLIK  240 (254)
Q Consensus       195 ~~d~iv~vid~~~~--~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~  240 (254)
                      .++++++|+|+++.  +.....++..+.... ..++|+++|+||+|+..
T Consensus        71 ~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~D~~~  119 (164)
T cd04139          71 SGEGFLLVFSITDMESFTATAEFREQILRVKDDDNVPLLLVGNKCDLED  119 (164)
T ss_pred             cCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEcccccc
Confidence            89999999999773  344556666555432 35799999999999976

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

>cd01892 Miro2 Miro2 subfamily

Probab=99.63  E-value=4.1e-15  Score=118.31  Aligned_cols=117  Identities=21%  Similarity=0.219  Sum_probs=78.7

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEE---EEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHH
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRI---LGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVR  190 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~---~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~  190 (254)
                      +..+++++|.+|+|||||++++.+..+. +..+.+|+....   ...+++....+.+|||+|.  ..+..+       ..
T Consensus         3 ~~~kv~~vG~~~vGKTsli~~~~~~~f~-~~~~~~T~~~~~~~~~~~~~~~~~~l~~~d~~g~--~~~~~~-------~~   72 (169)
T cd01892           3 NVFLCFVLGAKGSGKSALLRAFLGRSFS-LNAYSPTIKPRYAVNTVEVYGQEKYLILREVGED--EVAILL-------ND   72 (169)
T ss_pred             eEEEEEEECCCCCcHHHHHHHHhCCCCC-cccCCCccCcceEEEEEEECCeEEEEEEEecCCc--cccccc-------ch
Confidence            3568999999999999999999998874 244444443221   1223344467899999994  322222       22


Q ss_pred             HHccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          191 SAGINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      .++..+|++++|+|+++.  ++.+..++.....  ..++|+++|+||+|+.+..
T Consensus        73 ~~~~~~d~~llv~d~~~~~s~~~~~~~~~~~~~--~~~~p~iiv~NK~Dl~~~~  124 (169)
T cd01892          73 AELAACDVACLVYDSSDPKSFSYCAEVYKKYFM--LGEIPCLFVAAKADLDEQQ  124 (169)
T ss_pred             hhhhcCCEEEEEEeCCCHHHHHHHHHHHHHhcc--CCCCeEEEEEEcccccccc
Confidence            346899999999999874  2333344443221  2479999999999996543

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.

>cd04155 Arl3 Arl3 subfamily

Probab=99.62  E-value=1.5e-14  Score=114.88  Aligned_cols=121  Identities=21%  Similarity=0.329  Sum_probs=81.7

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      .+..+++++|++|+|||||++++.+..+....+..+    .....+...+..+.+|||||...         +...+..+
T Consensus        12 ~~~~~v~i~G~~g~GKStLl~~l~~~~~~~~~~t~g----~~~~~i~~~~~~~~~~D~~G~~~---------~~~~~~~~   78 (173)
T cd04155          12 SEEPRILILGLDNAGKTTILKQLASEDISHITPTQG----FNIKTVQSDGFKLNVWDIGGQRA---------IRPYWRNY   78 (173)
T ss_pred             CCccEEEEEccCCCCHHHHHHHHhcCCCcccCCCCC----cceEEEEECCEEEEEEECCCCHH---------HHHHHHHH
Confidence            446789999999999999999999876542222222    11223344578899999999421         11334456


Q ss_pred             ccCccEEEEEEeCCCC--chhHHHHHHHhhccc-CCCCCEEEEEecCCCCChHhHHH
Q 025346          193 GINADCIVVLVDACKA--PERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPGEIAK  246 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~~~~~  246 (254)
                      +..++++++|+|+++.  +.....++....+.. ..++|+++++||+|+.......+
T Consensus        79 ~~~~~~ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~  135 (173)
T cd04155          79 FENTDCLIYVIDSADKKRLEEAGAELVELLEEEKLAGVPVLVFANKQDLATAAPAEE  135 (173)
T ss_pred             hcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECCCCccCCCHHH
Confidence            7899999999999873  333344444444322 24689999999999977544433

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.

>cd01890 LepA LepA subfamily

Probab=99.61  E-value=1e-14  Score=116.57  Aligned_cols=114  Identities=25%  Similarity=0.312  Sum_probs=72.3

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCcccc--------c------cCCCCceEEEEEEEE-----ecCCeeEEEEecCCCccc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSI--------V------TNKPQTTRHRILGIC-----SGPEYQMILYDTPGIIEK  176 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~--------~------~~~~~tt~~~~~~~~-----~~~~~~~~liDtpG~~~~  176 (254)
                      ++++++|.+++|||||++++++.....        .      ....+.+........     +.....+.+|||||....
T Consensus         1 rni~~vG~~~~GKssL~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~   80 (179)
T cd01890           1 RNFSIIAHIDHGKSTLADRLLELTGTVSKREMKEQVLDSMDLERERGITIKAQTVRLNYKAKDGQEYLLNLIDTPGHVDF   80 (179)
T ss_pred             CcEEEEeecCCCHHHHHHHHHHHhCCCCcCCCceEeccCChhHHHCCCeEecceEEEEEecCCCCcEEEEEEECCCChhh
Confidence            368999999999999999998743110        0      001122322221111     445678999999995332


Q ss_pred             chhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHH-HHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          177 KIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERID-EILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       177 ~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~-~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                               ...+..++..+|++++|+|+++...... ..+....   ..++|+++|+||+|+...
T Consensus        81 ---------~~~~~~~~~~ad~~i~v~D~~~~~~~~~~~~~~~~~---~~~~~iiiv~NK~Dl~~~  134 (179)
T cd01890          81 ---------SYEVSRSLAACEGALLLVDATQGVEAQTLANFYLAL---ENNLEIIPVINKIDLPSA  134 (179)
T ss_pred             ---------HHHHHHHHHhcCeEEEEEECCCCccHhhHHHHHHHH---HcCCCEEEEEECCCCCcC
Confidence                     1234456788999999999987543211 2222222   246899999999998643

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.

>cd00880 Era_like Era (E

Probab=99.61  E-value=1.3e-14  Score=112.30  Aligned_cols=124  Identities=33%  Similarity=0.373  Sum_probs=87.9

Q ss_pred             EEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecC-CeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccE
Q 025346          120 VLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGP-EYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADC  198 (254)
Q Consensus       120 ~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~-~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~  198 (254)
                      ++|++|+|||||++.+.+.........+++|........... ...+.+|||||+......  ...........+..+|+
T Consensus         1 i~G~~gsGKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~g~~~~~~~--~~~~~~~~~~~~~~~d~   78 (163)
T cd00880           1 LFGRTNAGKSSLLNALLGQEVAIVSPVPGTTTDPVEYVWELGPLGPVVLIDTPGIDEAGGL--GREREELARRVLERADL   78 (163)
T ss_pred             CcCCCCCCHHHHHHHHhCccccccCCCCCcEECCeEEEEEecCCCcEEEEECCCCCccccc--hhhHHHHHHHHHHhCCE
Confidence            479999999999999998876656667777766555555443 678999999997654321  11112344556788999


Q ss_pred             EEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHHH
Q 025346          199 IVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKK  247 (254)
Q Consensus       199 iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~~  247 (254)
                      +++|+|++.........+....  ...+.|+++|+||+|+.........
T Consensus        79 il~v~~~~~~~~~~~~~~~~~~--~~~~~~~ivv~nK~D~~~~~~~~~~  125 (163)
T cd00880          79 ILFVVDADLRADEEEEKLLELL--RERGKPVLLVLNKIDLLPEEEEEEL  125 (163)
T ss_pred             EEEEEeCCCCCCHHHHHHHHHH--HhcCCeEEEEEEccccCChhhHHHH
Confidence            9999999986554444322211  2357899999999999987666543

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

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

Probab=99.61  E-value=9.3e-15  Score=119.43  Aligned_cols=108  Identities=18%  Similarity=0.249  Sum_probs=76.0

Q ss_pred             EeCCCCChHHHHHHHhcCccccccCCCCceE-EE--EEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCcc
Q 025346          121 LGKPNVGKSTLANQMIGQKLSIVTNKPQTTR-HR--ILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINAD  197 (254)
Q Consensus       121 ~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~-~~--~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d  197 (254)
                      +|.+|+|||||+++++...+.  ..+.+|.. ..  .....+.....+.+|||||.  ..+.       ..+..++++++
T Consensus         1 vG~~~vGKTsLi~r~~~~~f~--~~~~~Tig~~~~~~~~~~~~~~~~l~iwDt~G~--e~~~-------~l~~~~~~~ad   69 (200)
T smart00176        1 VGDGGTGKTTFVKRHLTGEFE--KKYVATLGVEVHPLVFHTNRGPIRFNVWDTAGQ--EKFG-------GLRDGYYIQGQ   69 (200)
T ss_pred             CCCCCCCHHHHHHHHhcCCCC--CCCCCceeEEEEEEEEEECCEEEEEEEEECCCc--hhhh-------hhhHHHhcCCC
Confidence            599999999999999987663  23333321 22  22223445678999999993  3222       23345689999


Q ss_pred             EEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          198 CIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       198 ~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      ++|+|+|+++.  +..+..|+..+.+. ..++|+++|+||+|+..
T Consensus        70 ~~ilV~D~t~~~S~~~i~~w~~~i~~~-~~~~piilvgNK~Dl~~  113 (200)
T smart00176       70 CAIIMFDVTARVTYKNVPNWHRDLVRV-CENIPIVLCGNKVDVKD  113 (200)
T ss_pred             EEEEEEECCChHHHHHHHHHHHHHHHh-CCCCCEEEEEECccccc
Confidence            99999999883  45566676666543 36799999999999854

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

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

Probab=99.60  E-value=9.5e-15  Score=116.98  Aligned_cols=116  Identities=26%  Similarity=0.316  Sum_probs=78.8

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEE--ecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGIC--SGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~--~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .+|+++|.+|+|||||++++....+.  ..+.+++........  ......+.+|||||...  +.       .....++
T Consensus         2 ~kv~l~G~~g~GKTtl~~~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~l~D~~g~~~--~~-------~~~~~~~   70 (180)
T cd04137           2 RKIAVLGSRSVGKSSLTVQFVEGHFV--ESYYPTIENTFSKIIRYKGQDYHLEIVDTAGQDE--YS-------ILPQKYS   70 (180)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCc--cccCcchhhhEEEEEEECCEEEEEEEEECCChHh--hH-------HHHHHHH
Confidence            47999999999999999999987753  333333322222222  22345688999999432  11       2223456


Q ss_pred             cCccEEEEEEeCCCC--chhHHHHHHHhhccc-CCCCCEEEEEecCCCCChH
Q 025346          194 INADCIVVLVDACKA--PERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       194 ~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~  242 (254)
                      ..++++++|+|.++.  ++....++..+.... ..+.|+++|+||+|+...+
T Consensus        71 ~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~  122 (180)
T cd04137          71 IGIHGYILVYSVTSRKSFEVVKVIYDKILDMLGKESVPIVLVGNKSDLHTQR  122 (180)
T ss_pred             hhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEchhhhhcC
Confidence            789999999999873  455556666555543 3568999999999997543

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

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

Probab=99.60  E-value=6.7e-15  Score=110.91  Aligned_cols=117  Identities=21%  Similarity=0.236  Sum_probs=89.0

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCce-EEEEEE--EEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTT-RHRILG--ICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt-~~~~~~--~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      .+++|+|.+|+|||+|+.+|....|.  ..|..|+ .+....  .+++..+.++||||+|  ++       .+...+..+
T Consensus         9 fkllIigDsgVGKssLl~rF~ddtFs--~sYitTiGvDfkirTv~i~G~~VkLqIwDtAG--qE-------rFrtitsty   77 (198)
T KOG0079|consen    9 FKLLIIGDSGVGKSSLLLRFADDTFS--GSYITTIGVDFKIRTVDINGDRVKLQIWDTAG--QE-------RFRTITSTY   77 (198)
T ss_pred             HHHHeecCCcccHHHHHHHHhhcccc--cceEEEeeeeEEEEEeecCCcEEEEEEeeccc--HH-------HHHHHHHHH
Confidence            36788999999999999999988764  3443332 232222  3346667899999999  43       344556677


Q ss_pred             ccCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhH
Q 025346          193 GINADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEI  244 (254)
Q Consensus       193 ~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~  244 (254)
                      +++.++++.|+|.++  ++.....|++++... ....|-++|+||+|....+.+
T Consensus        78 yrgthgv~vVYDVTn~ESF~Nv~rWLeei~~n-cdsv~~vLVGNK~d~~~RrvV  130 (198)
T KOG0079|consen   78 YRGTHGVIVVYDVTNGESFNNVKRWLEEIRNN-CDSVPKVLVGNKNDDPERRVV  130 (198)
T ss_pred             ccCCceEEEEEECcchhhhHhHHHHHHHHHhc-CccccceecccCCCCccceee
Confidence            999999999999987  677889999887654 457899999999999876544

>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts)

Probab=99.60  E-value=2.5e-14  Score=120.48  Aligned_cols=133  Identities=17%  Similarity=0.191  Sum_probs=90.4

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhh-hhHHHHHHH
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHM-LDSMMMKNV  189 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~-~~~~~~~~~  189 (254)
                      ......+|+++|.+|+|||||+|.+++.....++...++|...........+..+.+|||||+.+..... .........
T Consensus        27 ~~~~~~~IllvG~tGvGKSSliNaLlg~~~~~v~~~~~~T~~~~~~~~~~~g~~i~vIDTPGl~~~~~~~~~~~~~~~~I  106 (249)
T cd01853          27 ELDFSLTILVLGKTGVGKSSTINSIFGERKAATSAFQSETLRVREVSGTVDGFKLNIIDTPGLLESVMDQRVNRKILSSI  106 (249)
T ss_pred             hccCCeEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCceEEEEEEEEEECCeEEEEEECCCcCcchhhHHHHHHHHHHH
Confidence            3455678999999999999999999998876677777777776666666778899999999998664321 222222334


Q ss_pred             HHHcc--CccEEEEEEeCCC-CchhH-HHHHHHhhcccCC--CCCEEEEEecCCCCChHh
Q 025346          190 RSAGI--NADCIVVLVDACK-APERI-DEILEEGVGDHKD--KLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       190 ~~~~~--~~d~iv~vid~~~-~~~~~-~~~~~~~~~~~~~--~~piivV~nK~Dl~~~~~  243 (254)
                      ..++.  ..++++||..+.. ..... ...+..+...++.  ..++++|.||+|...++.
T Consensus       107 ~~~l~~~~idvIL~V~rlD~~r~~~~d~~llk~I~e~fG~~i~~~~ivV~T~~d~~~p~~  166 (249)
T cd01853         107 KRYLKKKTPDVVLYVDRLDMYRRDYLDLPLLRAITDSFGPSIWRNAIVVLTHAASSPPDG  166 (249)
T ss_pred             HHHHhccCCCEEEEEEcCCCCCCCHHHHHHHHHHHHHhChhhHhCEEEEEeCCccCCCCC
Confidence            44443  6788999876653 22222 2333333332332  257999999999986654

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.

>PF00025 Arf: ADP-ribosylation factor family The prints entry specific to Sar1 proteins The Prosite entry specific to Sar1 proteins; InterPro: IPR006689 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=99.60  E-value=1.1e-14  Score=116.69  Aligned_cols=121  Identities=26%  Similarity=0.295  Sum_probs=86.6

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      .+..+|+++|..|+||||+++++.......    ...|.......+...+..+.+||.+|  +.....       .|..+
T Consensus        12 ~~~~~ililGl~~sGKTtll~~l~~~~~~~----~~pT~g~~~~~i~~~~~~~~~~d~gG--~~~~~~-------~w~~y   78 (175)
T PF00025_consen   12 KKEIKILILGLDGSGKTTLLNRLKNGEISE----TIPTIGFNIEEIKYKGYSLTIWDLGG--QESFRP-------LWKSY   78 (175)
T ss_dssp             TSEEEEEEEESTTSSHHHHHHHHHSSSEEE----EEEESSEEEEEEEETTEEEEEEEESS--SGGGGG-------GGGGG
T ss_pred             CcEEEEEEECCCccchHHHHHHhhhccccc----cCcccccccceeeeCcEEEEEEeccc--cccccc-------cceee
Confidence            556799999999999999999999776542    22222333445566889999999999  433322       34456


Q ss_pred             ccCccEEEEEEeCCCC--chhHHHHHHHhhccc-CCCCCEEEEEecCCCCChHhHHH
Q 025346          193 GINADCIVVLVDACKA--PERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPGEIAK  246 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~~~~~  246 (254)
                      +..++++|||+|+++.  ..+....+..++... ..+.|+++++||+|+.+.-...+
T Consensus        79 ~~~~~~iIfVvDssd~~~l~e~~~~L~~ll~~~~~~~~piLIl~NK~D~~~~~~~~~  135 (175)
T PF00025_consen   79 FQNADGIIFVVDSSDPERLQEAKEELKELLNDPELKDIPILILANKQDLPDAMSEEE  135 (175)
T ss_dssp             HTTESEEEEEEETTGGGGHHHHHHHHHHHHTSGGGTTSEEEEEEESTTSTTSSTHHH
T ss_pred             ccccceeEEEEecccceeecccccchhhhcchhhcccceEEEEeccccccCcchhhH
Confidence            8899999999999973  345555566655532 35799999999999976544333

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 ....

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=99.60  E-value=1.3e-14  Score=119.45  Aligned_cols=114  Identities=25%  Similarity=0.258  Sum_probs=78.6

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccc------------------------------cCCCCceEEEEEEEEecCCeeEE
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIV------------------------------TNKPQTTRHRILGICSGPEYQMI  166 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~------------------------------~~~~~tt~~~~~~~~~~~~~~~~  166 (254)
                      +++++|.+++|||||+++++...-...                              ....++|.+.....+...+.++.
T Consensus         1 ~i~iiG~~~~GKStL~~~Ll~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~~~~~~~   80 (208)
T cd04166           1 RFLTCGSVDDGKSTLIGRLLYDSKSIFEDQLAALESKSCGTGGEPLDLALLVDGLQAEREQGITIDVAYRYFSTPKRKFI   80 (208)
T ss_pred             CEEEEECCCCCHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCCCCcceeeeccCChhhhcCCcCeecceeEEecCCceEE
Confidence            489999999999999999976432211                              11256677777777778888999


Q ss_pred             EEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          167 LYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       167 liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      +|||||+.+         +...+...+..+|++++|+|++.+..........+.... ...++++|+||+|+..
T Consensus        81 liDTpG~~~---------~~~~~~~~~~~ad~~llVvD~~~~~~~~~~~~~~~~~~~-~~~~iIvviNK~D~~~  144 (208)
T cd04166          81 IADTPGHEQ---------YTRNMVTGASTADLAILLVDARKGVLEQTRRHSYILSLL-GIRHVVVAVNKMDLVD  144 (208)
T ss_pred             EEECCcHHH---------HHHHHHHhhhhCCEEEEEEECCCCccHhHHHHHHHHHHc-CCCcEEEEEEchhccc
Confidence            999999522         112233457899999999999886544333222222222 1245788999999975

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.

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

Probab=99.60  E-value=2.4e-14  Score=119.72  Aligned_cols=90  Identities=32%  Similarity=0.358  Sum_probs=70.2

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINA  196 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~  196 (254)
                      +++++|.+|+|||||++++.+.... +..++++|.....+.+...+..+++|||||+........  .........++.+
T Consensus         2 ~v~lvG~~~~GKStLl~~Ltg~~~~-v~~~~~tT~~~~~g~~~~~~~~i~l~DtpG~~~~~~~~~--~~~~~~l~~~~~a   78 (233)
T cd01896           2 RVALVGFPSVGKSTLLSKLTNTKSE-VAAYEFTTLTCVPGVLEYKGAKIQLLDLPGIIEGAADGK--GRGRQVIAVARTA   78 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCcc-ccCCCCccccceEEEEEECCeEEEEEECCCcccccccch--hHHHHHHHhhccC
Confidence            6899999999999999999987644 678889998888888778889999999999754321111  1223345668999


Q ss_pred             cEEEEEEeCCCCc
Q 025346          197 DCIVVLVDACKAP  209 (254)
Q Consensus       197 d~iv~vid~~~~~  209 (254)
                      |++++|+|+++..
T Consensus        79 d~il~V~D~t~~~   91 (233)
T cd01896          79 DLILMVLDATKPE   91 (233)
T ss_pred             CEEEEEecCCcch
Confidence            9999999997643

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.

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

Probab=99.60  E-value=1.1e-14  Score=110.40  Aligned_cols=119  Identities=22%  Similarity=0.258  Sum_probs=92.3

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceE---EEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTR---HRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~---~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      .+++++|+.|+|||.|+.+|..+++..  +..+|..   ......+....+++++|||+|  +++       ++.-...|
T Consensus        10 fKfl~iG~aGtGKSCLLh~Fie~kfkD--dssHTiGveFgSrIinVGgK~vKLQIWDTAG--QEr-------FRSVtRsY   78 (214)
T KOG0086|consen   10 FKFLVIGSAGTGKSCLLHQFIENKFKD--DSSHTIGVEFGSRIVNVGGKTVKLQIWDTAG--QER-------FRSVTRSY   78 (214)
T ss_pred             heeEEeccCCCChhHHHHHHHHhhhcc--cccceeeeeecceeeeecCcEEEEEEeeccc--HHH-------HHHHHHHH
Confidence            579999999999999999999988752  2222221   111122334567899999999  433       34456678


Q ss_pred             ccCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHH
Q 025346          193 GINADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIA  245 (254)
Q Consensus       193 ~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~  245 (254)
                      +++|.+.++|+|+++  ++..+..|+.+......+++-+++++||.||..++++.
T Consensus        79 YRGAAGAlLVYD~TsrdsfnaLtnWL~DaR~lAs~nIvviL~GnKkDL~~~R~Vt  133 (214)
T KOG0086|consen   79 YRGAAGALLVYDITSRDSFNALTNWLTDARTLASPNIVVILCGNKKDLDPEREVT  133 (214)
T ss_pred             hccccceEEEEeccchhhHHHHHHHHHHHHhhCCCcEEEEEeCChhhcChhhhhh
Confidence            999999999999976  67888899998887778899999999999999988875

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=99.59  E-value=2.4e-14  Score=137.47  Aligned_cols=124  Identities=27%  Similarity=0.331  Sum_probs=90.3

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccch----hhhhHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKI----HMLDSMMMKNVR  190 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~----~~~~~~~~~~~~  190 (254)
                      ..+++++|.+|+|||||+|++.+.+. .+++.+++|.+...+.+...+..+.++||||..+...    ...++..... .
T Consensus         3 ~~~IaLvG~pNvGKSTLfN~Ltg~~~-~vgn~pGvTve~k~g~~~~~~~~i~lvDtPG~ysl~~~~~~~s~~E~i~~~-~   80 (772)
T PRK09554          3 KLTIGLIGNPNSGKTTLFNQLTGARQ-RVGNWAGVTVERKEGQFSTTDHQVTLVDLPGTYSLTTISSQTSLDEQIACH-Y   80 (772)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCCCC-ccCCCCCceEeeEEEEEEcCceEEEEEECCCccccccccccccHHHHHHHH-H
Confidence            45799999999999999999998876 4889999999988888888899999999999754321    1122221111 1


Q ss_pred             HHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhH
Q 025346          191 SAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEI  244 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~  244 (254)
                      -....+|++++|+|+++..... .+..++.   ..++|+++|+||+|+.+.+.+
T Consensus        81 l~~~~aD~vI~VvDat~ler~l-~l~~ql~---e~giPvIvVlNK~Dl~~~~~i  130 (772)
T PRK09554         81 ILSGDADLLINVVDASNLERNL-YLTLQLL---ELGIPCIVALNMLDIAEKQNI  130 (772)
T ss_pred             HhccCCCEEEEEecCCcchhhH-HHHHHHH---HcCCCEEEEEEchhhhhccCc
Confidence            1135899999999998854332 2333322   246899999999999765443

>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=99.58  E-value=2.4e-14  Score=115.87  Aligned_cols=122  Identities=25%  Similarity=0.322  Sum_probs=82.4

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCcccc-----------------ccCCCCceEEEEEEEEe--cCCeeEEEEecCCCcc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSI-----------------VTNKPQTTRHRILGICS--GPEYQMILYDTPGIIE  175 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~-----------------~~~~~~tt~~~~~~~~~--~~~~~~~liDtpG~~~  175 (254)
                      ..+|+++|+.++|||||+.+++......                 .....+.|.......+.  ..+..+.++||||..+
T Consensus         3 ~~~I~i~G~~~sGKTTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ti~~~~~~~~~~~~~~~i~~iDtPG~~~   82 (188)
T PF00009_consen    3 IRNIAIIGHVDSGKTTLLGALLGKAGAIDKRGIEETKNAFLDKHPEERERGITIDLSFISFEKNENNRKITLIDTPGHED   82 (188)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHHHTSSSSHHHHHHHHCHHHSSHHHHHCTSSSSSEEEEEEBTESSEEEEEEEESSSHH
T ss_pred             EEEEEEECCCCCCcEeechhhhhhccccccccccccccccccccchhhhcccccccccccccccccccceeecccccccc
Confidence            4589999999999999999998543210                 00112233333333444  7788999999999422


Q ss_pred             cchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHHHH
Q 025346          176 KKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKL  248 (254)
Q Consensus       176 ~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~~~  248 (254)
                               +.......+..+|++++|+|+.++.............  ..++|+++|+||+|+. ..+..+..
T Consensus        83 ---------f~~~~~~~~~~~D~ailvVda~~g~~~~~~~~l~~~~--~~~~p~ivvlNK~D~~-~~~~~~~~  143 (188)
T PF00009_consen   83 ---------FIKEMIRGLRQADIAILVVDANDGIQPQTEEHLKILR--ELGIPIIVVLNKMDLI-EKELEEII  143 (188)
T ss_dssp             ---------HHHHHHHHHTTSSEEEEEEETTTBSTHHHHHHHHHHH--HTT-SEEEEEETCTSS-HHHHHHHH
T ss_pred             ---------eeecccceecccccceeeeeccccccccccccccccc--ccccceEEeeeeccch-hhhHHHHH
Confidence                     3344555688999999999999877665554444443  3478999999999999 43333333

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=99.58  E-value=5.8e-14  Score=114.25  Aligned_cols=117  Identities=20%  Similarity=0.190  Sum_probs=81.9

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccc---------------cccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhh
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLS---------------IVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHM  180 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~---------------~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~  180 (254)
                      .+++++|..++|||||+++++.....               ......++|.+.....+...+..+.++||||+.      
T Consensus         3 ~ni~iiGh~~~GKTTL~~~Ll~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~i~~iDtPG~~------   76 (195)
T cd01884           3 VNVGTIGHVDHGKTTLTAAITKVLAKKGGAKFKKYDEIDKAPEEKARGITINTAHVEYETANRHYAHVDCPGHA------   76 (195)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHhcccccccccccccCChhhhhcCccEEeeeeEecCCCeEEEEEECcCHH------
Confidence            47999999999999999999854100               011244566666666666778899999999952      


Q ss_pred             hhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCC-EEEEEecCCCCChHh
Q 025346          181 LDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLP-ILLVLNKKDLIKPGE  243 (254)
Q Consensus       181 ~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~p-iivV~nK~Dl~~~~~  243 (254)
                         .+.......+..+|++++|+|+..+.......+...+..  .++| +++|+||+|+....+
T Consensus        77 ---~~~~~~~~~~~~~D~~ilVvda~~g~~~~~~~~~~~~~~--~~~~~iIvviNK~D~~~~~~  135 (195)
T cd01884          77 ---DYIKNMITGAAQMDGAILVVSATDGPMPQTREHLLLARQ--VGVPYIVVFLNKADMVDDEE  135 (195)
T ss_pred             ---HHHHHHHHHhhhCCEEEEEEECCCCCcHHHHHHHHHHHH--cCCCcEEEEEeCCCCCCcHH
Confidence               233444556789999999999988765544433333332  3466 789999999975443

This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors. The eukaryotic counterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this family. EF-Tu is one of the most abundant proteins in bacteria, as well as, one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation.

>cd04168 TetM_like Tet(M)-like subfamily

Probab=99.57  E-value=4.2e-14  Score=118.51  Aligned_cols=114  Identities=20%  Similarity=0.255  Sum_probs=78.5

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCcccc-----cc------------CCCCceEEEEEEEEecCCeeEEEEecCCCcccchh
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSI-----VT------------NKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIH  179 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~-----~~------------~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~  179 (254)
                      +++++|..|+|||||+++++...-..     +.            ...+.|.......+.+.+.++.+|||||+.+..  
T Consensus         1 ni~i~G~~~~GKTtL~~~ll~~~g~i~~~g~v~~~~~~~D~~~~e~~rg~ti~~~~~~~~~~~~~i~liDTPG~~~f~--   78 (237)
T cd04168           1 NIGILAHVDAGKTTLTESLLYTSGAIRKLGSVDKGTTRTDTMELERQRGITIFSAVASFQWEDTKVNLIDTPGHMDFI--   78 (237)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCccccccccCCcccCCCchhHhhCCCceeeeeEEEEECCEEEEEEeCCCccchH--
Confidence            37899999999999999998642110     11            111223344455667788999999999964321  


Q ss_pred             hhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          180 MLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       180 ~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                             ..+..+++.+|++++|+|++++.......+.....  ..++|+++|+||+|+...
T Consensus        79 -------~~~~~~l~~aD~~IlVvd~~~g~~~~~~~~~~~~~--~~~~P~iivvNK~D~~~a  131 (237)
T cd04168          79 -------AEVERSLSVLDGAILVISAVEGVQAQTRILWRLLR--KLNIPTIIFVNKIDRAGA  131 (237)
T ss_pred             -------HHHHHHHHHhCeEEEEEeCCCCCCHHHHHHHHHHH--HcCCCEEEEEECccccCC
Confidence                   23445678899999999999865544333333333  246899999999999853

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.

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=99.57  E-value=2.6e-14  Score=110.03  Aligned_cols=102  Identities=20%  Similarity=0.260  Sum_probs=66.0

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINA  196 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~  196 (254)
                      +|+++|.+|+|||||+|++.+..+.    +..|..      .+...   .+|||||...    .....+ ......++++
T Consensus         2 kv~liG~~~vGKSsL~~~l~~~~~~----~~~t~~------~~~~~---~~iDt~G~~~----~~~~~~-~~~~~~~~~a   63 (142)
T TIGR02528         2 RIMFIGSVGCGKTTLTQALQGEEIL----YKKTQA------VEYND---GAIDTPGEYV----ENRRLY-SALIVTAADA   63 (142)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCccc----ccccee------EEEcC---eeecCchhhh----hhHHHH-HHHHHHhhcC
Confidence            7999999999999999999987642    222211      11111   6899999421    111122 2233457899


Q ss_pred             cEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          197 DCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       197 d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      |++++|+|+++........+....     ..|+++|+||+|+.+.
T Consensus        64 d~vilv~d~~~~~s~~~~~~~~~~-----~~p~ilv~NK~Dl~~~  103 (142)
T TIGR02528        64 DVIALVQSATDPESRFPPGFASIF-----VKPVIGLVTKIDLAEA  103 (142)
T ss_pred             CEEEEEecCCCCCcCCChhHHHhc-----cCCeEEEEEeeccCCc
Confidence            999999999875433222232221     2499999999999753

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.

>cd01873 RhoBTB RhoBTB subfamily

Probab=99.56  E-value=3.4e-14  Score=115.71  Aligned_cols=113  Identities=21%  Similarity=0.215  Sum_probs=74.2

Q ss_pred             cEEEEEeCCCCChHHHHH-HHhcCcccc---ccCCCCceE--EEEE----------EEEecCCeeEEEEecCCCcccchh
Q 025346          116 GYVAVLGKPNVGKSTLAN-QMIGQKLSI---VTNKPQTTR--HRIL----------GICSGPEYQMILYDTPGIIEKKIH  179 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~-~~~~~~~~~---~~~~~~tt~--~~~~----------~~~~~~~~~~~liDtpG~~~~~~~  179 (254)
                      .+|+++|.+|+|||||+. ++....+..   ...+.+|..  +...          ..+++....+.+|||+|....   
T Consensus         3 ~Kiv~vG~~~vGKTsLi~~~~~~~~~~~~~f~~~~~pTi~~~~~~~~~~~~~~~~~~~~~~~~v~l~iwDTaG~~~~---   79 (195)
T cd01873           3 IKCVVVGDNAVGKTRLICARACNKTLTQYQLLATHVPTVWAIDQYRVCQEVLERSRDVVDGVSVSLRLWDTFGDHDK---   79 (195)
T ss_pred             eEEEEECCCCcCHHHHHHHHHhCCCcccccCccccCCceecccceeEEeeeccccceeeCCEEEEEEEEeCCCChhh---
Confidence            589999999999999996 555443310   122333331  1111          124455678999999994321   


Q ss_pred             hhhHHHHHHHHHHccCccEEEEEEeCCC--CchhHHH-HHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          180 MLDSMMMKNVRSAGINADCIVVLVDACK--APERIDE-ILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       180 ~~~~~~~~~~~~~~~~~d~iv~vid~~~--~~~~~~~-~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                       +       ...+++.+|++++|+|+++  +++.+.. |+..+.. ...+.|+++|+||+||.+
T Consensus        80 -~-------~~~~~~~ad~iilv~d~t~~~Sf~~~~~~w~~~i~~-~~~~~piilvgNK~DL~~  134 (195)
T cd01873          80 -D-------RRFAYGRSDVVLLCFSIASPNSLRNVKTMWYPEIRH-FCPRVPVILVGCKLDLRY  134 (195)
T ss_pred             -h-------hcccCCCCCEEEEEEECCChhHHHHHHHHHHHHHHH-hCCCCCEEEEEEchhccc
Confidence             1       1235789999999999987  3455543 5554433 235789999999999964

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.

>cd01850 CDC_Septin CDC/Septin

Probab=99.56  E-value=2.4e-13  Score=116.42  Aligned_cols=131  Identities=16%  Similarity=0.216  Sum_probs=80.8

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccC--------CCCce-EEEEEEEEecCC--eeEEEEecCCCcccch-----h
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTN--------KPQTT-RHRILGICSGPE--YQMILYDTPGIIEKKI-----H  179 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~--------~~~tt-~~~~~~~~~~~~--~~~~liDtpG~~~~~~-----~  179 (254)
                      .+|+++|.+|+|||||+|++++..+.....        ...++ ...........+  .++.+|||||+++...     .
T Consensus         5 f~I~vvG~sg~GKSTliN~L~~~~~~~~~~~~~~~~~~~~~T~~i~~~~~~i~~~g~~~~l~iiDTpGfgd~~~~~~~~~   84 (276)
T cd01850           5 FNIMVVGESGLGKSTFINTLFNTKLIPSDYPPDPAEEHIDKTVEIKSSKAEIEENGVKLKLTVIDTPGFGDNINNSDCWK   84 (276)
T ss_pred             EEEEEEcCCCCCHHHHHHHHHcCCCccccCCCCccccccCCceEEEEEEEEEEECCEEEEEEEEecCCccccccchhhHH
Confidence            589999999999999999999987653322        22232 222223333334  5799999999876432     1


Q ss_pred             hhhHHHHHHHHH------------Hc--cCccEEEEEEeCCC-CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhH
Q 025346          180 MLDSMMMKNVRS------------AG--INADCIVVLVDACK-APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEI  244 (254)
Q Consensus       180 ~~~~~~~~~~~~------------~~--~~~d~iv~vid~~~-~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~  244 (254)
                      .+..+..+++..            .+  ..+|+++|+++.+. +....+..+...+.   .++|+++|+||+|++.++++
T Consensus        85 ~i~~yi~~q~~~~l~~e~~~~r~~~~~d~rvh~~ly~i~~~~~~l~~~D~~~lk~l~---~~v~vi~VinK~D~l~~~e~  161 (276)
T cd01850          85 PIVDYIDDQFDQYLREESRIKRNPRIPDTRVHACLYFIEPTGHGLKPLDIEFMKRLS---KRVNIIPVIAKADTLTPEEL  161 (276)
T ss_pred             HHHHHHHHHHHHHHHHHhhhcccccCCCCceEEEEEEEeCCCCCCCHHHHHHHHHHh---ccCCEEEEEECCCcCCHHHH
Confidence            111111111111            11  15789999999875 45454333333232   36899999999999987766


Q ss_pred             HHHHH
Q 025346          245 AKKLE  249 (254)
Q Consensus       245 ~~~~~  249 (254)
                      .....
T Consensus       162 ~~~k~  166 (276)
T cd01850         162 KEFKQ  166 (276)
T ss_pred             HHHHH
Confidence            54433

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.

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

Probab=99.56  E-value=1.6e-15  Score=115.48  Aligned_cols=122  Identities=16%  Similarity=0.243  Sum_probs=93.9

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccC----CCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHH
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTN----KPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNV  189 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~----~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~  189 (254)
                      -..+++++|..-+|||||+-+++..+|...+-    ..+.++..   .+......+.||||+|  +++++.+.+.+    
T Consensus        12 ~~FK~VLLGEGCVGKtSLVLRy~EnkFn~kHlsTlQASF~~kk~---n~ed~ra~L~IWDTAG--QErfHALGPIY----   82 (218)
T KOG0088|consen   12 FKFKIVLLGEGCVGKTSLVLRYVENKFNCKHLSTLQASFQNKKV---NVEDCRADLHIWDTAG--QERFHALGPIY----   82 (218)
T ss_pred             eeeEEEEEcCCccchhHHHHHHHHhhcchhhHHHHHHHHhhccc---ccccceeeeeeeeccc--hHhhhccCceE----
Confidence            35689999999999999999999888742110    01111111   1223455799999999  67666666554    


Q ss_pred             HHHccCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHHH
Q 025346          190 RSAGINADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKK  247 (254)
Q Consensus       190 ~~~~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~~  247 (254)
                         +++.+++++|+|+++  +++.++.|..++....+..+-++||+||+||..++.+...
T Consensus        83 ---YRgSnGalLVyDITDrdSFqKVKnWV~Elr~mlGnei~l~IVGNKiDLEeeR~Vt~q  139 (218)
T KOG0088|consen   83 ---YRGSNGALLVYDITDRDSFQKVKNWVLELRTMLGNEIELLIVGNKIDLEEERQVTRQ  139 (218)
T ss_pred             ---EeCCCceEEEEeccchHHHHHHHHHHHHHHHHhCCeeEEEEecCcccHHHhhhhhHH
Confidence               899999999999987  7888999999999888888999999999999988877543

>COG3596 Predicted GTPase [General function prediction only]

Probab=99.55  E-value=1.4e-14  Score=120.48  Aligned_cols=127  Identities=21%  Similarity=0.214  Sum_probs=92.4

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      ...+.+++++|.+|+||||+||+++......++..+.++..........++..+.+|||||+++..  ..+..+...+..
T Consensus        36 ~~~pvnvLi~G~TG~GKSSliNALF~~~~~~v~~vg~~t~~~~~~~~~~~~~~l~lwDtPG~gdg~--~~D~~~r~~~~d  113 (296)
T COG3596          36 EKEPVNVLLMGATGAGKSSLINALFQGEVKEVSKVGVGTDITTRLRLSYDGENLVLWDTPGLGDGK--DKDAEHRQLYRD  113 (296)
T ss_pred             ccCceeEEEecCCCCcHHHHHHHHHhccCceeeecccCCCchhhHHhhccccceEEecCCCcccch--hhhHHHHHHHHH
Confidence            345668899999999999999999977766666666555544444445666889999999998753  223445567788


Q ss_pred             HccCccEEEEEEeCCCCchhHH-HHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          192 AGINADCIVVLVDACKAPERID-EILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~~~~~~~-~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      ++...|++++++++.+..-..+ ..+.+++. ..-+.|+++|+|.+|...+
T Consensus       114 ~l~~~DLvL~l~~~~draL~~d~~f~~dVi~-~~~~~~~i~~VtQ~D~a~p  163 (296)
T COG3596         114 YLPKLDLVLWLIKADDRALGTDEDFLRDVII-LGLDKRVLFVVTQADRAEP  163 (296)
T ss_pred             HhhhccEEEEeccCCCccccCCHHHHHHHHH-hccCceeEEEEehhhhhcc
Confidence            8999999999999988543333 23333332 2344899999999999766

>cd04129 Rho2 Rho2 subfamily

Probab=99.55  E-value=5.1e-14  Score=113.76  Aligned_cols=113  Identities=21%  Similarity=0.219  Sum_probs=74.1

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEE--EecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGI--CSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~--~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .+++++|++|+|||||++++....+..  .+.++........  ..+....+.+|||||..  .+.....       ..+
T Consensus         2 ~Ki~ivG~~g~GKStLl~~l~~~~~~~--~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~g~~--~~~~~~~-------~~~   70 (187)
T cd04129           2 RKLVIVGDGACGKTSLLSVFTLGEFPE--EYHPTVFENYVTDCRVDGKPVQLALWDTAGQE--EYERLRP-------LSY   70 (187)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCc--ccCCcccceEEEEEEECCEEEEEEEEECCCCh--hccccch-------hhc
Confidence            479999999999999999998766532  2222322222222  23334568899999943  2222211       236


Q ss_pred             cCccEEEEEEeCCCC--chhHHH-HHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          194 INADCIVVLVDACKA--PERIDE-ILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       194 ~~~d~iv~vid~~~~--~~~~~~-~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      ..++++++++|.++.  +..+.. |+..+.+ ...+.|+++|+||+|+..
T Consensus        71 ~~a~~~llv~~i~~~~s~~~~~~~~~~~i~~-~~~~~piilvgnK~Dl~~  119 (187)
T cd04129          71 SKAHVILIGFAVDTPDSLENVRTKWIEEVRR-YCPNVPVILVGLKKDLRQ  119 (187)
T ss_pred             CCCCEEEEEEECCCHHHHHHHHHHHHHHHHH-hCCCCCEEEEeeChhhhh
Confidence            789999999999763  444443 4444433 345799999999999854

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).

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=99.55  E-value=1.5e-13  Score=113.52  Aligned_cols=121  Identities=18%  Similarity=0.217  Sum_probs=79.7

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCcccc-ccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHH
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQKLSI-VTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNV  189 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~-~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~  189 (254)
                      ......+++++|++|+|||||+++++...+.. ..+..+..........+.....+.+|||+|.  ..+..+       .
T Consensus         5 ~~~~~~kv~liG~~g~GKTtLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~i~~~Dt~g~--~~~~~~-------~   75 (215)
T PTZ00132          5 DEVPEFKLILVGDGGVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYTNCGPICFNVWDTAGQ--EKFGGL-------R   75 (215)
T ss_pred             cCCCCceEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCc--hhhhhh-------h
Confidence            34455799999999999999999887765531 1111111121222223455678999999993  322222       2


Q ss_pred             HHHccCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          190 RSAGINADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       190 ~~~~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      ..++..++++++|+|.++  ++..+..|+..+... ..+.|+++|+||+|+...
T Consensus        76 ~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~i~lv~nK~Dl~~~  128 (215)
T PTZ00132         76 DGYYIKGQCAIIMFDVTSRITYKNVPNWHRDIVRV-CENIPIVLVGNKVDVKDR  128 (215)
T ss_pred             HHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHh-CCCCCEEEEEECccCccc
Confidence            345678999999999987  345555666555433 357899999999998653

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=99.55  E-value=2.6e-13  Score=106.39  Aligned_cols=123  Identities=28%  Similarity=0.357  Sum_probs=76.7

Q ss_pred             EEEEeCCCCChHHHHHHHhcCc-cccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchh-hhhHHHH---HHHHHH
Q 025346          118 VAVLGKPNVGKSTLANQMIGQK-LSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIH-MLDSMMM---KNVRSA  192 (254)
Q Consensus       118 ~~~~G~~~~gKssl~~~~~~~~-~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~-~~~~~~~---~~~~~~  192 (254)
                      |+++|.+|+|||||++.+.+.. ....+..++.|........  . ..+.+|||||+...... .....+.   ..+...
T Consensus         2 i~l~G~~g~GKTtL~~~l~~~~~~~~~~~~~~~t~~~~~~~~--~-~~~~~~D~~g~~~~~~~~~~~~~~~~~~~~~~~~   78 (170)
T cd01876           2 IAFAGRSNVGKSSLINALTNRKKLARTSKTPGKTQLINFFNV--N-DKFRLVDLPGYGYAKVSKEVKEKWGKLIEEYLEN   78 (170)
T ss_pred             EEEEcCCCCCHHHHHHHHhcCCceeeecCCCCcceeEEEEEc--c-CeEEEecCCCccccccCHHHHHHHHHHHHHHHHh
Confidence            7899999999999999999543 3334455555554333222  2 28999999997654211 1111111   222233


Q ss_pred             ccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHH
Q 025346          193 GINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIA  245 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~  245 (254)
                      ....+++++++|...........+...+..  .+.|+++|+||+|+..+.+..
T Consensus        79 ~~~~~~~~~v~d~~~~~~~~~~~~~~~l~~--~~~~vi~v~nK~D~~~~~~~~  129 (170)
T cd01876          79 RENLKGVVLLIDSRHGPTEIDLEMLDWLEE--LGIPFLVVLTKADKLKKSELA  129 (170)
T ss_pred             ChhhhEEEEEEEcCcCCCHhHHHHHHHHHH--cCCCEEEEEEchhcCChHHHH
Confidence            345788999999987544433333333332  358999999999998765543

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.

>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase)

Probab=99.55  E-value=1.6e-13  Score=117.67  Aligned_cols=130  Identities=18%  Similarity=0.248  Sum_probs=85.1

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHH
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVR  190 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~  190 (254)
                      .+....+|+++|.+|+||||++|++++.+...++...+++...........+..+.+|||||+.+...  .+....+...
T Consensus        34 ~~~~~~rIllvGktGVGKSSliNsIlG~~v~~vs~f~s~t~~~~~~~~~~~G~~l~VIDTPGL~d~~~--~~e~~~~~ik  111 (313)
T TIGR00991        34 EDVSSLTILVMGKGGVGKSSTVNSIIGERIATVSAFQSEGLRPMMVSRTRAGFTLNIIDTPGLIEGGY--INDQAVNIIK  111 (313)
T ss_pred             ccccceEEEEECCCCCCHHHHHHHHhCCCcccccCCCCcceeEEEEEEEECCeEEEEEECCCCCchHH--HHHHHHHHHH
Confidence            44567789999999999999999999988765666665554444444455788999999999876532  2222222232


Q ss_pred             HHc--cCccEEEEEEeCC--CCchhHHHHHHHhhcccC--CCCCEEEEEecCCCCChH
Q 025346          191 SAG--INADCIVVLVDAC--KAPERIDEILEEGVGDHK--DKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       191 ~~~--~~~d~iv~vid~~--~~~~~~~~~~~~~~~~~~--~~~piivV~nK~Dl~~~~  242 (254)
                      .++  ...|+++||....  +........+..+...++  ...++++|+|++|..+++
T Consensus       112 ~~l~~~g~DvVLyV~rLD~~R~~~~DkqlLk~Iqe~FG~~iw~~~IVVfTh~d~~~pd  169 (313)
T TIGR00991       112 RFLLGKTIDVLLYVDRLDAYRVDTLDGQVIRAITDSFGKDIWRKSLVVLTHAQFSPPD  169 (313)
T ss_pred             HHhhcCCCCEEEEEeccCcccCCHHHHHHHHHHHHHhhhhhhccEEEEEECCccCCCC
Confidence            222  3799999996543  322222333333333332  235799999999988553

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

Probab=99.54  E-value=4.1e-14  Score=115.03  Aligned_cols=122  Identities=23%  Similarity=0.286  Sum_probs=91.7

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEE--EEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRIL--GICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~--~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      ..+++++|.+|+|||+|+.++++..+.  ..+.+|..+.+.  ..+++....+.|+||+|  +..+..+..       .+
T Consensus         3 ~~kvvvlG~~gVGKSal~~qf~~~~f~--~~y~ptied~y~k~~~v~~~~~~l~ilDt~g--~~~~~~~~~-------~~   71 (196)
T KOG0395|consen    3 EYKVVVLGAGGVGKSALTIQFLTGRFV--EDYDPTIEDSYRKELTVDGEVCMLEILDTAG--QEEFSAMRD-------LY   71 (196)
T ss_pred             ceEEEEECCCCCCcchheeeecccccc--cccCCCccccceEEEEECCEEEEEEEEcCCC--cccChHHHH-------Hh
Confidence            468999999999999999999999984  556666554444  34456667899999999  333333332       34


Q ss_pred             ccCccEEEEEEeCCC--CchhHHHHHHHhhcccC-CCCCEEEEEecCCCCChHhHHHH
Q 025346          193 GINADCIVVLVDACK--APERIDEILEEGVGDHK-DKLPILLVLNKKDLIKPGEIAKK  247 (254)
Q Consensus       193 ~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~-~~~piivV~nK~Dl~~~~~~~~~  247 (254)
                      +..+++.++|+++++  +++.+..++..+.+... .++|+++|+||+|+...+++...
T Consensus        72 ~~~~~gF~lVysitd~~SF~~~~~l~~~I~r~~~~~~~PivlVGNK~Dl~~~R~V~~e  129 (196)
T KOG0395|consen   72 IRNGDGFLLVYSITDRSSFEEAKQLREQILRVKGRDDVPIILVGNKCDLERERQVSEE  129 (196)
T ss_pred             hccCcEEEEEEECCCHHHHHHHHHHHHHHHHhhCcCCCCEEEEEEcccchhccccCHH
Confidence            778899999999987  67777787777754433 45799999999999987666543

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

Probab=99.53  E-value=2.4e-13  Score=115.97  Aligned_cols=113  Identities=19%  Similarity=0.245  Sum_probs=80.6

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCc-----ccccc------------CCCCceEEEEEEEEecCCeeEEEEecCCCcccchh
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQK-----LSIVT------------NKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIH  179 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~-----~~~~~------------~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~  179 (254)
                      +|+++|.+++|||||+++++...     ...+.            ...+.|.......+.+.+.++.++||||+.+    
T Consensus         1 nv~ivGh~~~GKTtL~~~Ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~i~liDTPG~~d----   76 (270)
T cd01886           1 NIGIIAHIDAGKTTTTERILYYTGRIHKIGEVHGGGATMDFMEQERERGITIQSAATTCFWKDHRINIIDTPGHVD----   76 (270)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCCcccccccCCccccCCCccccCCCcCeeccEEEEEECCEEEEEEECCCcHH----
Confidence            47899999999999999997421     11111            2335566666667778899999999999543    


Q ss_pred             hhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          180 MLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       180 ~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                           +...+...++.+|++++|+|+..+.......+.....  ..++|+++++||+|+..
T Consensus        77 -----f~~~~~~~l~~aD~ailVVDa~~g~~~~t~~~~~~~~--~~~~p~ivviNK~D~~~  130 (270)
T cd01886          77 -----FTIEVERSLRVLDGAVAVFDAVAGVEPQTETVWRQAD--RYNVPRIAFVNKMDRTG  130 (270)
T ss_pred             -----HHHHHHHHHHHcCEEEEEEECCCCCCHHHHHHHHHHH--HcCCCEEEEEECCCCCC
Confidence                 2234556688999999999998866544433333333  34689999999999975

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

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=99.53  E-value=2.2e-13  Score=127.64  Aligned_cols=118  Identities=22%  Similarity=0.268  Sum_probs=84.0

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCcccc--ccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSI--VTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~--~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      .|+++|..++|||||++++.+.....  ....++.|.+.....+...+..+.+|||||.         ..+...+...+.
T Consensus         2 ~I~iiG~~d~GKTTLi~aLtg~~~d~~~eE~~rGiTid~~~~~~~~~~~~v~~iDtPGh---------e~f~~~~~~g~~   72 (581)
T TIGR00475         2 IIATAGHVDHGKTTLLKALTGIAADRLPEEKKRGMTIDLGFAYFPLPDYRLGFIDVPGH---------EKFISNAIAGGG   72 (581)
T ss_pred             EEEEECCCCCCHHHHHHHHhCccCcCChhHhcCCceEEeEEEEEEeCCEEEEEEECCCH---------HHHHHHHHhhhc
Confidence            58999999999999999999743211  2234566766666666666789999999993         223345566688


Q ss_pred             CccEEEEEEeCCCCchhHHHHHHHhhcccCCCCC-EEEEEecCCCCChHhHH
Q 025346          195 NADCIVVLVDACKAPERIDEILEEGVGDHKDKLP-ILLVLNKKDLIKPGEIA  245 (254)
Q Consensus       195 ~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~p-iivV~nK~Dl~~~~~~~  245 (254)
                      ++|++++|+|++++..........++..  .++| +++|+||+|+.+++.+.
T Consensus        73 ~aD~aILVVDa~~G~~~qT~ehl~il~~--lgi~~iIVVlNK~Dlv~~~~~~  122 (581)
T TIGR00475        73 GIDAALLVVDADEGVMTQTGEHLAVLDL--LGIPHTIVVITKADRVNEEEIK  122 (581)
T ss_pred             cCCEEEEEEECCCCCcHHHHHHHHHHHH--cCCCeEEEEEECCCCCCHHHHH
Confidence            9999999999998653333222223332  3577 99999999999876543

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.

>KOG1489 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]

Probab=99.53  E-value=4e-14  Score=119.52  Aligned_cols=122  Identities=26%  Similarity=0.309  Sum_probs=94.7

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCee-EEEEecCCCcccchhhhhHHHHHHHHHHccC
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQ-MILYDTPGIIEKKIHMLDSMMMKNVRSAGIN  195 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~-~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~  195 (254)
                      .+.++|.|++|||||+|++...+.. +..|++||..+..+.+.+++.. +.+-|.||+....  .++..+-..+...+..
T Consensus       198 dvGLVG~PNAGKSTLL~als~AKpk-Va~YaFTTL~P~iG~v~yddf~q~tVADiPGiI~GA--h~nkGlG~~FLrHiER  274 (366)
T KOG1489|consen  198 DVGLVGFPNAGKSTLLNALSRAKPK-VAHYAFTTLRPHIGTVNYDDFSQITVADIPGIIEGA--HMNKGLGYKFLRHIER  274 (366)
T ss_pred             ccceecCCCCcHHHHHHHhhccCCc-ccccceeeeccccceeeccccceeEeccCccccccc--cccCcccHHHHHHHHh
Confidence            5889999999999999999998875 8999999999998888877665 9999999998764  3333344566777899


Q ss_pred             ccEEEEEEeCCCC-----chhHHHHHHHhh--cccCCCCCEEEEEecCCCCCh
Q 025346          196 ADCIVVLVDACKA-----PERIDEILEEGV--GDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       196 ~d~iv~vid~~~~-----~~~~~~~~~~~~--~~~~~~~piivV~nK~Dl~~~  241 (254)
                      ++.++||+|++..     ++.+...+.++-  .....+.|.++|+||+|+.+.
T Consensus       275 ~~~l~fVvD~s~~~~~~p~~~~~lL~~ELe~yek~L~~rp~liVaNKiD~~ea  327 (366)
T KOG1489|consen  275 CKGLLFVVDLSGKQLRNPWQQLQLLIEELELYEKGLADRPALIVANKIDLPEA  327 (366)
T ss_pred             hceEEEEEECCCcccCCHHHHHHHHHHHHHHHhhhhccCceEEEEeccCchhH
Confidence            9999999999874     344443333322  222367899999999999643

>cd04169 RF3 RF3 subfamily

Probab=99.53  E-value=2.9e-13  Score=115.32  Aligned_cols=115  Identities=22%  Similarity=0.225  Sum_probs=77.3

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccc-----cc----------cCC------CCceEEEEEEEEecCCeeEEEEecCCCc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLS-----IV----------TNK------PQTTRHRILGICSGPEYQMILYDTPGII  174 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~-----~~----------~~~------~~tt~~~~~~~~~~~~~~~~liDtpG~~  174 (254)
                      ++|+++|++|+|||||+++++...-.     .+          .++      .+.+.......+.+.+..+.+|||||..
T Consensus         3 Rni~ivGh~~~GKTTL~e~ll~~~g~i~~~g~v~~~~~~~~t~~D~~~~e~~rg~si~~~~~~~~~~~~~i~liDTPG~~   82 (267)
T cd04169           3 RTFAIISHPDAGKTTLTEKLLLFGGAIREAGAVKARKSRKHATSDWMEIEKQRGISVTSSVMQFEYRDCVINLLDTPGHE   82 (267)
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHhcCCcccCceecccccCCCccCCCcHHHHhCCCCeEEEEEEEeeCCEEEEEEECCCch
Confidence            57999999999999999999853211     01          011      1122233444667888999999999953


Q ss_pred             ccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          175 EKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       175 ~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      +..         ......+..+|++++|+|++.+.......+.....  ..++|+++++||+|+...
T Consensus        83 df~---------~~~~~~l~~aD~~IlVvda~~g~~~~~~~i~~~~~--~~~~P~iivvNK~D~~~a  138 (267)
T cd04169          83 DFS---------EDTYRTLTAVDSAVMVIDAAKGVEPQTRKLFEVCR--LRGIPIITFINKLDREGR  138 (267)
T ss_pred             HHH---------HHHHHHHHHCCEEEEEEECCCCccHHHHHHHHHHH--hcCCCEEEEEECCccCCC
Confidence            321         22334567899999999998865443333323332  247899999999998754

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.

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

Probab=99.52  E-value=3.6e-13  Score=111.17  Aligned_cols=120  Identities=27%  Similarity=0.270  Sum_probs=80.9

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEec-CCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSG-PEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~-~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      .+++++|++|+|||||++++.+..+.................... ....+.+|||+|.  ..       +...+..++.
T Consensus         6 ~kivv~G~~g~GKTtl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~gq--~~-------~~~~~~~y~~   76 (219)
T COG1100           6 FKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQ--EE-------YRSLRPEYYR   76 (219)
T ss_pred             EEEEEEcCCCccHHHHHHHHhcCcCcccCCCceeeeeEEEEEEeCCCEEEEEeecCCCH--HH-------HHHHHHHHhc
Confidence            689999999999999999999988753222221222222222222 2567999999993  22       2234556689


Q ss_pred             CccEEEEEEeCCC--Cch-hHHHHHHHhhcccCCCCCEEEEEecCCCCChHhH
Q 025346          195 NADCIVVLVDACK--APE-RIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEI  244 (254)
Q Consensus       195 ~~d~iv~vid~~~--~~~-~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~  244 (254)
                      +++++++++|...  ... ....|...+......+.|+++|+||+|+......
T Consensus        77 ~~~~~l~~~d~~~~~~~~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~~~~  129 (219)
T COG1100          77 GANGILIVYDSTLRESSDELTEEWLEELRELAPDDVPILLVGNKIDLFDEQSS  129 (219)
T ss_pred             CCCEEEEEEecccchhhhHHHHHHHHHHHHhCCCCceEEEEecccccccchhH
Confidence            9999999999986  233 3344444433333347999999999999887543

>KOG0073 consensus GTP-binding ADP-ribosylation factor-like protein ARL2 [Intracellular trafficking, secretion, and vesicular transport; Cytoskeleton]

Probab=99.52  E-value=2.8e-13  Score=103.91  Aligned_cols=114  Identities=19%  Similarity=0.295  Sum_probs=84.1

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      +..+|+++|..|+||||+++++.+.....+    ..|..........++..+.+||..|  +       ..+++.|..|+
T Consensus        15 rE~riLiLGLdNsGKTti~~kl~~~~~~~i----~pt~gf~Iktl~~~~~~L~iwDvGG--q-------~~lr~~W~nYf   81 (185)
T KOG0073|consen   15 REVRILILGLDNSGKTTIVKKLLGEDTDTI----SPTLGFQIKTLEYKGYTLNIWDVGG--Q-------KTLRSYWKNYF   81 (185)
T ss_pred             heeEEEEEecCCCCchhHHHHhcCCCcccc----CCccceeeEEEEecceEEEEEEcCC--c-------chhHHHHHHhh
Confidence            356899999999999999999998764322    2233333445567789999999999  2       33456788999


Q ss_pred             cCccEEEEEEeCCCC--chhHHHHHHHhhcc-cCCCCCEEEEEecCCCCC
Q 025346          194 INADCIVVLVDACKA--PERIDEILEEGVGD-HKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       194 ~~~d~iv~vid~~~~--~~~~~~~~~~~~~~-~~~~~piivV~nK~Dl~~  240 (254)
                      ..+|++|||+|+++.  .++....+...+.. ...+.|+++++||.|+..
T Consensus        82 estdglIwvvDssD~~r~~e~~~~L~~lL~eerlaG~~~Lvlank~dl~~  131 (185)
T KOG0073|consen   82 ESTDGLIWVVDSSDRMRMQECKQELTELLVEERLAGAPLLVLANKQDLPG  131 (185)
T ss_pred             hccCeEEEEEECchHHHHHHHHHHHHHHHhhhhhcCCceEEEEecCcCcc
Confidence            999999999999873  34444445444432 235689999999999974

>COG2262 HflX GTPases [General function prediction only]

Probab=99.52  E-value=2.5e-13  Score=118.72  Aligned_cols=130  Identities=30%  Similarity=0.340  Sum_probs=99.1

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecC-CeeEEEEecCCCcccchhhhhHHHHHHHH
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGP-EYQMILYDTPGIIEKKIHMLDSMMMKNVR  190 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~-~~~~~liDtpG~~~~~~~~~~~~~~~~~~  190 (254)
                      ....+.|+++|.+|+|||||+|.+.+.... +.+..++|.+.....+... +..+.+-||-|+...-++.+-..| ..+.
T Consensus       189 ~~~~p~vaLvGYTNAGKSTL~N~LT~~~~~-~~d~LFATLdpttR~~~l~~g~~vlLtDTVGFI~~LP~~LV~AF-ksTL  266 (411)
T COG2262         189 RSGIPLVALVGYTNAGKSTLFNALTGADVY-VADQLFATLDPTTRRIELGDGRKVLLTDTVGFIRDLPHPLVEAF-KSTL  266 (411)
T ss_pred             ccCCCeEEEEeeccccHHHHHHHHhccCee-ccccccccccCceeEEEeCCCceEEEecCccCcccCChHHHHHH-HHHH
Confidence            345678999999999999999999987754 6777788877776666554 688999999999988777776666 4555


Q ss_pred             HHccCccEEEEEEeCCCCc-hhHHHHHHHhhccc-CCCCCEEEEEecCCCCChHh
Q 025346          191 SAGINADCIVVLVDACKAP-ERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~~~~-~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~~  243 (254)
                      .....+|++++|+|++++. .........++... ...+|+++|.||+|++....
T Consensus       267 EE~~~aDlllhVVDaSdp~~~~~~~~v~~vL~el~~~~~p~i~v~NKiD~~~~~~  321 (411)
T COG2262         267 EEVKEADLLLHVVDASDPEILEKLEAVEDVLAEIGADEIPIILVLNKIDLLEDEE  321 (411)
T ss_pred             HHhhcCCEEEEEeecCChhHHHHHHHHHHHHHHcCCCCCCEEEEEecccccCchh
Confidence            6688999999999999962 22222233334433 35589999999999987665

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=99.52  E-value=8.6e-14  Score=130.55  Aligned_cols=116  Identities=27%  Similarity=0.308  Sum_probs=82.0

Q ss_pred             eCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEE
Q 025346          122 GKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVV  201 (254)
Q Consensus       122 G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~  201 (254)
                      |.+|+|||||+|++.+... .+++.+++|.+...+....++..+.+|||||..+......+......+ .....+|++++
T Consensus         1 G~pNvGKSSL~N~Ltg~~~-~v~n~pG~Tv~~~~~~i~~~~~~i~lvDtPG~~~~~~~s~~e~v~~~~-l~~~~aDvvI~   78 (591)
T TIGR00437         1 GNPNVGKSTLFNALTGANQ-TVGNWPGVTVEKKEGKLGFQGEDIEIVDLPGIYSLTTFSLEEEVARDY-LLNEKPDLVVN   78 (591)
T ss_pred             CCCCCCHHHHHHHHhCCCC-eecCCCCeEEEEEEEEEEECCeEEEEEECCCccccCccchHHHHHHHH-HhhcCCCEEEE
Confidence            8899999999999999876 478899999988877777778889999999965432221121111111 11357999999


Q ss_pred             EEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          202 LVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       202 vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      |+|+++.... .....+..   ..+.|+++|+||+|+.+...
T Consensus        79 VvDat~ler~-l~l~~ql~---~~~~PiIIVlNK~Dl~~~~~  116 (591)
T TIGR00437        79 VVDASNLERN-LYLTLQLL---ELGIPMILALNLVDEAEKKG  116 (591)
T ss_pred             EecCCcchhh-HHHHHHHH---hcCCCEEEEEehhHHHHhCC
Confidence            9999874332 22222222   34789999999999975443

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.

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=99.51  E-value=1.3e-13  Score=125.09  Aligned_cols=118  Identities=20%  Similarity=0.179  Sum_probs=82.7

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCcccc------------------------------ccCCCCceEEEEEEEEecCC
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSI------------------------------VTNKPQTTRHRILGICSGPE  162 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~------------------------------~~~~~~tt~~~~~~~~~~~~  162 (254)
                      .+..+++++|..++|||||+++++...-..                              ....+++|.+.....+...+
T Consensus         4 k~~~~v~iiGh~d~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~Er~rG~T~d~~~~~~~~~~   83 (425)
T PRK12317          4 KPHLNLAVIGHVDHGKSTLVGRLLYETGAIDEHIIEELREEAKEKGKESFKFAWVMDRLKEERERGVTIDLAHKKFETDK   83 (425)
T ss_pred             CCEEEEEEECCCCCChHHHHHHHHHHcCCcCHHHHHHHHHHHHhcCCcccchhhhhccCHhHhhcCccceeeeEEEecCC
Confidence            345689999999999999999998442111                              11256888888888888889


Q ss_pred             eeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          163 YQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       163 ~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      ..+.+|||||+.+..         ......+..+|++++|+|+++  +..........+.... ...|+++|+||+|+..
T Consensus        84 ~~i~liDtpG~~~~~---------~~~~~~~~~aD~~ilVvDa~~~~~~~~~~~~~~~~~~~~-~~~~iivviNK~Dl~~  153 (425)
T PRK12317         84 YYFTIVDCPGHRDFV---------KNMITGASQADAAVLVVAADDAGGVMPQTREHVFLARTL-GINQLIVAINKMDAVN  153 (425)
T ss_pred             eEEEEEECCCcccch---------hhHhhchhcCCEEEEEEEcccCCCCCcchHHHHHHHHHc-CCCeEEEEEEcccccc
Confidence            999999999953211         222233678999999999987  5444333333333222 1246999999999975

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=99.51  E-value=4.2e-13  Score=125.49  Aligned_cols=117  Identities=18%  Similarity=0.188  Sum_probs=81.2

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCC-eeEEEEecCCCcccchhhhhHHHHHHHH
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPE-YQMILYDTPGIIEKKIHMLDSMMMKNVR  190 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~-~~~~liDtpG~~~~~~~~~~~~~~~~~~  190 (254)
                      ..+.++++++|+.++|||||++++.+..+. ....++.|.......+...+ ..+.||||||...  +..       .+.
T Consensus        84 ~~r~p~V~I~Ghvd~GKTSLl~~l~~~~v~-~~e~~GIT~~ig~~~v~~~~~~~i~~iDTPGhe~--F~~-------~r~  153 (587)
T TIGR00487        84 VERPPVVTIMGHVDHGKTSLLDSIRKTKVA-QGEAGGITQHIGAYHVENEDGKMITFLDTPGHEA--FTS-------MRA  153 (587)
T ss_pred             ccCCCEEEEECCCCCCHHHHHHHHHhCCcc-cccCCceeecceEEEEEECCCcEEEEEECCCCcc--hhh-------HHH
Confidence            456789999999999999999999987765 34445666654444444433 3899999999532  222       223


Q ss_pred             HHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          191 SAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      ..+..+|++++|+|+.++.............  ..++|+++++||+|+..
T Consensus       154 rga~~aDiaILVVda~dgv~~qT~e~i~~~~--~~~vPiIVviNKiDl~~  201 (587)
T TIGR00487       154 RGAKVTDIVVLVVAADDGVMPQTIEAISHAK--AANVPIIVAINKIDKPE  201 (587)
T ss_pred             hhhccCCEEEEEEECCCCCCHhHHHHHHHHH--HcCCCEEEEEECccccc
Confidence            4578899999999998754332222112222  34789999999999964

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.

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=99.51  E-value=5.4e-13  Score=110.55  Aligned_cols=112  Identities=26%  Similarity=0.353  Sum_probs=71.9

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCC---------------CCceEE--EEEEEEe--------cCCeeEEEEec
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNK---------------PQTTRH--RILGICS--------GPEYQMILYDT  170 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~---------------~~tt~~--~~~~~~~--------~~~~~~~liDt  170 (254)
                      ++++++|..++|||||+.+++...-......               .+.|..  .....+.        ..+..+.+|||
T Consensus         1 RNvaiiGhvd~GKTTL~d~Ll~~~g~i~~~~~g~~~~~D~~~~E~~RgiTi~~~~~~~~~~~~~~~~~~~~~~~i~iiDT   80 (222)
T cd01885           1 RNICIIAHVDHGKTTLSDSLLASAGIISEKLAGKARYMDSREDEQERGITMKSSAISLYFEYEEEDKADGNEYLINLIDS   80 (222)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHcCCCccccCCceeeccCCHHHHHhccccccceEEEEEecCcccccCCCceEEEEECC
Confidence            3689999999999999999985431111011               111111  1111222        23678999999


Q ss_pred             CCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHH-HHHHhhcccCCCCCEEEEEecCCCC
Q 025346          171 PGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDE-ILEEGVGDHKDKLPILLVLNKKDLI  239 (254)
Q Consensus       171 pG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~-~~~~~~~~~~~~~piivV~nK~Dl~  239 (254)
                      ||..+..         ......+..+|++++|+|+.++...... .+....   ..++|+++|+||+|+.
T Consensus        81 PG~~~f~---------~~~~~~l~~aD~~ilVvD~~~g~~~~t~~~l~~~~---~~~~p~ilviNKiD~~  138 (222)
T cd01885          81 PGHVDFS---------SEVTAALRLCDGALVVVDAVEGVCVQTETVLRQAL---KERVKPVLVINKIDRL  138 (222)
T ss_pred             CCccccH---------HHHHHHHHhcCeeEEEEECCCCCCHHHHHHHHHHH---HcCCCEEEEEECCCcc
Confidence            9964422         3345567899999999999986544332 333222   2357999999999986

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

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=99.51  E-value=3.9e-13  Score=128.72  Aligned_cols=117  Identities=17%  Similarity=0.148  Sum_probs=83.6

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      ..+.+.|+++|..++|||||++++....+. .....+.|.......+.+.+..+.||||||+...  ..       .+..
T Consensus       287 ~~R~pvV~ImGhvd~GKTSLl~~Lr~~~v~-~~e~~GIT~~iga~~v~~~~~~ItfiDTPGhe~F--~~-------m~~r  356 (787)
T PRK05306        287 VPRPPVVTIMGHVDHGKTSLLDAIRKTNVA-AGEAGGITQHIGAYQVETNGGKITFLDTPGHEAF--TA-------MRAR  356 (787)
T ss_pred             ccCCCEEEEECCCCCCHHHHHHHHHhCCcc-ccccCceeeeccEEEEEECCEEEEEEECCCCccc--hh-------HHHh
Confidence            467889999999999999999999877664 3344556655554556666788999999995432  22       2234


Q ss_pred             HccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          192 AGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      .+..+|++++|+|+.++.............  ..++|+++|+||+|+..
T Consensus       357 ga~~aDiaILVVdAddGv~~qT~e~i~~a~--~~~vPiIVviNKiDl~~  403 (787)
T PRK05306        357 GAQVTDIVVLVVAADDGVMPQTIEAINHAK--AAGVPIIVAINKIDKPG  403 (787)
T ss_pred             hhhhCCEEEEEEECCCCCCHhHHHHHHHHH--hcCCcEEEEEECccccc
Confidence            567899999999998864332222112222  35689999999999965

>PF04548 AIG1: AIG1 family; InterPro: IPR006703 This entry represents a domain found in Arabidopsis protein AIG1 which appears to be involved in plant resistance to bacteria

Probab=99.51  E-value=2.3e-13  Score=112.31  Aligned_cols=133  Identities=17%  Similarity=0.201  Sum_probs=84.8

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCcccccc-CCCCceEEEEEEEEecCCeeEEEEecCCCcccchh--hhhHHHHHHHHHHc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVT-NKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIH--MLDSMMMKNVRSAG  193 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~-~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~--~~~~~~~~~~~~~~  193 (254)
                      +|+++|.+|+||||++|.+++....... ...+.|...........+..+.++||||+.+....  .+.......+....
T Consensus         2 ~IlllG~tGsGKSs~~N~ilg~~~f~~~~~~~~~t~~~~~~~~~~~g~~v~VIDTPGl~d~~~~~~~~~~~i~~~l~~~~   81 (212)
T PF04548_consen    2 RILLLGKTGSGKSSLGNSILGKEVFKSGSSAKSVTQECQKYSGEVDGRQVTVIDTPGLFDSDGSDEEIIREIKRCLSLCS   81 (212)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS-SS--TTTSS--SS-EEEEEEETTEEEEEEE--SSEETTEEHHHHHHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHhcccceeeccccCCcccccceeeeeecceEEEEEeCCCCCCCcccHHHHHHHHHHHHHhcc
Confidence            6999999999999999999998865433 23344555555555778899999999999765432  22222333344456


Q ss_pred             cCccEEEEEEeCCCCchhHHHHHHHhhcccCC--CCCEEEEEecCCCCChHhHHHHHH
Q 025346          194 INADCIVVLVDACKAPERIDEILEEGVGDHKD--KLPILLVLNKKDLIKPGEIAKKLE  249 (254)
Q Consensus       194 ~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~--~~piivV~nK~Dl~~~~~~~~~~~  249 (254)
                      .+.+++++|+...+........+..+...++.  ...++||.|.+|...+..+++.++
T Consensus        82 ~g~ha~llVi~~~r~t~~~~~~l~~l~~~FG~~~~k~~ivvfT~~d~~~~~~~~~~l~  139 (212)
T PF04548_consen   82 PGPHAFLLVIPLGRFTEEDREVLELLQEIFGEEIWKHTIVVFTHADELEDDSLEDYLK  139 (212)
T ss_dssp             T-ESEEEEEEETTB-SHHHHHHHHHHHHHHCGGGGGGEEEEEEEGGGGTTTTHHHHHH
T ss_pred             CCCeEEEEEEecCcchHHHHHHHHHHHHHccHHHHhHhhHHhhhccccccccHHHHHh
Confidence            78999999999996444444444444443332  246999999999988776554433

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 ....

>CHL00071 tufA elongation factor Tu

Probab=99.50  E-value=5.1e-13  Score=120.59  Aligned_cols=121  Identities=18%  Similarity=0.185  Sum_probs=85.3

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccc---------------cccCCCCceEEEEEEEEecCCeeEEEEecCCCcccc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLS---------------IVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK  177 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~---------------~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~  177 (254)
                      .+..+++++|.+++|||||++++++....               ......+.|.+.....+..++.++.++||||+.   
T Consensus        10 ~~~~~i~i~Gh~d~GKSTL~~~Ll~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~~~~~~~~iDtPGh~---   86 (409)
T CHL00071         10 KPHVNIGTIGHVDHGKTTLTAAITMTLAAKGGAKAKKYDEIDSAPEEKARGITINTAHVEYETENRHYAHVDCPGHA---   86 (409)
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHHHHhCccccccccccccccCChhhhcCCEeEEccEEEEccCCeEEEEEECCChH---
Confidence            44568999999999999999999864211               011235666666555666677889999999942   


Q ss_pred             hhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCC-EEEEEecCCCCChHhH
Q 025346          178 IHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLP-ILLVLNKKDLIKPGEI  244 (254)
Q Consensus       178 ~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~p-iivV~nK~Dl~~~~~~  244 (254)
                            .+.......+..+|++++|+|+..+..........+..  ..++| +++|+||+|+.+.++.
T Consensus        87 ------~~~~~~~~~~~~~D~~ilVvda~~g~~~qt~~~~~~~~--~~g~~~iIvvvNK~D~~~~~~~  146 (409)
T CHL00071         87 ------DYVKNMITGAAQMDGAILVVSAADGPMPQTKEHILLAK--QVGVPNIVVFLNKEDQVDDEEL  146 (409)
T ss_pred             ------HHHHHHHHHHHhCCEEEEEEECCCCCcHHHHHHHHHHH--HcCCCEEEEEEEccCCCCHHHH
Confidence                  22344445577899999999999876554444444443  23578 7789999999876553

>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=99.49  E-value=4.4e-14  Score=112.57  Aligned_cols=118  Identities=25%  Similarity=0.351  Sum_probs=68.5

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEE--ecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGIC--SGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~--~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      .+.++++|++|+|||+|..++..++...  .  .|.........  ...+..+.++|+||...-+     ..+...+ .+
T Consensus         3 ~~~vlL~Gps~SGKTaLf~~L~~~~~~~--T--~tS~e~n~~~~~~~~~~~~~~lvD~PGH~rlr-----~~~~~~~-~~   72 (181)
T PF09439_consen    3 RPTVLLVGPSGSGKTALFSQLVNGKTVP--T--VTSMENNIAYNVNNSKGKKLRLVDIPGHPRLR-----SKLLDEL-KY   72 (181)
T ss_dssp             --EEEEE-STTSSHHHHHHHHHHSS-----B-----SSEEEECCGSSTCGTCECEEEETT-HCCC-----HHHHHHH-HH
T ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCcCC--e--eccccCCceEEeecCCCCEEEEEECCCcHHHH-----HHHHHhh-hc
Confidence            4579999999999999999999874321  1  11111112111  2345689999999954332     2221221 24


Q ss_pred             ccCccEEEEEEeCCCCc---hhHHHHHHHhhcc---cCCCCCEEEEEecCCCCChH
Q 025346          193 GINADCIVVLVDACKAP---ERIDEILEEGVGD---HKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~~---~~~~~~~~~~~~~---~~~~~piivV~nK~Dl~~~~  242 (254)
                      ...+.+||||+|++...   ....+.+..++..   ....+|++|++||.|+....
T Consensus        73 ~~~~k~IIfvvDSs~~~~~~~~~Ae~Ly~iL~~~~~~~~~~piLIacNK~Dl~~A~  128 (181)
T PF09439_consen   73 LSNAKGIIFVVDSSTDQKELRDVAEYLYDILSDTEVQKNKPPILIACNKQDLFTAK  128 (181)
T ss_dssp             HGGEEEEEEEEETTTHHHHHHHHHHHHHHHHHHHHCCTT--EEEEEEE-TTSTT--
T ss_pred             hhhCCEEEEEEeCccchhhHHHHHHHHHHHHHhhhhccCCCCEEEEEeCccccccC
Confidence            67899999999998522   3334444444432   24678999999999998654

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.

>cd04167 Snu114p Snu114p subfamily

Probab=99.49  E-value=2.8e-13  Score=111.78  Aligned_cols=112  Identities=26%  Similarity=0.375  Sum_probs=71.1

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCcccccc------------------CCCCceEEEEEEEE-----ecCCeeEEEEecCC
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVT------------------NKPQTTRHRILGIC-----SGPEYQMILYDTPG  172 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~------------------~~~~tt~~~~~~~~-----~~~~~~~~liDtpG  172 (254)
                      ++++++|+.++|||||+++++........                  ...+.+.......+     +.....+.+|||||
T Consensus         1 rnv~iiG~~~~GKTtL~~~l~~~~~~~~~~~~~~~~~~~~~d~~~~e~~~giti~~~~~~~~~~~~~~~~~~i~iiDtpG   80 (213)
T cd04167           1 RNVAIAGHLHHGKTSLLDMLIEQTHDLTPSGKDGWKPLRYTDIRKDEQERGISIKSSPISLVLPDSKGKSYLFNIIDTPG   80 (213)
T ss_pred             CcEEEEcCCCCCHHHHHHHHHHhcCCCcccccccCCceeECCCCHHHHHcCccccccceeEEEEcCCCCEEEEEEEECCC
Confidence            36899999999999999999875432110                  00111111111111     23357899999999


Q ss_pred             CcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHH-HHHHHhhcccCCCCCEEEEEecCCCC
Q 025346          173 IIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERID-EILEEGVGDHKDKLPILLVLNKKDLI  239 (254)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~-~~~~~~~~~~~~~~piivV~nK~Dl~  239 (254)
                      ..+.         .......+..+|++++|+|+++...... .++....   ..+.|+++|+||+|+.
T Consensus        81 ~~~f---------~~~~~~~~~~aD~~llVvD~~~~~~~~~~~~~~~~~---~~~~p~iiviNK~D~~  136 (213)
T cd04167          81 HVNF---------MDEVAAALRLSDGVVLVVDVVEGVTSNTERLIRHAI---LEGLPIVLVINKIDRL  136 (213)
T ss_pred             Ccch---------HHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHH---HcCCCEEEEEECcccC
Confidence            5432         1234455789999999999987654332 2222222   2358999999999986

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.

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

Probab=99.48  E-value=2.3e-13  Score=125.58  Aligned_cols=122  Identities=28%  Similarity=0.285  Sum_probs=94.1

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      ..+++++|+||+|||||+|++.+.... +++.|++|.+...+.+...+..+.++|+||.-.-...+.++...+.+.. -.
T Consensus         3 ~~~valvGNPNvGKTtlFN~LTG~~q~-VgNwpGvTVEkkeg~~~~~~~~i~ivDLPG~YSL~~~S~DE~Var~~ll-~~   80 (653)
T COG0370           3 KLTVALVGNPNVGKTTLFNALTGANQK-VGNWPGVTVEKKEGKLKYKGHEIEIVDLPGTYSLTAYSEDEKVARDFLL-EG   80 (653)
T ss_pred             cceEEEecCCCccHHHHHHHHhccCce-ecCCCCeeEEEEEEEEEecCceEEEEeCCCcCCCCCCCchHHHHHHHHh-cC
Confidence            346999999999999999999998876 9999999999999999999999999999997654444444433222222 35


Q ss_pred             CccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          195 NADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       195 ~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      .+|+||-|+|+++-..++.-.+    +...-+.|+++++|++|....+
T Consensus        81 ~~D~ivnVvDAtnLeRnLyltl----QLlE~g~p~ilaLNm~D~A~~~  124 (653)
T COG0370          81 KPDLIVNVVDATNLERNLYLTL----QLLELGIPMILALNMIDEAKKR  124 (653)
T ss_pred             CCCEEEEEcccchHHHHHHHHH----HHHHcCCCeEEEeccHhhHHhc
Confidence            7899999999998444433222    2223578999999999987653

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=99.48  E-value=4e-13  Score=102.57  Aligned_cols=116  Identities=24%  Similarity=0.312  Sum_probs=74.4

Q ss_pred             EEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEE--ecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCcc
Q 025346          120 VLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGIC--SGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINAD  197 (254)
Q Consensus       120 ~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~--~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d  197 (254)
                      ++|++|+|||||++++.+.... ......+.........  ......+.+|||||.....         .........+|
T Consensus         1 iiG~~~~GKStl~~~l~~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~---------~~~~~~~~~~~   70 (157)
T cd00882           1 VVGDSGVGKTSLLNRLLGGEFV-PEEYETTIIDFYSKTIEVDGKKVKLQIWDTAGQERFR---------SLRRLYYRGAD   70 (157)
T ss_pred             CCCcCCCcHHHHHHHHHhCCcC-CcccccchhheeeEEEEECCEEEEEEEEecCChHHHH---------hHHHHHhcCCC
Confidence            4799999999999999987652 1122222222222222  2336789999999954321         22245578999


Q ss_pred             EEEEEEeCCCCchh--HHHH-HHHhhcccCCCCCEEEEEecCCCCChHhHH
Q 025346          198 CIVVLVDACKAPER--IDEI-LEEGVGDHKDKLPILLVLNKKDLIKPGEIA  245 (254)
Q Consensus       198 ~iv~vid~~~~~~~--~~~~-~~~~~~~~~~~~piivV~nK~Dl~~~~~~~  245 (254)
                      ++++|+|+++....  ...+ ..........+.|+++|+||+|+.......
T Consensus        71 ~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~ivv~nk~D~~~~~~~~  121 (157)
T cd00882          71 GIILVYDVTDRESFENVKEWLLLILINKEGENIPIILVGNKIDLPEERVVS  121 (157)
T ss_pred             EEEEEEECcCHHHHHHHHHHHHHHHHhhccCCCcEEEEEeccccccccchH
Confidence            99999999985332  2222 122233345679999999999998765443

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

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=99.48  E-value=2.1e-13  Score=116.40  Aligned_cols=132  Identities=24%  Similarity=0.250  Sum_probs=95.6

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEec-CCeeEEEEecCCCcccchhhhhHHHHHHHHHHccC
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSG-PEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGIN  195 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~-~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~  195 (254)
                      -|.++|.|++|||||++.+...+.. +.+||+||..+..+.+.. .+.++.+-|.||+++...+..  .+-..+...+..
T Consensus       161 DVGLVG~PNaGKSTlls~vS~AkPK-IadYpFTTL~PnLGvV~~~~~~sfv~ADIPGLIEGAs~G~--GLG~~FLrHIER  237 (369)
T COG0536         161 DVGLVGLPNAGKSTLLSAVSAAKPK-IADYPFTTLVPNLGVVRVDGGESFVVADIPGLIEGASEGV--GLGLRFLRHIER  237 (369)
T ss_pred             ccccccCCCCcHHHHHHHHhhcCCc-ccCCccccccCcccEEEecCCCcEEEecCcccccccccCC--CccHHHHHHHHh
Confidence            3789999999999999999988876 899999999988888774 566799999999987653322  122445667889


Q ss_pred             ccEEEEEEeCCCC-----chhHHHHHHHhhcc--cCCCCCEEEEEecCCCC-ChHhHHHHHHHH
Q 025346          196 ADCIVVLVDACKA-----PERIDEILEEGVGD--HKDKLPILLVLNKKDLI-KPGEIAKKLEVT  251 (254)
Q Consensus       196 ~d~iv~vid~~~~-----~~~~~~~~~~~~~~--~~~~~piivV~nK~Dl~-~~~~~~~~~~~~  251 (254)
                      +.++++|+|++..     .+.......++.+.  .-.+.|.+||+||+|+. ..++.+...+.+
T Consensus       238 t~vL~hviD~s~~~~~dp~~~~~~i~~EL~~Y~~~L~~K~~ivv~NKiD~~~~~e~~~~~~~~l  301 (369)
T COG0536         238 TRVLLHVIDLSPIDGRDPIEDYQTIRNELEKYSPKLAEKPRIVVLNKIDLPLDEEELEELKKAL  301 (369)
T ss_pred             hheeEEEEecCcccCCCHHHHHHHHHHHHHHhhHHhccCceEEEEeccCCCcCHHHHHHHHHHH
Confidence            9999999999852     22333333333222  22578999999999954 445555444433

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

Probab=99.48  E-value=1.1e-12  Score=107.49  Aligned_cols=118  Identities=23%  Similarity=0.228  Sum_probs=70.5

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCcccc--ccCCCCceEEEEEEEEe---------------------------cCC-----
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSI--VTNKPQTTRHRILGICS---------------------------GPE-----  162 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~--~~~~~~tt~~~~~~~~~---------------------------~~~-----  162 (254)
                      +++++|+.|+|||||+..+.+.....  .....+.+.......+.                           ..+     
T Consensus         2 ~i~~~g~~~~GKttL~~~l~~~~~~~~~~e~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (203)
T cd01888           2 NIGTIGHVAHGKSTLVKALSGVWTVRFKEELERNITIKLGYANAKIYKCPNCGCPRPYCYRSKEDSPECECPGCGGETKL   81 (203)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCCeeEEcCCceeecccccccccccCcCCCCccccccccccccccccccCCcccc
Confidence            68999999999999999997542100  00001111111100000                           112     


Q ss_pred             -eeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCC-c-hhHHHHHHHhhcccCCCCCEEEEEecCCCC
Q 025346          163 -YQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKA-P-ERIDEILEEGVGDHKDKLPILLVLNKKDLI  239 (254)
Q Consensus       163 -~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~-~-~~~~~~~~~~~~~~~~~~piivV~nK~Dl~  239 (254)
                       ..+.||||||..         .+...+...+..+|++++|+|++++ . ......+..+ .. ....|+++|+||+|+.
T Consensus        82 ~~~i~~iDtPG~~---------~~~~~~~~~~~~~D~~llVvd~~~~~~~~~t~~~l~~~-~~-~~~~~iiivvNK~Dl~  150 (203)
T cd01888          82 VRHVSFVDCPGHE---------ILMATMLSGAAVMDGALLLIAANEPCPQPQTSEHLAAL-EI-MGLKHIIIVQNKIDLV  150 (203)
T ss_pred             ccEEEEEECCChH---------HHHHHHHHhhhcCCEEEEEEECCCCCCCcchHHHHHHH-HH-cCCCcEEEEEEchhcc
Confidence             679999999931         2334556667889999999999873 2 2222333222 21 1225799999999998


Q ss_pred             ChHhHH
Q 025346          240 KPGEIA  245 (254)
Q Consensus       240 ~~~~~~  245 (254)
                      ...+..
T Consensus       151 ~~~~~~  156 (203)
T cd01888         151 KEEQAL  156 (203)
T ss_pred             CHHHHH
Confidence            765443

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

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

Probab=99.47  E-value=9.3e-13  Score=109.20  Aligned_cols=113  Identities=21%  Similarity=0.235  Sum_probs=76.0

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCcc------------------------------ccccCCCCceEEEEEEEEecCCeeEE
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKL------------------------------SIVTNKPQTTRHRILGICSGPEYQMI  166 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~------------------------------~~~~~~~~tt~~~~~~~~~~~~~~~~  166 (254)
                      +|+++|+.++|||||+.+++...-                              .......++|.+.....+...+..+.
T Consensus         1 nv~i~Gh~~~GKttL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~d~~~~~~~~~~~~i~   80 (219)
T cd01883           1 NLVVIGHVDAGKSTTTGHLLYLLGGVDKRTIEKYEKEAKEMGKGSFKYAWVLDTLKEERERGVTIDVGLAKFETEKYRFT   80 (219)
T ss_pred             CEEEecCCCCChHHHHHHHHHHhcCcCHHHHHHHHHHHHhcCCcchhHHhhhcCCHHHhhCccCeecceEEEeeCCeEEE
Confidence            378999999999999999963210                              00112346677777777888899999


Q ss_pred             EEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCC-------ch-hHHHHHHHhhcccCCCCCEEEEEecCCC
Q 025346          167 LYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKA-------PE-RIDEILEEGVGDHKDKLPILLVLNKKDL  238 (254)
Q Consensus       167 liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~-------~~-~~~~~~~~~~~~~~~~~piivV~nK~Dl  238 (254)
                      +|||||+.+         +...+...+..+|++++|+|+++.       .. .....+ ..... ....|+++|+||+|+
T Consensus        81 liDtpG~~~---------~~~~~~~~~~~~d~~i~VvDa~~~~~~~~~~~~~~~~~~~-~~~~~-~~~~~iiivvNK~Dl  149 (219)
T cd01883          81 ILDAPGHRD---------FVPNMITGASQADVAVLVVDARKGEFEAGFEKGGQTREHA-LLART-LGVKQLIVAVNKMDD  149 (219)
T ss_pred             EEECCChHH---------HHHHHHHHhhhCCEEEEEEECCCCccccccccccchHHHH-HHHHH-cCCCeEEEEEEcccc
Confidence            999999422         123344557789999999999873       11 111211 12221 123689999999999


Q ss_pred             CC
Q 025346          239 IK  240 (254)
Q Consensus       239 ~~  240 (254)
                      ..
T Consensus       150 ~~  151 (219)
T cd01883         150 VT  151 (219)
T ss_pred             cc
Confidence            83

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

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

Probab=99.47  E-value=1e-12  Score=112.16  Aligned_cols=114  Identities=26%  Similarity=0.304  Sum_probs=75.2

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCcccc-----ccC------------CCCceEEEEEEEEecCCeeEEEEecCCCcccchh
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSI-----VTN------------KPQTTRHRILGICSGPEYQMILYDTPGIIEKKIH  179 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~-----~~~------------~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~  179 (254)
                      +|+++|.+|+|||||+++++......     +..            ..+.+.......+.+.+..+.+|||||..+    
T Consensus         1 ni~ivG~~gsGKStL~~~Ll~~~g~~~~~g~v~~g~~~~d~~~~e~~r~~ti~~~~~~~~~~~~~i~liDtPG~~~----   76 (268)
T cd04170           1 NIALVGHSGSGKTTLAEALLYATGAIDRLGSVEDGTTVSDYDPEEIKRKMSISTSVAPLEWKGHKINLIDTPGYAD----   76 (268)
T ss_pred             CEEEECCCCCCHHHHHHHHHHhcCCCccCCeecCCcccCCCCHHHHhhcccccceeEEEEECCEEEEEEECcCHHH----
Confidence            47899999999999999997542110     100            011222233345566788999999999532    


Q ss_pred             hhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          180 MLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       180 ~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                           +...+...+..+|++++|+|++.+.......+.....  ..++|+++|+||+|+...
T Consensus        77 -----f~~~~~~~l~~aD~~i~Vvd~~~g~~~~~~~~~~~~~--~~~~p~iivvNK~D~~~~  131 (268)
T cd04170          77 -----FVGETRAALRAADAALVVVSAQSGVEVGTEKLWEFAD--EAGIPRIIFINKMDRERA  131 (268)
T ss_pred             -----HHHHHHHHHHHCCEEEEEEeCCCCCCHHHHHHHHHHH--HcCCCEEEEEECCccCCC
Confidence                 1233445678899999999998865443222222222  246899999999999865

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

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=99.46  E-value=7.7e-13  Score=104.16  Aligned_cols=104  Identities=19%  Similarity=0.184  Sum_probs=66.9

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINA  196 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~  196 (254)
                      +|+++|.+|+|||||+|++.+...  ..   ..|...   .+...    .+|||||.......     ........+..+
T Consensus         3 ~i~~iG~~~~GKstl~~~l~~~~~--~~---~~~~~v---~~~~~----~~iDtpG~~~~~~~-----~~~~~~~~~~~a   65 (158)
T PRK15467          3 RIAFVGAVGAGKTTLFNALQGNYT--LA---RKTQAV---EFNDK----GDIDTPGEYFSHPR-----WYHALITTLQDV   65 (158)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCCc--cC---ccceEE---EECCC----CcccCCccccCCHH-----HHHHHHHHHhcC
Confidence            799999999999999999886531  11   122111   11111    26999996332211     112233447899


Q ss_pred             cEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          197 DCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       197 d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      |++++|+|+++.......++...    ..+.|+++|+||+|+.+.
T Consensus        66 d~il~v~d~~~~~s~~~~~~~~~----~~~~~ii~v~nK~Dl~~~  106 (158)
T PRK15467         66 DMLIYVHGANDPESRLPAGLLDI----GVSKRQIAVISKTDMPDA  106 (158)
T ss_pred             CEEEEEEeCCCcccccCHHHHhc----cCCCCeEEEEEccccCcc
Confidence            99999999987544333443332    246799999999998653

>CHL00189 infB translation initiation factor 2; Provisional

Probab=99.46  E-value=1.1e-12  Score=124.82  Aligned_cols=117  Identities=17%  Similarity=0.248  Sum_probs=79.1

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEE--E--ecCCeeEEEEecCCCcccchhhhhHHHHH
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGI--C--SGPEYQMILYDTPGIIEKKIHMLDSMMMK  187 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~--~--~~~~~~~~liDtpG~~~~~~~~~~~~~~~  187 (254)
                      ..+.+.|+++|..++|||||++++....+. ....++.|.......  .  ...+..+.||||||..         .+..
T Consensus       241 ~~r~p~V~IvGhvdvGKTSLld~L~~~~~~-~~e~~GiTq~i~~~~v~~~~~~~~~kItfiDTPGhe---------~F~~  310 (742)
T CHL00189        241 INRPPIVTILGHVDHGKTTLLDKIRKTQIA-QKEAGGITQKIGAYEVEFEYKDENQKIVFLDTPGHE---------AFSS  310 (742)
T ss_pred             cccCCEEEEECCCCCCHHHHHHHHHhccCc-cccCCccccccceEEEEEEecCCceEEEEEECCcHH---------HHHH
Confidence            356789999999999999999999877664 233334443221111  1  2246889999999942         2223


Q ss_pred             HHHHHccCccEEEEEEeCCCCchhHH-HHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          188 NVRSAGINADCIVVLVDACKAPERID-EILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       188 ~~~~~~~~~d~iv~vid~~~~~~~~~-~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      .+...+..+|++++|+|+.++..... +.+.. ..  ..++|+++|+||+|+...
T Consensus       311 mr~rg~~~aDiaILVVDA~dGv~~QT~E~I~~-~k--~~~iPiIVViNKiDl~~~  362 (742)
T CHL00189        311 MRSRGANVTDIAILIIAADDGVKPQTIEAINY-IQ--AANVPIIVAINKIDKANA  362 (742)
T ss_pred             HHHHHHHHCCEEEEEEECcCCCChhhHHHHHH-HH--hcCceEEEEEECCCcccc
Confidence            34456788999999999988643322 22222 22  356899999999999753

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=99.46  E-value=3.2e-13  Score=114.52  Aligned_cols=90  Identities=36%  Similarity=0.441  Sum_probs=75.2

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccC
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGIN  195 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~  195 (254)
                      -.++++|.|++|||||++++.+.+.. +.++++||...+.+.+.+.+..++++|+||+..........  -.+..+.++.
T Consensus        64 a~v~lVGfPsvGKStLL~~LTnt~se-va~y~FTTl~~VPG~l~Y~ga~IQild~Pgii~gas~g~gr--G~~vlsv~R~  140 (365)
T COG1163          64 ATVALVGFPSVGKSTLLNKLTNTKSE-VADYPFTTLEPVPGMLEYKGAQIQLLDLPGIIEGASSGRGR--GRQVLSVARN  140 (365)
T ss_pred             eEEEEEcCCCccHHHHHHHHhCCCcc-ccccCceecccccceEeecCceEEEEcCcccccCcccCCCC--cceeeeeecc
Confidence            47999999999999999999998876 89999999999999999999999999999987654333211  0334566889


Q ss_pred             ccEEEEEEeCCCC
Q 025346          196 ADCIVVLVDACKA  208 (254)
Q Consensus       196 ~d~iv~vid~~~~  208 (254)
                      ||+|++|+|+...
T Consensus       141 ADlIiiVld~~~~  153 (365)
T COG1163         141 ADLIIIVLDVFED  153 (365)
T ss_pred             CCEEEEEEecCCC
Confidence            9999999999753

>PLN03126 Elongation factor Tu; Provisional

Probab=99.46  E-value=1.8e-12  Score=118.60  Aligned_cols=123  Identities=17%  Similarity=0.190  Sum_probs=85.1

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCccc---------------cccCCCCceEEEEEEEEecCCeeEEEEecCCCcc
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQKLS---------------IVTNKPQTTRHRILGICSGPEYQMILYDTPGIIE  175 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~---------------~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~  175 (254)
                      ...+..+++++|..++|||||+++++.....               ......+.|.+.....+...+..+.++||||+.+
T Consensus        77 ~~k~~~ni~iiGhvd~GKSTLi~~Ll~~~~~i~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~~~~~i~liDtPGh~~  156 (478)
T PLN03126         77 RKKPHVNIGTIGHVDHGKTTLTAALTMALASMGGSAPKKYDEIDAAPEERARGITINTATVEYETENRHYAHVDCPGHAD  156 (478)
T ss_pred             ccCCeeEEEEECCCCCCHHHHHHHHHHhhhhhccccccccccccCChhHHhCCeeEEEEEEEEecCCcEEEEEECCCHHH
Confidence            3455678999999999999999999853211               1122345566655556667788999999999422


Q ss_pred             cchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCC-EEEEEecCCCCChHhH
Q 025346          176 KKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLP-ILLVLNKKDLIKPGEI  244 (254)
Q Consensus       176 ~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~p-iivV~nK~Dl~~~~~~  244 (254)
                               +.......+..+|++++|+|+..+.......+..+...  .++| +++++||+|+.+.++.
T Consensus       157 ---------f~~~~~~g~~~aD~ailVVda~~G~~~qt~e~~~~~~~--~gi~~iIvvvNK~Dl~~~~~~  215 (478)
T PLN03126        157 ---------YVKNMITGAAQMDGAILVVSGADGPMPQTKEHILLAKQ--VGVPNMVVFLNKQDQVDDEEL  215 (478)
T ss_pred             ---------HHHHHHHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHH--cCCCeEEEEEecccccCHHHH
Confidence                     22344455678999999999998765544333333332  3577 7889999999875543

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

Probab=99.45  E-value=4e-13  Score=102.99  Aligned_cols=123  Identities=20%  Similarity=0.301  Sum_probs=89.9

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEE---EEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRIL---GICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~---~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      ..+++++|.+.+|||+|+..+...+++..++ |....+-..   ..-++...++++|||+|  +++       ++..+.+
T Consensus         8 qfrlivigdstvgkssll~~ft~gkfaelsd-ptvgvdffarlie~~pg~riklqlwdtag--qer-------frsitks   77 (213)
T KOG0091|consen    8 QFRLIVIGDSTVGKSSLLRYFTEGKFAELSD-PTVGVDFFARLIELRPGYRIKLQLWDTAG--QER-------FRSITKS   77 (213)
T ss_pred             EEEEEEEcCCcccHHHHHHHHhcCcccccCC-CccchHHHHHHHhcCCCcEEEEEEeeccc--hHH-------HHHHHHH
Confidence            3579999999999999999999999875543 322222111   12234467899999999  443       3455667


Q ss_pred             HccCccEEEEEEeCCC--CchhHHHHHHHhhcccC-CC-CCEEEEEecCCCCChHhHHHH
Q 025346          192 AGINADCIVVLVDACK--APERIDEILEEGVGDHK-DK-LPILLVLNKKDLIKPGEIAKK  247 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~-~~-~piivV~nK~Dl~~~~~~~~~  247 (254)
                      |+++.-++++|+|+++  +++.+..|+.+...... +. +-+.+|++|+||..++++...
T Consensus        78 yyrnsvgvllvyditnr~sfehv~~w~~ea~m~~q~P~k~VFlLVGhKsDL~SqRqVt~E  137 (213)
T KOG0091|consen   78 YYRNSVGVLLVYDITNRESFEHVENWVKEAAMATQGPDKVVFLLVGHKSDLQSQRQVTAE  137 (213)
T ss_pred             HhhcccceEEEEeccchhhHHHHHHHHHHHHHhcCCCCeeEEEEeccccchhhhccccHH
Confidence            8999999999999987  67888888887554433 33 446899999999998887543

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

Probab=99.45  E-value=1.6e-12  Score=118.00  Aligned_cols=118  Identities=18%  Similarity=0.179  Sum_probs=79.7

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCc--cc----------------------c------ccCCCCceEEEEEEEEecCC
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQK--LS----------------------I------VTNKPQTTRHRILGICSGPE  162 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~--~~----------------------~------~~~~~~tt~~~~~~~~~~~~  162 (254)
                      .+..+++++|+.++|||||+++++...  +.                      .      .....+.|.+.....+...+
T Consensus         5 ~~~~~v~i~Ghvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~rg~Tid~~~~~~~~~~   84 (426)
T TIGR00483         5 KEHINVAFIGHVDHGKSTTVGHLLYKCGAIDEQTIEKFEKEAQEKGKASFEFAWVMDRLKEERERGVTIDVAHWKFETDK   84 (426)
T ss_pred             CceeEEEEEeccCCcHHHHHHHHHHHhCCcCHHHHHHHHhHHHhcCCcccchhhhhccCHHHhhcCceEEEEEEEEccCC
Confidence            445689999999999999999998521  10                      0      11234667777777777888


Q ss_pred             eeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCC---chhHHHHHHHhhcccCCCCCEEEEEecCCCC
Q 025346          163 YQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKA---PERIDEILEEGVGDHKDKLPILLVLNKKDLI  239 (254)
Q Consensus       163 ~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~---~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~  239 (254)
                      ..+.+|||||..         .+.......+..+|++++|+|++++   ..........+.... ...|+++|+||+|+.
T Consensus        85 ~~i~iiDtpGh~---------~f~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~t~~~~~~~~~~-~~~~iIVviNK~Dl~  154 (426)
T TIGR00483        85 YEVTIVDCPGHR---------DFIKNMITGASQADAAVLVVAVGDGEFEVQPQTREHAFLARTL-GINQLIVAINKMDSV  154 (426)
T ss_pred             eEEEEEECCCHH---------HHHHHHHhhhhhCCEEEEEEECCCCCcccCCchHHHHHHHHHc-CCCeEEEEEEChhcc
Confidence            999999999932         1223344456889999999999885   222111111222222 235799999999997


Q ss_pred             C
Q 025346          240 K  240 (254)
Q Consensus       240 ~  240 (254)
                      +
T Consensus       155 ~  155 (426)
T TIGR00483       155 N  155 (426)
T ss_pred             C
Confidence            4

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.

>PRK12736 elongation factor Tu; Reviewed

Probab=99.45  E-value=2e-12  Score=116.16  Aligned_cols=121  Identities=18%  Similarity=0.185  Sum_probs=82.9

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccc---------------cccCCCCceEEEEEEEEecCCeeEEEEecCCCcccc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLS---------------IVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK  177 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~---------------~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~  177 (254)
                      .+..+++++|+.++|||||++++++....               ......+.|.+.....+...+..+.++||||+.   
T Consensus        10 k~~~ni~i~Ghvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~~~~~~~~~~~~~~i~~iDtPGh~---   86 (394)
T PRK12736         10 KPHVNIGTIGHVDHGKTTLTAAITKVLAERGLNQAKDYDSIDAAPEEKERGITINTAHVEYETEKRHYAHVDCPGHA---   86 (394)
T ss_pred             CCeeEEEEEccCCCcHHHHHHHHHhhhhhhccccccchhhhcCCHHHHhcCccEEEEeeEecCCCcEEEEEECCCHH---
Confidence            44568999999999999999999863110               011245667766655666677889999999942   


Q ss_pred             hhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCC-EEEEEecCCCCChHhH
Q 025346          178 IHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLP-ILLVLNKKDLIKPGEI  244 (254)
Q Consensus       178 ~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~p-iivV~nK~Dl~~~~~~  244 (254)
                            .+.......+..+|++++|+|+..+.......+..+...  .++| +++|+||+|+.+.+++
T Consensus        87 ------~f~~~~~~~~~~~d~~llVvd~~~g~~~~t~~~~~~~~~--~g~~~~IvviNK~D~~~~~~~  146 (394)
T PRK12736         87 ------DYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLARQ--VGVPYLVVFLNKVDLVDDEEL  146 (394)
T ss_pred             ------HHHHHHHHHHhhCCEEEEEEECCCCCchhHHHHHHHHHH--cCCCEEEEEEEecCCcchHHH
Confidence                  222334445678999999999988654444333333332  3577 6789999999865443

>PLN03127 Elongation factor Tu; Provisional

Probab=99.45  E-value=1.7e-12  Score=118.07  Aligned_cols=121  Identities=18%  Similarity=0.180  Sum_probs=84.3

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcC------ccc---------cccCCCCceEEEEEEEEecCCeeEEEEecCCCcccc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQ------KLS---------IVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK  177 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~------~~~---------~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~  177 (254)
                      .+..+++++|..++|||||++++.+.      ...         ......+.|.+.....+..++.++.++||||+.+  
T Consensus        59 k~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~~~~~~i~~iDtPGh~~--  136 (447)
T PLN03127         59 KPHVNVGTIGHVDHGKTTLTAAITKVLAEEGKAKAVAFDEIDKAPEEKARGITIATAHVEYETAKRHYAHVDCPGHAD--  136 (447)
T ss_pred             CceEEEEEECcCCCCHHHHHHHHHhHHHHhhcccceeeccccCChhHhhcCceeeeeEEEEcCCCeEEEEEECCCccc--
Confidence            44568999999999999999999732      100         0122367788777777777788999999999632  


Q ss_pred             hhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCC-EEEEEecCCCCChHhH
Q 025346          178 IHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLP-ILLVLNKKDLIKPGEI  244 (254)
Q Consensus       178 ~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~p-iivV~nK~Dl~~~~~~  244 (254)
                             +.......+..+|++++|+|+.++..........++..  .++| +++|+||+|+.+.++.
T Consensus       137 -------f~~~~~~g~~~aD~allVVda~~g~~~qt~e~l~~~~~--~gip~iIvviNKiDlv~~~~~  195 (447)
T PLN03127        137 -------YVKNMITGAAQMDGGILVVSAPDGPMPQTKEHILLARQ--VGVPSLVVFLNKVDVVDDEEL  195 (447)
T ss_pred             -------hHHHHHHHHhhCCEEEEEEECCCCCchhHHHHHHHHHH--cCCCeEEEEEEeeccCCHHHH
Confidence                   22333334567999999999988655544444444432  3578 5789999999875443

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

Probab=99.44  E-value=1.2e-12  Score=122.36  Aligned_cols=116  Identities=23%  Similarity=0.223  Sum_probs=74.2

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEe------------------cCCeeEEEEecCCCc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICS------------------GPEYQMILYDTPGII  174 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~------------------~~~~~~~liDtpG~~  174 (254)
                      .+.+.|+++|.+++|||||++++.+..+.. ....++|.......+.                  .....+.+|||||+.
T Consensus         2 ~r~piV~IiG~~d~GKTSLln~l~~~~v~~-~e~ggiTq~iG~~~v~~~~~~~~~~~~~~~~~v~~~~~~l~~iDTpG~e   80 (590)
T TIGR00491         2 LRSPIVSVLGHVDHGKTTLLDKIRGSAVAK-REAGGITQHIGATEIPMDVIEGICGDLLKKFKIRLKIPGLLFIDTPGHE   80 (590)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcccccc-ccCCceecccCeeEeeeccccccccccccccccccccCcEEEEECCCcH
Confidence            356789999999999999999999886532 1122233321111111                  011248899999942


Q ss_pred             ccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          175 EKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       175 ~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                        .+..       ....++..+|++++|+|++++...........+.  ..+.|+++|+||+|+..
T Consensus        81 --~f~~-------l~~~~~~~aD~~IlVvD~~~g~~~qt~e~i~~l~--~~~vpiIVv~NK~Dl~~  135 (590)
T TIGR00491        81 --AFTN-------LRKRGGALADLAILIVDINEGFKPQTQEALNILR--MYKTPFVVAANKIDRIP  135 (590)
T ss_pred             --hHHH-------HHHHHHhhCCEEEEEEECCcCCCHhHHHHHHHHH--HcCCCEEEEEECCCccc
Confidence              2222       2334578999999999998854433322222222  24689999999999974

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.

>TIGR00484 EF-G translation elongation factor EF-G

Probab=99.44  E-value=1.7e-12  Score=124.42  Aligned_cols=119  Identities=16%  Similarity=0.146  Sum_probs=84.4

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccc-----cccC------------CCCceEEEEEEEEecCCeeEEEEecCCCcc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLS-----IVTN------------KPQTTRHRILGICSGPEYQMILYDTPGIIE  175 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~-----~~~~------------~~~tt~~~~~~~~~~~~~~~~liDtpG~~~  175 (254)
                      .+.++|+++|..++|||||+++++...-.     .+.+            ..++|.......+.+.+..+.+|||||+.+
T Consensus         8 ~~irni~iiG~~~~GKsTL~~~ll~~~g~~~~~~~~~~g~~~~D~~~~e~~rgiti~~~~~~~~~~~~~i~liDTPG~~~   87 (689)
T TIGR00484         8 NRFRNIGISAHIDAGKTTTTERILFYTGRIHKIGEVHDGAATMDWMEQEKERGITITSAATTVFWKGHRINIIDTPGHVD   87 (689)
T ss_pred             ccccEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCCHHHHhcCCCEecceEEEEECCeEEEEEECCCCcc
Confidence            34568999999999999999999743211     1111            345666666777788899999999999754


Q ss_pred             cchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          176 KKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       176 ~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      ..         ......+..+|++++|+|+.++.......+.....  ..++|+++|+||+|+...+
T Consensus        88 ~~---------~~~~~~l~~~D~~ilVvda~~g~~~~~~~~~~~~~--~~~~p~ivviNK~D~~~~~  143 (689)
T TIGR00484        88 FT---------VEVERSLRVLDGAVAVLDAVGGVQPQSETVWRQAN--RYEVPRIAFVNKMDKTGAN  143 (689)
T ss_pred             hh---------HHHHHHHHHhCEEEEEEeCCCCCChhHHHHHHHHH--HcCCCEEEEEECCCCCCCC
Confidence            22         22345578899999999998865544333333333  2468999999999998643

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.

>KOG0075 consensus GTP-binding ADP-ribosylation factor-like protein [General function prediction only]

Probab=99.43  E-value=5.4e-13  Score=100.55  Aligned_cols=119  Identities=20%  Similarity=0.178  Sum_probs=87.1

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      ...+.++|-.++|||||+|.+....+.   .+-..|.......++.+...+.+||.||  ++.+..       .|..+.+
T Consensus        20 emel~lvGLq~sGKtt~Vn~ia~g~~~---edmiptvGfnmrk~tkgnvtiklwD~gG--q~rfrs-------mWerycR   87 (186)
T KOG0075|consen   20 EMELSLVGLQNSGKTTLVNVIARGQYL---EDMIPTVGFNMRKVTKGNVTIKLWDLGG--QPRFRS-------MWERYCR   87 (186)
T ss_pred             eeeEEEEeeccCCcceEEEEEeeccch---hhhcccccceeEEeccCceEEEEEecCC--CccHHH-------HHHHHhh
Confidence            346899999999999999998876653   3444455555556677788999999999  554444       4556789


Q ss_pred             CccEEEEEEeCCCC--chhHHHHHHHhhccc-CCCCCEEEEEecCCCCChHhHH
Q 025346          195 NADCIVVLVDACKA--PERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPGEIA  245 (254)
Q Consensus       195 ~~d~iv~vid~~~~--~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~~~~  245 (254)
                      ++++|+||+|++++  .+..+..+..++... -.++|+++.+||.|+...-.-.
T Consensus        88 ~v~aivY~VDaad~~k~~~sr~EL~~LL~k~~l~gip~LVLGnK~d~~~AL~~~  141 (186)
T KOG0075|consen   88 GVSAIVYVVDAADPDKLEASRSELHDLLDKPSLTGIPLLVLGNKIDLPGALSKI  141 (186)
T ss_pred             cCcEEEEEeecCCcccchhhHHHHHHHhcchhhcCCcEEEecccccCcccccHH
Confidence            99999999999883  233444555544432 3679999999999998764433

>PRK12735 elongation factor Tu; Reviewed

Probab=99.43  E-value=3.5e-12  Score=114.71  Aligned_cols=120  Identities=18%  Similarity=0.176  Sum_probs=80.8

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcC-------ccc--------cccCCCCceEEEEEEEEecCCeeEEEEecCCCcccc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQ-------KLS--------IVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK  177 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~-------~~~--------~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~  177 (254)
                      .+..+++++|..++|||||++++++.       ++.        ......+.|.+.....+..++..+.++||||+.   
T Consensus        10 ~~~~~i~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rGiT~~~~~~~~~~~~~~i~~iDtPGh~---   86 (396)
T PRK12735         10 KPHVNVGTIGHVDHGKTTLTAAITKVLAKKGGGEAKAYDQIDNAPEEKARGITINTSHVEYETANRHYAHVDCPGHA---   86 (396)
T ss_pred             CCeEEEEEECcCCCCHHHHHHHHHHhhhhcCCcccchhhhccCChhHHhcCceEEEeeeEEcCCCcEEEEEECCCHH---
Confidence            44568999999999999999999862       110        011234666666555666677889999999952   


Q ss_pred             hhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEE-EEEecCCCCChHh
Q 025346          178 IHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPIL-LVLNKKDLIKPGE  243 (254)
Q Consensus       178 ~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~pii-vV~nK~Dl~~~~~  243 (254)
                            .+.......+..+|++++|+|+..+.......+.....  ..++|.+ +|+||+|+.+.++
T Consensus        87 ------~f~~~~~~~~~~aD~~llVvda~~g~~~qt~e~l~~~~--~~gi~~iivvvNK~Dl~~~~~  145 (396)
T PRK12735         87 ------DYVKNMITGAAQMDGAILVVSAADGPMPQTREHILLAR--QVGVPYIVVFLNKCDMVDDEE  145 (396)
T ss_pred             ------HHHHHHHhhhccCCEEEEEEECCCCCchhHHHHHHHHH--HcCCCeEEEEEEecCCcchHH
Confidence                  22244445577899999999998865443322223332  2457855 6799999986433

>cd04165 GTPBP1_like GTPBP1-like

Probab=99.43  E-value=3e-12  Score=106.38  Aligned_cols=124  Identities=20%  Similarity=0.195  Sum_probs=78.3

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccC-------------CCCceEE------------------------EEEEEEe
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTN-------------KPQTTRH------------------------RILGICS  159 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~-------------~~~tt~~------------------------~~~~~~~  159 (254)
                      +++++|..++|||||++++....+.....             ..+.|..                        .....+.
T Consensus         1 ~v~~~G~~~~GKttl~~~~~~~~~~~~~~~~~~~~~~~~~E~~~g~t~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~   80 (224)
T cd04165           1 RVAVVGNVDAGKSTLLGVLTQGELDNGRGKARLNLFRHKHEVESGRTSSVSNEILGFDSDGEVVNYPDNHLSESDIEICE   80 (224)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCcCCCCCeEEeehhhhhhhhhcCchhhhhhhhcccCCCCceecCCCCccccccceeee
Confidence            47899999999999999998654321000             0011100                        0001223


Q ss_pred             cCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc--cCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCC
Q 025346          160 GPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG--INADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKD  237 (254)
Q Consensus       160 ~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~--~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~D  237 (254)
                      ..+..+.++||||....         .......+  ..+|++++|+|+..+.......+..++.  ..++|+++|+||+|
T Consensus        81 ~~~~~i~liDtpG~~~~---------~~~~~~~~~~~~~D~~llVvda~~g~~~~d~~~l~~l~--~~~ip~ivvvNK~D  149 (224)
T cd04165          81 KSSKLVTFIDLAGHERY---------LKTTLFGLTGYAPDYAMLVVAANAGIIGMTKEHLGLAL--ALNIPVFVVVTKID  149 (224)
T ss_pred             eCCcEEEEEECCCcHHH---------HHHHHHhhcccCCCEEEEEEECCCCCcHHHHHHHHHHH--HcCCCEEEEEECcc
Confidence            44678999999995221         12222223  3689999999998876665554444444  24689999999999


Q ss_pred             CCChHhHHHHHHHH
Q 025346          238 LIKPGEIAKKLEVT  251 (254)
Q Consensus       238 l~~~~~~~~~~~~~  251 (254)
                      +.++++..+....+
T Consensus       150 ~~~~~~~~~~~~~l  163 (224)
T cd04165         150 LAPANILQETLKDL  163 (224)
T ss_pred             ccCHHHHHHHHHHH
Confidence            98876666555444

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

>PF04670 Gtr1_RagA: Gtr1/RagA G protein conserved region; InterPro: IPR006762 GTR1 was first identified in Saccharomyces cerevisiae (Baker's yeast) as a suppressor of a mutation in RCC1

Probab=99.43  E-value=1.5e-12  Score=108.16  Aligned_cols=131  Identities=12%  Similarity=0.127  Sum_probs=79.7

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEe-cCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccC
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICS-GPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGIN  195 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~-~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~  195 (254)
                      ||+++|+.++||||+.+.+..+-.+......+.|.......+. .+...+.+||+||....- +.   .+.......++.
T Consensus         1 KiLLmG~~~SGKTSi~~vIF~~~~p~dT~~L~~T~~ve~~~v~~~~~~~l~iwD~pGq~~~~-~~---~~~~~~~~if~~   76 (232)
T PF04670_consen    1 KILLMGPRRSGKTSIRSVIFHKYSPRDTLRLEPTIDVEKSHVRFLSFLPLNIWDCPGQDDFM-EN---YFNSQREEIFSN   76 (232)
T ss_dssp             EEEEEESTTSSHHHHHHHHHS---GGGGGG-----SEEEEEEECTTSCEEEEEEE-SSCSTT-HT---THTCCHHHHHCT
T ss_pred             CEEEEcCCCCChhhHHHHHHcCCCchhccccCCcCCceEEEEecCCCcEEEEEEcCCccccc-cc---cccccHHHHHhc
Confidence            6899999999999999999987655444555555555555553 566799999999954321 11   111222344789


Q ss_pred             ccEEEEEEeCC-CCchhHHHHHHH---hhcccCCCCCEEEEEecCCCCChHhHHHHHHHH
Q 025346          196 ADCIVVLVDAC-KAPERIDEILEE---GVGDHKDKLPILLVLNKKDLIKPGEIAKKLEVT  251 (254)
Q Consensus       196 ~d~iv~vid~~-~~~~~~~~~~~~---~~~~~~~~~piivV~nK~Dl~~~~~~~~~~~~~  251 (254)
                      +.++|||+|+. +........+..   .+....+++.+.+.++|+|++.++...+....+
T Consensus        77 v~~LIyV~D~qs~~~~~~l~~~~~~i~~l~~~sp~~~v~vfiHK~D~l~~~~r~~~~~~~  136 (232)
T PF04670_consen   77 VGVLIYVFDAQSDDYDEDLAYLSDCIEALRQYSPNIKVFVFIHKMDLLSEDEREEIFRDI  136 (232)
T ss_dssp             ESEEEEEEETT-STCHHHHHHHHHHHHHHHHHSTT-EEEEEEE-CCCS-HHHHHHHHHHH
T ss_pred             cCEEEEEEEcccccHHHHHHHHHHHHHHHHHhCCCCeEEEEEeecccCCHHHHHHHHHHH
Confidence            99999999998 333332222222   222346889999999999999887665554443

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.

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=99.42  E-value=4.7e-12  Score=119.24  Aligned_cols=121  Identities=17%  Similarity=0.122  Sum_probs=82.1

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCcccc--ccCCCCceEEEEEEEEec-CCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSI--VTNKPQTTRHRILGICSG-PEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~--~~~~~~tt~~~~~~~~~~-~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .|+++|..++|||||++++.+.....  .....+.|.+........ ++..+.+|||||+.         .+.......+
T Consensus         2 ii~~~GhvdhGKTtLi~aLtg~~~dr~~eE~~rGiTI~l~~~~~~~~~g~~i~~IDtPGhe---------~fi~~m~~g~   72 (614)
T PRK10512          2 IIATAGHVDHGKTTLLQAITGVNADRLPEEKKRGMTIDLGYAYWPQPDGRVLGFIDVPGHE---------KFLSNMLAGV   72 (614)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCccchhcccCCceEEeeeEEEecCCCcEEEEEECCCHH---------HHHHHHHHHh
Confidence            48899999999999999998743221  223346666554444433 45678999999942         2334455667


Q ss_pred             cCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCC-EEEEEecCCCCChHhHHHHH
Q 025346          194 INADCIVVLVDACKAPERIDEILEEGVGDHKDKLP-ILLVLNKKDLIKPGEIAKKL  248 (254)
Q Consensus       194 ~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~p-iivV~nK~Dl~~~~~~~~~~  248 (254)
                      ..+|++++|+|+.++..........++...  ++| +++|+||+|+.+++.+....
T Consensus        73 ~~~D~~lLVVda~eg~~~qT~ehl~il~~l--gi~~iIVVlNKiDlv~~~~~~~v~  126 (614)
T PRK10512         73 GGIDHALLVVACDDGVMAQTREHLAILQLT--GNPMLTVALTKADRVDEARIAEVR  126 (614)
T ss_pred             hcCCEEEEEEECCCCCcHHHHHHHHHHHHc--CCCeEEEEEECCccCCHHHHHHHH
Confidence            899999999999987655444443444432  455 67999999998765554433

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=99.42  E-value=4e-12  Score=119.16  Aligned_cols=114  Identities=22%  Similarity=0.234  Sum_probs=80.3

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCc--ccc---c----------cCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhh
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQK--LSI---V----------TNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHM  180 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~--~~~---~----------~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~  180 (254)
                      ++|+++|+.++|||||+++++...  +..   +          ....+.|.......+.+.+..+.+|||||+.+.    
T Consensus         2 RNIaIiGHvd~GKTTLv~~LL~~sg~~~~~~~v~~~~~D~~~~ErerGiTI~~~~~~v~~~~~kinlIDTPGh~DF----   77 (594)
T TIGR01394         2 RNIAIIAHVDHGKTTLVDALLKQSGTFRANEAVAERVMDSNDLERERGITILAKNTAIRYNGTKINIVDTPGHADF----   77 (594)
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHhcCCCcccccceeecccCchHHHhCCccEEeeeEEEEECCEEEEEEECCCHHHH----
Confidence            479999999999999999998632  111   0          112245555555567788999999999995332    


Q ss_pred             hhHHHHHHHHHHccCccEEEEEEeCCCCchhH-HHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          181 LDSMMMKNVRSAGINADCIVVLVDACKAPERI-DEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       181 ~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~-~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                           ...+...+..+|++++|+|+.++.... ..++....   ..++|+++|+||+|+...
T Consensus        78 -----~~ev~~~l~~aD~alLVVDa~~G~~~qT~~~l~~a~---~~~ip~IVviNKiD~~~a  131 (594)
T TIGR01394        78 -----GGEVERVLGMVDGVLLLVDASEGPMPQTRFVLKKAL---ELGLKPIVVINKIDRPSA  131 (594)
T ss_pred             -----HHHHHHHHHhCCEEEEEEeCCCCCcHHHHHHHHHHH---HCCCCEEEEEECCCCCCc
Confidence                 234456678899999999998865433 33333332   246899999999999653

This bacterial (and Arabidopsis) protein, termed TypA or BipA, a GTP-binding protein, is phosphorylated on a tyrosine residue under some cellular conditions. Mutants show altered regulation of some pathways, but the precise function is unknown.

>PRK09866 hypothetical protein; Provisional

Probab=99.42  E-value=5e-12  Score=116.69  Aligned_cols=74  Identities=24%  Similarity=0.293  Sum_probs=51.5

Q ss_pred             eeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          163 YQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       163 ~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      .++.|+||||+.......+.....    ..+..+|+|+||+|+.......+..+...++..+.+.|+++|+||+|+.+
T Consensus       230 ~QIIFVDTPGIhk~~~~~L~k~M~----eqL~eADvVLFVVDat~~~s~~DeeIlk~Lkk~~K~~PVILVVNKIDl~d  303 (741)
T PRK09866        230 GQLTLLDTPGPNEAGQPHLQKMLN----QQLARASAVLAVLDYTQLKSISDEEVREAILAVGQSVPLYVLVNKFDQQD  303 (741)
T ss_pred             CCEEEEECCCCCCccchHHHHHHH----HHHhhCCEEEEEEeCCCCCChhHHHHHHHHHhcCCCCCEEEEEEcccCCC
Confidence            468899999986543232333332    35889999999999988554444445454544433469999999999975

>TIGR00485 EF-Tu translation elongation factor TU

Probab=99.42  E-value=5.3e-12  Score=113.53  Aligned_cols=121  Identities=17%  Similarity=0.189  Sum_probs=81.8

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCcc------c---------cccCCCCceEEEEEEEEecCCeeEEEEecCCCcccc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKL------S---------IVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK  177 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~------~---------~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~  177 (254)
                      .+..+++++|..++|||||++++++...      .         ......+.|.+.....+...+..+.+|||||+.+  
T Consensus        10 ~~~~~i~i~Ghvd~GKStL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rG~Ti~~~~~~~~~~~~~~~liDtpGh~~--   87 (394)
T TIGR00485        10 KPHVNIGTIGHVDHGKTTLTAAITTVLAKEGGAAARAYDQIDNAPEEKARGITINTAHVEYETENRHYAHVDCPGHAD--   87 (394)
T ss_pred             CceEEEEEEeecCCCHHHHHHHHHhhHHHhhcccccccccccCCHHHHhcCcceeeEEEEEcCCCEEEEEEECCchHH--
Confidence            4456899999999999999999974310      0         0112356777766666666778899999999532  


Q ss_pred             hhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEE-EEEecCCCCChHhH
Q 025346          178 IHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPIL-LVLNKKDLIKPGEI  244 (254)
Q Consensus       178 ~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~pii-vV~nK~Dl~~~~~~  244 (254)
                             +.......+..+|++++|+|+.++.............  ..++|.+ +|+||+|+.+.++.
T Consensus        88 -------f~~~~~~~~~~~D~~ilVvda~~g~~~qt~e~l~~~~--~~gi~~iIvvvNK~Dl~~~~~~  146 (394)
T TIGR00485        88 -------YVKNMITGAAQMDGAILVVSATDGPMPQTREHILLAR--QVGVPYIVVFLNKCDMVDDEEL  146 (394)
T ss_pred             -------HHHHHHHHHhhCCEEEEEEECCCCCcHHHHHHHHHHH--HcCCCEEEEEEEecccCCHHHH
Confidence                   2233344467899999999998865444333333333  2356755 68999999876543

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.

>PRK10218 GTP-binding protein; Provisional

Probab=99.42  E-value=4.3e-12  Score=118.96  Aligned_cols=117  Identities=21%  Similarity=0.242  Sum_probs=81.1

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCc--cccc-------------cCCCCceEEEEEEEEecCCeeEEEEecCCCcccch
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQK--LSIV-------------TNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKI  178 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~--~~~~-------------~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~  178 (254)
                      ..++|+++|+.++|||||+++++...  +...             ....+.|.......+.+.+..+.+|||||..+.. 
T Consensus         4 ~iRnIaIiGh~d~GKTTLv~~Ll~~~g~~~~~~~~~~~v~D~~~~E~erGiTi~~~~~~i~~~~~~inliDTPG~~df~-   82 (607)
T PRK10218          4 KLRNIAIIAHVDHGKTTLVDKLLQQSGTFDSRAETQERVMDSNDLEKERGITILAKNTAIKWNDYRINIVDTPGHADFG-   82 (607)
T ss_pred             CceEEEEECCCCCcHHHHHHHHHHhcCCcccccccceeeeccccccccCceEEEEEEEEEecCCEEEEEEECCCcchhH-
Confidence            35689999999999999999999632  2110             1123445555555667888999999999954332 


Q ss_pred             hhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          179 HMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       179 ~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                              ..+..++..+|++++|+|+.++.............  ..++|.++|+||+|+...
T Consensus        83 --------~~v~~~l~~aDg~ILVVDa~~G~~~qt~~~l~~a~--~~gip~IVviNKiD~~~a  135 (607)
T PRK10218         83 --------GEVERVMSMVDSVLLVVDAFDGPMPQTRFVTKKAF--AYGLKPIVVINKVDRPGA  135 (607)
T ss_pred             --------HHHHHHHHhCCEEEEEEecccCccHHHHHHHHHHH--HcCCCEEEEEECcCCCCC
Confidence                    33445678999999999998865433322222222  246899999999999643

>PRK12739 elongation factor G; Reviewed

Probab=99.41  E-value=3.8e-12  Score=121.96  Aligned_cols=118  Identities=20%  Similarity=0.255  Sum_probs=85.6

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCc-----ccccc------------CCCCceEEEEEEEEecCCeeEEEEecCCCcc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQK-----LSIVT------------NKPQTTRHRILGICSGPEYQMILYDTPGIIE  175 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~-----~~~~~------------~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~  175 (254)
                      .+.++++++|..++|||||+++++...     ...+.            ...++|.......+.+.+..+.++||||+.+
T Consensus         6 ~~irni~iiGh~~~GKsTL~~~ll~~~g~~~~~~~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~i~liDTPG~~~   85 (691)
T PRK12739          6 EKTRNIGIMAHIDAGKTTTTERILYYTGKSHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWKGHRINIIDTPGHVD   85 (691)
T ss_pred             cCeeEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCChhHhhcCCCccceeEEEEECCEEEEEEcCCCHHH
Confidence            345689999999999999999997431     11111            2445666666667778899999999999532


Q ss_pred             cchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          176 KKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       176 ~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                               ++..+...+..+|++++|+|+..+.+.....+.....  ..++|+++++||+|+...
T Consensus        86 ---------f~~e~~~al~~~D~~ilVvDa~~g~~~qt~~i~~~~~--~~~~p~iv~iNK~D~~~~  140 (691)
T PRK12739         86 ---------FTIEVERSLRVLDGAVAVFDAVSGVEPQSETVWRQAD--KYGVPRIVFVNKMDRIGA  140 (691)
T ss_pred             ---------HHHHHHHHHHHhCeEEEEEeCCCCCCHHHHHHHHHHH--HcCCCEEEEEECCCCCCC
Confidence                     2234566678899999999999876555444433333  346899999999999864

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

Probab=99.41  E-value=2e-12  Score=96.89  Aligned_cols=119  Identities=22%  Similarity=0.266  Sum_probs=92.3

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEE---EEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRH---RILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~---~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      ..+.+++|.-|+|||.|+..|..+++  ..+.|++...   .....+.+...++++|||+|  ++       .++.-..+
T Consensus        11 ifkyiiigdmgvgkscllhqftekkf--madcphtigvefgtriievsgqkiklqiwdtag--qe-------rfravtrs   79 (215)
T KOG0097|consen   11 IFKYIIIGDMGVGKSCLLHQFTEKKF--MADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAG--QE-------RFRAVTRS   79 (215)
T ss_pred             eEEEEEEccccccHHHHHHHHHHHHH--hhcCCcccceecceeEEEecCcEEEEEEeeccc--HH-------HHHHHHHH
Confidence            35789999999999999999999887  3555554321   11223566778999999999  33       34455667


Q ss_pred             HccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhH
Q 025346          192 AGINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEI  244 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~  244 (254)
                      +++++.+.++|+|+++.  ...+..|+.+.....+++.-+++++||.||..++++
T Consensus        80 yyrgaagalmvyditrrstynhlsswl~dar~ltnpnt~i~lignkadle~qrdv  134 (215)
T KOG0097|consen   80 YYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLESQRDV  134 (215)
T ss_pred             HhccccceeEEEEehhhhhhhhHHHHHhhhhccCCCceEEEEecchhhhhhcccC
Confidence            89999999999999873  355678888877777788889999999999988765

>TIGR00503 prfC peptide chain release factor 3

Probab=99.41  E-value=6.9e-12  Score=116.17  Aligned_cols=117  Identities=21%  Similarity=0.230  Sum_probs=79.0

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCc--ccc---cc----------C------CCCceEEEEEEEEecCCeeEEEEecC
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQK--LSI---VT----------N------KPQTTRHRILGICSGPEYQMILYDTP  171 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~--~~~---~~----------~------~~~tt~~~~~~~~~~~~~~~~liDtp  171 (254)
                      .+.++++++|.+++|||||+++++...  ...   +.          +      ..+.+.......+.+.+..+.+||||
T Consensus         9 ~~~RniaiiGh~~aGKTTL~e~Ll~~~g~i~~~g~v~~~g~~~~t~~D~~~~E~~rgisi~~~~~~~~~~~~~inliDTP   88 (527)
T TIGR00503         9 DKRRTFAIISHPDAGKTTITEKVLLYGGAIQTAGAVKGRGSQRHAKSDWMEMEKQRGISITTSVMQFPYRDCLVNLLDTP   88 (527)
T ss_pred             ccCCEEEEEcCCCCCHHHHHHHHHHhCCCccccceeccccccccccCCCCHHHHhcCCcEEEEEEEEeeCCeEEEEEECC
Confidence            456789999999999999999986321  111   11          0      01222333344567788999999999


Q ss_pred             CCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          172 GIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       172 G~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      |..+.         .......+..+|++|+|+|++.+.......+.....  ..++|+++++||+|+..
T Consensus        89 G~~df---------~~~~~~~l~~aD~aIlVvDa~~gv~~~t~~l~~~~~--~~~~PiivviNKiD~~~  146 (527)
T TIGR00503        89 GHEDF---------SEDTYRTLTAVDNCLMVIDAAKGVETRTRKLMEVTR--LRDTPIFTFMNKLDRDI  146 (527)
T ss_pred             ChhhH---------HHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHH--hcCCCEEEEEECccccC
Confidence            95321         123344578899999999999876544443334333  24689999999999963

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.

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=99.40  E-value=4.4e-12  Score=103.42  Aligned_cols=117  Identities=20%  Similarity=0.142  Sum_probs=70.0

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccC----CCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTN----KPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~----~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      .+++++|.+|+|||||+|.+++........    ...+|..... +.......+.+|||||+.+... ..+.+. ..  .
T Consensus         2 ~kI~i~G~~g~GKSSLin~L~g~~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~l~l~DtpG~~~~~~-~~~~~l-~~--~   76 (197)
T cd04104           2 LNIAVTGESGAGKSSFINALRGVGHEEEGAAPTGVVETTMKRTP-YPHPKFPNVTLWDLPGIGSTAF-PPDDYL-EE--M   76 (197)
T ss_pred             eEEEEECCCCCCHHHHHHHHhccCCCCCCccccCccccccCcee-eecCCCCCceEEeCCCCCcccC-CHHHHH-HH--h
Confidence            479999999999999999999854321111    1112221111 1111234789999999865322 112221 11  1


Q ss_pred             HccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          192 AGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      .+..+|++++|.+.  .+...+..+...+...  +.|+++|+||+|+..+
T Consensus        77 ~~~~~d~~l~v~~~--~~~~~d~~~~~~l~~~--~~~~ilV~nK~D~~~~  122 (197)
T cd04104          77 KFSEYDFFIIISST--RFSSNDVKLAKAIQCM--GKKFYFVRTKVDRDLS  122 (197)
T ss_pred             CccCcCEEEEEeCC--CCCHHHHHHHHHHHHh--CCCEEEEEecccchhh
Confidence            25678988887543  3455554444444432  5799999999999643

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

>PRK00049 elongation factor Tu; Reviewed

Probab=99.40  E-value=7.9e-12  Score=112.39  Aligned_cols=120  Identities=18%  Similarity=0.167  Sum_probs=83.4

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccc---------------cccCCCCceEEEEEEEEecCCeeEEEEecCCCcccc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLS---------------IVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK  177 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~---------------~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~  177 (254)
                      .+..+++++|..++|||||++++++....               ......+.|.+.....+...+..+.++||||+.   
T Consensus        10 ~~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~i~~iDtPG~~---   86 (396)
T PRK00049         10 KPHVNVGTIGHVDHGKTTLTAAITKVLAKKGGAEAKAYDQIDKAPEEKARGITINTAHVEYETEKRHYAHVDCPGHA---   86 (396)
T ss_pred             CCEEEEEEEeECCCCHHHHHHHHHHhhhhccCCcccchhhccCChHHHhcCeEEeeeEEEEcCCCeEEEEEECCCHH---
Confidence            44568999999999999999999863110               011245667766665666677889999999952   


Q ss_pred             hhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEE-EEEecCCCCChHh
Q 025346          178 IHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPIL-LVLNKKDLIKPGE  243 (254)
Q Consensus       178 ~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~pii-vV~nK~Dl~~~~~  243 (254)
                            .+.......+..+|++++|+|+..+.......+......  .++|.+ +++||+|+.+.++
T Consensus        87 ------~f~~~~~~~~~~aD~~llVVDa~~g~~~qt~~~~~~~~~--~g~p~iiVvvNK~D~~~~~~  145 (396)
T PRK00049         87 ------DYVKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQ--VGVPYIVVFLNKCDMVDDEE  145 (396)
T ss_pred             ------HHHHHHHhhhccCCEEEEEEECCCCCchHHHHHHHHHHH--cCCCEEEEEEeecCCcchHH
Confidence                  233444455789999999999988665544333333332  357875 6899999986443

>cd01899 Ygr210 Ygr210 subfamily

Probab=99.40  E-value=4.9e-12  Score=110.09  Aligned_cols=86  Identities=26%  Similarity=0.312  Sum_probs=65.1

Q ss_pred             EEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEec------------------------CCeeEEEEecCCC
Q 025346          118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSG------------------------PEYQMILYDTPGI  173 (254)
Q Consensus       118 ~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~------------------------~~~~~~liDtpG~  173 (254)
                      ++++|.+++|||||+|++.+... .++++|++|..+..+....                        ...++++|||||+
T Consensus         1 i~ivG~pnvGKStLfn~lt~~~~-~~~~~pftT~~p~~g~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~v~i~l~D~aGl   79 (318)
T cd01899           1 IGLVGKPNAGKSTFFNAATLADV-EIANYPFTTIDPNVGVGYVRVECPCKELGVSCNPRYGKCIDGKRYVPVELIDVAGL   79 (318)
T ss_pred             CEEECCCCCCHHHHHHHHhCCCC-cccCCCCccccceeEEEEEecCCCchhhhhhhcccccccccCcCcceEEEEECCCC
Confidence            47899999999999999999876 4889999987766653321                        2367999999998


Q ss_pred             cccchhhhhHHHHHHHHHHccCccEEEEEEeCC
Q 025346          174 IEKKIHMLDSMMMKNVRSAGINADCIVVLVDAC  206 (254)
Q Consensus       174 ~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~  206 (254)
                      ......  .......+...++.+|++++|+|+.
T Consensus        80 v~ga~~--~~glg~~fL~~ir~aD~ii~Vvd~~  110 (318)
T cd01899          80 VPGAHE--GKGLGNKFLDDLRDADALIHVVDAS  110 (318)
T ss_pred             CCCccc--hhhHHHHHHHHHHHCCEEEEEEeCC
Confidence            543211  1223355667799999999999996

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.

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=99.39  E-value=6.4e-12  Score=116.36  Aligned_cols=118  Identities=20%  Similarity=0.219  Sum_probs=78.6

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCc--cccccC-------------------CCCceEEEEEEEEecCCeeEEEEecC
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQK--LSIVTN-------------------KPQTTRHRILGICSGPEYQMILYDTP  171 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~--~~~~~~-------------------~~~tt~~~~~~~~~~~~~~~~liDtp  171 (254)
                      .+.++++++|+.++|||||+++++...  ....+.                   ..+.+.......+.+.+..+.+||||
T Consensus         8 ~~~Rni~IiGh~daGKTTL~e~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rgiSi~~~~~~~~~~~~~inliDTP   87 (526)
T PRK00741          8 AKRRTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGRHATSDWMEMEKQRGISVTSSVMQFPYRDCLINLLDTP   87 (526)
T ss_pred             hcCCEEEEECCCCCCHHHHHHHHHHhCCCccccceeeccccCccccCCCcHHHHhhCCceeeeeEEEEECCEEEEEEECC
Confidence            356789999999999999999997321  111100                   01122233334566778999999999


Q ss_pred             CCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          172 GIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       172 G~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      |..+..         ......+..+|++++|+|++++.......+.....  ..++|+++++||+|+...
T Consensus        88 G~~df~---------~~~~~~l~~aD~aIlVvDa~~gv~~~t~~l~~~~~--~~~iPiiv~iNK~D~~~a  146 (526)
T PRK00741         88 GHEDFS---------EDTYRTLTAVDSALMVIDAAKGVEPQTRKLMEVCR--LRDTPIFTFINKLDRDGR  146 (526)
T ss_pred             CchhhH---------HHHHHHHHHCCEEEEEEecCCCCCHHHHHHHHHHH--hcCCCEEEEEECCccccc
Confidence            954322         22344567899999999998865544333333332  357999999999998754

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

Probab=99.38  E-value=6.3e-12  Score=96.18  Aligned_cols=112  Identities=21%  Similarity=0.253  Sum_probs=74.6

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccC
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGIN  195 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~  195 (254)
                      .+++++|+.|+|||||++++.+.+..    +. .|.....     .   =.++||||  +.-   .++.+...+......
T Consensus         2 krimliG~~g~GKTTL~q~L~~~~~~----~~-KTq~i~~-----~---~~~IDTPG--Eyi---E~~~~y~aLi~ta~d   63 (143)
T PF10662_consen    2 KRIMLIGPSGSGKTTLAQALNGEEIR----YK-KTQAIEY-----Y---DNTIDTPG--EYI---ENPRFYHALIVTAQD   63 (143)
T ss_pred             ceEEEECCCCCCHHHHHHHHcCCCCC----cC-ccceeEe-----c---ccEEECCh--hhe---eCHHHHHHHHHHHhh
Confidence            47999999999999999999986542    21 1211111     1   13599999  211   123444666677789


Q ss_pred             ccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCC-ChHhHHHHHHH
Q 025346          196 ADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLI-KPGEIAKKLEV  250 (254)
Q Consensus       196 ~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~-~~~~~~~~~~~  250 (254)
                      ||+|++|.|+++........+...     .+.|+|-|+||+|+. +..+++...+.
T Consensus        64 ad~V~ll~dat~~~~~~pP~fa~~-----f~~pvIGVITK~Dl~~~~~~i~~a~~~  114 (143)
T PF10662_consen   64 ADVVLLLQDATEPRSVFPPGFASM-----FNKPVIGVITKIDLPSDDANIERAKKW  114 (143)
T ss_pred             CCEEEEEecCCCCCccCCchhhcc-----cCCCEEEEEECccCccchhhHHHHHHH
Confidence            999999999998544333333221     257999999999999 45555554443

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

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=99.37  E-value=6.2e-12  Score=115.33  Aligned_cols=118  Identities=20%  Similarity=0.188  Sum_probs=77.5

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCcccccc--------------------------------CCCCceEEEEEEEEec
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVT--------------------------------NKPQTTRHRILGICSG  160 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~--------------------------------~~~~tt~~~~~~~~~~  160 (254)
                      ....+++++|..++|||||+++++...-....                                ...+.|.+.....+..
T Consensus        25 ~~~~~i~iiGhvdaGKSTL~~~LL~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~a~~~D~~~eEr~rgiTid~~~~~~~~  104 (474)
T PRK05124         25 KSLLRFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLASLHNDSKRHGTQGEKLDLALLVDGLQAEREQGITIDVAYRYFST  104 (474)
T ss_pred             cCceEEEEECCCCCChHHHHHHHHHhcCCCcHHHHHHHHHHHHhcCCCccccchhhhccCChHHhhcCCCeEeeEEEecc
Confidence            44568999999999999999999854311110                                0113344555556667


Q ss_pred             CCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          161 PEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       161 ~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      ++.++.|+||||+..         +.......+..+|++++|+|+..+..........+..... ..|+++|+||+|+..
T Consensus       105 ~~~~i~~iDTPGh~~---------f~~~~~~~l~~aD~allVVDa~~G~~~qt~~~~~l~~~lg-~~~iIvvvNKiD~~~  174 (474)
T PRK05124        105 EKRKFIIADTPGHEQ---------YTRNMATGASTCDLAILLIDARKGVLDQTRRHSFIATLLG-IKHLVVAVNKMDLVD  174 (474)
T ss_pred             CCcEEEEEECCCcHH---------HHHHHHHHHhhCCEEEEEEECCCCccccchHHHHHHHHhC-CCceEEEEEeecccc
Confidence            788999999999421         2223333468999999999998865432222222222222 247899999999984

>PRK00007 elongation factor G; Reviewed

Probab=99.37  E-value=9.4e-12  Score=119.24  Aligned_cols=119  Identities=19%  Similarity=0.222  Sum_probs=85.7

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCc-----ccccc------------CCCCceEEEEEEEEecCCeeEEEEecCCCcc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQK-----LSIVT------------NKPQTTRHRILGICSGPEYQMILYDTPGIIE  175 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~-----~~~~~------------~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~  175 (254)
                      .+.++|+++|..++|||||+++++...     ...+.            ...++|.+.....+.+.+..+.++||||+.+
T Consensus         8 ~~Irni~iiG~~~~GKsTL~~~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rg~ti~~~~~~~~~~~~~~~liDTPG~~~   87 (693)
T PRK00007          8 ERYRNIGIMAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWKDHRINIIDTPGHVD   87 (693)
T ss_pred             cceeEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCcccCCCCHHHHhCCCCEeccEEEEEECCeEEEEEeCCCcHH
Confidence            345689999999999999999997321     11111            2446677766667778889999999999533


Q ss_pred             cchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          176 KKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       176 ~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      .         .......+..+|++++|+|+..+.......+.....  ..++|+++++||+|+...+
T Consensus        88 f---------~~ev~~al~~~D~~vlVvda~~g~~~qt~~~~~~~~--~~~~p~iv~vNK~D~~~~~  143 (693)
T PRK00007         88 F---------TIEVERSLRVLDGAVAVFDAVGGVEPQSETVWRQAD--KYKVPRIAFVNKMDRTGAD  143 (693)
T ss_pred             H---------HHHHHHHHHHcCEEEEEEECCCCcchhhHHHHHHHH--HcCCCEEEEEECCCCCCCC
Confidence            2         223445577899999999998876655544444443  3468999999999998643

>PRK04004 translation initiation factor IF-2; Validated

Probab=99.37  E-value=9.7e-12  Score=116.54  Aligned_cols=115  Identities=23%  Similarity=0.256  Sum_probs=72.6

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCC-CceEEEEEEEEecC------------------CeeEEEEecCC
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKP-QTTRHRILGICSGP------------------EYQMILYDTPG  172 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~-~tt~~~~~~~~~~~------------------~~~~~liDtpG  172 (254)
                      ..+++.|+++|.+++|||||++++.+..+.  ...+ +.|........+..                  ...+.+|||||
T Consensus         3 ~~R~p~V~i~Gh~~~GKTSLl~~l~~~~v~--~~~~g~itq~ig~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~iDTPG   80 (586)
T PRK04004          3 KLRQPIVVVLGHVDHGKTTLLDKIRGTAVA--AKEAGGITQHIGATEVPIDVIEKIAGPLKKPLPIKLKIPGLLFIDTPG   80 (586)
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHhCcccc--cCCCCceEEeeceeeccccccccccceeccccccccccCCEEEEECCC
Confidence            356788999999999999999999876542  2222 22222111111100                  01278999999


Q ss_pred             CcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCC
Q 025346          173 IIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLI  239 (254)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~  239 (254)
                      ...  +.       ......+..+|++++|+|++++...........+.  ..+.|+++|+||+|+.
T Consensus        81 ~e~--f~-------~~~~~~~~~aD~~IlVvDa~~g~~~qt~e~i~~~~--~~~vpiIvviNK~D~~  136 (586)
T PRK04004         81 HEA--FT-------NLRKRGGALADIAILVVDINEGFQPQTIEAINILK--RRKTPFVVAANKIDRI  136 (586)
T ss_pred             hHH--HH-------HHHHHhHhhCCEEEEEEECCCCCCHhHHHHHHHHH--HcCCCEEEEEECcCCc
Confidence            532  22       22234567899999999999864433322222232  2478999999999986

>COG2229 Predicted GTPase [General function prediction only]

Probab=99.37  E-value=2.7e-11  Score=95.03  Aligned_cols=125  Identities=21%  Similarity=0.289  Sum_probs=85.3

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCccccc-----c-CCC---CceEEEEEEEEecC-CeeEEEEecCCCcccchhhh
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQKLSIV-----T-NKP---QTTRHRILGICSGP-EYQMILYDTPGIIEKKIHML  181 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~-----~-~~~---~tt~~~~~~~~~~~-~~~~~liDtpG~~~~~~~~~  181 (254)
                      .....+|++.|+.++||||++..+.......+     + ...   .||...-.+.+... +..+.++||||  +.++.-+
T Consensus         7 k~~~~KIvv~G~~~agKtTfv~~~s~k~~v~t~~~~~~~s~k~kr~tTva~D~g~~~~~~~~~v~LfgtPG--q~RF~fm   84 (187)
T COG2229           7 KMIETKIVVIGPVGAGKTTFVRALSDKPLVITEADASSVSGKGKRPTTVAMDFGSIELDEDTGVHLFGTPG--QERFKFM   84 (187)
T ss_pred             cccceeEEEEcccccchhhHHHHhhccccceeeccccccccccccceeEeecccceEEcCcceEEEecCCC--cHHHHHH
Confidence            34567899999999999999999998764222     1 111   24444444444443 47899999999  4443333


Q ss_pred             hHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHH
Q 025346          182 DSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAK  246 (254)
Q Consensus       182 ~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~  246 (254)
                             |.-+.+++.++|+++|.+++.......+..++....+ +|++|.+||.||.+..-.++
T Consensus        85 -------~~~l~~ga~gaivlVDss~~~~~~a~~ii~f~~~~~~-ip~vVa~NK~DL~~a~ppe~  141 (187)
T COG2229          85 -------WEILSRGAVGAIVLVDSSRPITFHAEEIIDFLTSRNP-IPVVVAINKQDLFDALPPEK  141 (187)
T ss_pred             -------HHHHhCCcceEEEEEecCCCcchHHHHHHHHHhhccC-CCEEEEeeccccCCCCCHHH
Confidence                   3445788999999999999766544444444443322 99999999999987644433

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=99.36  E-value=7.2e-12  Score=113.02  Aligned_cols=114  Identities=25%  Similarity=0.232  Sum_probs=76.7

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccc--------------------------------cCCCCceEEEEEEEEecCCee
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIV--------------------------------TNKPQTTRHRILGICSGPEYQ  164 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~--------------------------------~~~~~tt~~~~~~~~~~~~~~  164 (254)
                      +++++|+.++|||||+++++...-...                                ....+.|.+.....+.+.+.+
T Consensus         2 ~~~~vGhvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~~D~~~eE~~rgiTid~~~~~~~~~~~~   81 (406)
T TIGR02034         2 RFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLAALERDSKKHGTQGGEIDLALLVDGLQAEREQGITIDVAYRYFSTDKRK   81 (406)
T ss_pred             eEEEECCCCCCchhhhHHHHHHcCCcCHHHHHHHHHHHHhhCCCcCceeeeeeccCChHHhcCCcCeEeeeEEEccCCeE
Confidence            689999999999999999974321100                                011234456666666778889


Q ss_pred             EEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          165 MILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       165 ~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      +.++||||+.+         +.......+..+|++++|+|+..+..........+..... ..++++|+||+|+..
T Consensus        82 ~~liDtPGh~~---------f~~~~~~~~~~aD~allVVda~~G~~~qt~~~~~~~~~~~-~~~iivviNK~D~~~  147 (406)
T TIGR02034        82 FIVADTPGHEQ---------YTRNMATGASTADLAVLLVDARKGVLEQTRRHSYIASLLG-IRHVVLAVNKMDLVD  147 (406)
T ss_pred             EEEEeCCCHHH---------HHHHHHHHHhhCCEEEEEEECCCCCccccHHHHHHHHHcC-CCcEEEEEEeccccc
Confidence            99999999422         2223334578999999999998866444332223333222 246899999999975

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).

>TIGR01393 lepA GTP-binding protein LepA

Probab=99.36  E-value=1.3e-11  Score=116.05  Aligned_cols=114  Identities=25%  Similarity=0.297  Sum_probs=74.2

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCcccc--------ccC------CCCceEEEEEEEE-----ecCCeeEEEEecCCCcc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSI--------VTN------KPQTTRHRILGIC-----SGPEYQMILYDTPGIIE  175 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~--------~~~------~~~tt~~~~~~~~-----~~~~~~~~liDtpG~~~  175 (254)
                      .++++++|+.++|||||+++++......        ..+      ..+.|.......+     ++....+.+|||||..+
T Consensus         3 iRNi~IIGh~d~GKTTL~~rLl~~~g~i~~~~~~~~~~D~~~~ErerGiTi~~~~v~~~~~~~~g~~~~l~liDTPG~~d   82 (595)
T TIGR01393         3 IRNFSIIAHIDHGKSTLADRLLEYTGAISEREMREQVLDSMDLERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGHVD   82 (595)
T ss_pred             eeEEEEECCCCCCHHHHHHHHHHHcCCCccccccccccCCChHHHhcCCCeeeeEEEEEEEcCCCCEEEEEEEECCCcHH
Confidence            4579999999999999999998643110        111      1234433322222     23347899999999543


Q ss_pred             cchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHH-HHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          176 KKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERID-EILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       176 ~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~-~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      .         ...+..++..+|++++|+|++++.+... ..+....   ..++|+++|+||+|+..
T Consensus        83 F---------~~~v~~~l~~aD~aILVvDat~g~~~qt~~~~~~~~---~~~ipiIiViNKiDl~~  136 (595)
T TIGR01393        83 F---------SYEVSRSLAACEGALLLVDAAQGIEAQTLANVYLAL---ENDLEIIPVINKIDLPS  136 (595)
T ss_pred             H---------HHHHHHHHHhCCEEEEEecCCCCCCHhHHHHHHHHH---HcCCCEEEEEECcCCCc
Confidence            2         2334456788999999999988543322 1122222   24689999999999964

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.

>KOG0070 consensus GTP-binding ADP-ribosylation factor Arf1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.36  E-value=3.9e-12  Score=99.79  Aligned_cols=119  Identities=18%  Similarity=0.211  Sum_probs=88.0

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      ..+..+|+++|-.++||||++.++-..++-  ..  ..|.......+...+.++.+||..|.  .+..       .-|..
T Consensus        14 ~~~e~~IlmlGLD~AGKTTILykLk~~E~v--tt--vPTiGfnVE~v~ykn~~f~vWDvGGq--~k~R-------~lW~~   80 (181)
T KOG0070|consen   14 GKKEMRILMVGLDAAGKTTILYKLKLGEIV--TT--VPTIGFNVETVEYKNISFTVWDVGGQ--EKLR-------PLWKH   80 (181)
T ss_pred             CcceEEEEEEeccCCCceeeeEeeccCCcc--cC--CCccccceeEEEEcceEEEEEecCCC--cccc-------cchhh
Confidence            445568999999999999999998877763  22  23333445556677899999999993  3222       34667


Q ss_pred             HccCccEEEEEEeCCCC--chhHHHHHHHhhcccC-CCCCEEEEEecCCCCChHh
Q 025346          192 AGINADCIVVLVDACKA--PERIDEILEEGVGDHK-DKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~-~~~piivV~nK~Dl~~~~~  243 (254)
                      |+.+.+++|||+|+++.  ..+..+.+..++.... .+.|+++.+||.|+...-.
T Consensus        81 Y~~~t~~lIfVvDS~Dr~Ri~eak~eL~~~l~~~~l~~~~llv~aNKqD~~~als  135 (181)
T KOG0070|consen   81 YFQNTQGLIFVVDSSDRERIEEAKEELHRMLAEPELRNAPLLVFANKQDLPGALS  135 (181)
T ss_pred             hccCCcEEEEEEeCCcHHHHHHHHHHHHHHHcCcccCCceEEEEechhhccccCC
Confidence            89999999999999983  3455566666655443 6799999999999975543

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=99.35  E-value=1.4e-11  Score=111.13  Aligned_cols=121  Identities=19%  Similarity=0.214  Sum_probs=73.4

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCcccc--ccCCCCceEEEEEE--------------------EEec------CCeeE
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSI--VTNKPQTTRHRILG--------------------ICSG------PEYQM  165 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~--~~~~~~tt~~~~~~--------------------~~~~------~~~~~  165 (254)
                      +..+++++|..++|||||++.+.+.....  .....+.|......                    .++.      ....+
T Consensus         3 ~~~~i~iiG~~~~GKSTL~~~Lt~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i   82 (406)
T TIGR03680         3 PEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELKRGISIRLGYADAEIYKCPECDGPECYTTEPVCPNCGSETELLRRV   82 (406)
T ss_pred             ceEEEEEEccCCCCHHHHHHHHhCeecccCHhHHHcCceeEecccccccccccccCccccccccccccccccccccccEE
Confidence            34579999999999999999997542210  01111222111100                    0011      24679


Q ss_pred             EEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCc--hhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          166 ILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAP--ERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       166 ~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~--~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      .+|||||..         .+...+...+..+|++++|+|++++.  ....+.+. .+... ...|+++|+||+|+.+.+.
T Consensus        83 ~liDtPGh~---------~f~~~~~~g~~~aD~aIlVVDa~~g~~~~qt~e~l~-~l~~~-gi~~iIVvvNK~Dl~~~~~  151 (406)
T TIGR03680        83 SFVDAPGHE---------TLMATMLSGAALMDGALLVIAANEPCPQPQTKEHLM-ALEII-GIKNIVIVQNKIDLVSKEK  151 (406)
T ss_pred             EEEECCCHH---------HHHHHHHHHHHHCCEEEEEEECCCCccccchHHHHH-HHHHc-CCCeEEEEEEccccCCHHH
Confidence            999999942         23344555677899999999999753  22223332 22222 2247999999999987655


Q ss_pred             HH
Q 025346          244 IA  245 (254)
Q Consensus       244 ~~  245 (254)
                      ..
T Consensus       152 ~~  153 (406)
T TIGR03680       152 AL  153 (406)
T ss_pred             HH
Confidence            43

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

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

Probab=99.34  E-value=9.1e-12  Score=118.31  Aligned_cols=118  Identities=24%  Similarity=0.225  Sum_probs=77.2

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccc----------cCCC----------------------CceEEEEEEEEec
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIV----------TNKP----------------------QTTRHRILGICSG  160 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~----------~~~~----------------------~tt~~~~~~~~~~  160 (254)
                      ....+++++|.+++|||||+++++...-...          +...                      +.|.+.....+..
T Consensus        22 ~~~~~i~iiGh~~~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~tr~~~~~~~~~d~~~~E~~rg~Tid~~~~~~~~  101 (632)
T PRK05506         22 KSLLRFITCGSVDDGKSTLIGRLLYDSKMIFEDQLAALERDSKKVGTQGDEIDLALLVDGLAAEREQGITIDVAYRYFAT  101 (632)
T ss_pred             CCeeEEEEECCCCCChHHHHHHHHHHhCCcCHHHHHHHHHHHHhcCCCCCcceeeeeccCCHHHHhCCcCceeeeeEEcc
Confidence            3345799999999999999999986542211          1112                      3344444556667


Q ss_pred             CCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          161 PEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       161 ~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      .+.++.++||||+.+         +.......+..+|++++|+|+..+..........+.... ...|+++|+||+|+..
T Consensus       102 ~~~~~~liDtPG~~~---------f~~~~~~~~~~aD~~llVvda~~g~~~~t~e~~~~~~~~-~~~~iivvvNK~D~~~  171 (632)
T PRK05506        102 PKRKFIVADTPGHEQ---------YTRNMVTGASTADLAIILVDARKGVLTQTRRHSFIASLL-GIRHVVLAVNKMDLVD  171 (632)
T ss_pred             CCceEEEEECCChHH---------HHHHHHHHHHhCCEEEEEEECCCCccccCHHHHHHHHHh-CCCeEEEEEEeccccc
Confidence            778899999999422         112233447899999999999876543322222222222 1257899999999985

>PF00350 Dynamin_N: Dynamin family; InterPro: IPR001401 Membrane transport between compartments in eukaryotic cells requires proteins that allow the budding and scission of nascent cargo vesicles from one compartment and their targeting and fusion with another

Probab=99.34  E-value=2e-11  Score=96.56  Aligned_cols=112  Identities=29%  Similarity=0.318  Sum_probs=70.3

Q ss_pred             EEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEE----------------------------------------
Q 025346          118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGI----------------------------------------  157 (254)
Q Consensus       118 ~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~----------------------------------------  157 (254)
                      |+++|..++|||||+|.+++.++...+..+.|.......+                                        
T Consensus         1 V~v~G~~ssGKSTliNaLlG~~ilp~~~~~~T~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (168)
T PF00350_consen    1 VAVVGQFSSGKSTLINALLGRPILPSGVGPCTAVPTEISYGDEPEIEHEEAIIEFKDGSEEFEELNELREQIDEEFDSIE   80 (168)
T ss_dssp             EEEEEBTTSSHHHHHHHHHTSS-SSSSSSSTTSSEEEEEEEESSSCCTSEEEECEEEETEEBCCHHHHHHHHHHHHHHHH
T ss_pred             CEEEcCCCCCHHHHHHHHHhcccCcccccccccceeEEEecccCccccccccccccccccchhhHHHHHHhhhccccccc
Confidence            6899999999999999999987654444433321111000                                        


Q ss_pred             ---------------EecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhH-HHHHHHhhc
Q 025346          158 ---------------CSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERI-DEILEEGVG  221 (254)
Q Consensus       158 ---------------~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~-~~~~~~~~~  221 (254)
                                     .......+.|+||||+.+......     +.+..++..+|+++||+++....... ...+.....
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~lvDtPG~~~~~~~~~-----~~~~~~~~~~d~vi~V~~~~~~~~~~~~~~l~~~~~  155 (168)
T PF00350_consen   81 GKLEQISSKVIVISISSPLLRNLTLVDTPGLNSTNSEHT-----EITEEYLPKADVVIFVVDANQDLTESDMEFLKQMLD  155 (168)
T ss_dssp             TSSS-S-SSEEEEEEEETTSCSEEEEEEEEBHSSHTTTS-----HHHHHHHSTTEEEEEEEETTSTGGGHHHHHHHHHHT
T ss_pred             ccccccccceeEEeeccccccceEEEeCCccccchhhhH-----HHHHHhhccCCEEEEEeccCcccchHHHHHHHHHhc
Confidence                           011224699999999865322111     34556679999999999999865533 333444343


Q ss_pred             ccCCCCCEEEEEecC
Q 025346          222 DHKDKLPILLVLNKK  236 (254)
Q Consensus       222 ~~~~~~piivV~nK~  236 (254)
                      .  ....+++|.||+
T Consensus       156 ~--~~~~~i~V~nk~  168 (168)
T PF00350_consen  156 P--DKSRTIFVLNKA  168 (168)
T ss_dssp             T--TCSSEEEEEE-G
T ss_pred             C--CCCeEEEEEcCC
Confidence            2  234599999995

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 ....

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

Probab=99.34  E-value=1.7e-12  Score=104.09  Aligned_cols=116  Identities=20%  Similarity=0.235  Sum_probs=84.8

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEE--EEE-ecCCeeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRIL--GIC-SGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~--~~~-~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      ..+++++|..++|||+|+..+....++  ..+.+|.-+...  ..+ ++..+.+.+|||+|  ++.+..++..       
T Consensus         4 ~~K~VvVGDga~GKT~ll~~~t~~~fp--~~yvPTVFdnys~~v~V~dg~~v~L~LwDTAG--qedYDrlRpl-------   72 (198)
T KOG0393|consen    4 RIKCVVVGDGAVGKTCLLISYTTNAFP--EEYVPTVFDNYSANVTVDDGKPVELGLWDTAG--QEDYDRLRPL-------   72 (198)
T ss_pred             eeEEEEECCCCcCceEEEEEeccCcCc--ccccCeEEccceEEEEecCCCEEEEeeeecCC--Cccccccccc-------
Confidence            468999999999999999999988774  444444433332  334 35667899999999  4444443321       


Q ss_pred             HccCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          192 AGINADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      .+..+|++++++++.+  +++++...|..-++.+.++.|+++|++|.||.+.
T Consensus        73 sY~~tdvfl~cfsv~~p~S~~nv~~kW~pEi~~~cp~vpiiLVGtk~DLr~d  124 (198)
T KOG0393|consen   73 SYPQTDVFLLCFSVVSPESFENVKSKWIPEIKHHCPNVPIILVGTKADLRDD  124 (198)
T ss_pred             CCCCCCEEEEEEEcCChhhHHHHHhhhhHHHHhhCCCCCEEEEeehHHhhhC
Confidence            3788999999999877  4566555555556667799999999999999854

>PRK13351 elongation factor G; Reviewed

Probab=99.33  E-value=1.5e-11  Score=118.03  Aligned_cols=117  Identities=23%  Similarity=0.265  Sum_probs=79.1

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccc-----cc------cC------CCCceEEEEEEEEecCCeeEEEEecCCCccc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLS-----IV------TN------KPQTTRHRILGICSGPEYQMILYDTPGIIEK  176 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~-----~~------~~------~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~  176 (254)
                      ..++|+++|..++|||||+++++...-.     .+      .+      ..+.|.......+.+.+..+.+|||||..+.
T Consensus         7 ~irni~iiG~~~~GKTtL~~~ll~~~g~~~~~~~v~~~~~~~d~~~~e~~r~~ti~~~~~~~~~~~~~i~liDtPG~~df   86 (687)
T PRK13351          7 QIRNIGILAHIDAGKTTLTERILFYTGKIHKMGEVEDGTTVTDWMPQEQERGITIESAATSCDWDNHRINLIDTPGHIDF   86 (687)
T ss_pred             cccEEEEECCCCCcchhHHHHHHHhcCCccccccccCCcccCCCCHHHHhcCCCcccceEEEEECCEEEEEEECCCcHHH
Confidence            4578999999999999999999853210     00      00      1223333334456677899999999995432


Q ss_pred             chhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          177 KIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       177 ~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                               ...+...+..+|++++|+|++++.............  ..++|+++|+||+|+...
T Consensus        87 ---------~~~~~~~l~~aD~~ilVvd~~~~~~~~~~~~~~~~~--~~~~p~iiviNK~D~~~~  140 (687)
T PRK13351         87 ---------TGEVERSLRVLDGAVVVFDAVTGVQPQTETVWRQAD--RYGIPRLIFINKMDRVGA  140 (687)
T ss_pred             ---------HHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHH--hcCCCEEEEEECCCCCCC
Confidence                     233455678999999999998865433322222222  246899999999999864

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

Probab=99.32  E-value=2.7e-11  Score=109.38  Aligned_cols=121  Identities=19%  Similarity=0.166  Sum_probs=72.9

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccc--cccCCCCceEEEEEEE--------------E------ec------CCee
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLS--IVTNKPQTTRHRILGI--------------C------SG------PEYQ  164 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~--~~~~~~~tt~~~~~~~--------------~------~~------~~~~  164 (254)
                      .+..+++++|+.++|||||+..+.+....  ......+.|.......              +      +.      ....
T Consensus         7 ~~~~ni~v~Gh~d~GKSTL~~~L~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (411)
T PRK04000          7 QPEVNIGMVGHVDHGKTTLVQALTGVWTDRHSEELKRGITIRLGYADATIRKCPDCEEPEAYTTEPKCPNCGSETELLRR   86 (411)
T ss_pred             CCcEEEEEEccCCCCHHHHHHHhhCeecccCHhHHhcCcEEEecccccccccccccCccccccccccccccccccccccE
Confidence            44568999999999999999998653111  0111223343321110              0      00      0257


Q ss_pred             EEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCc-hhH-HHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          165 MILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAP-ERI-DEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       165 ~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~-~~~-~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      +.+|||||..         .+...+...+..+|++++|+|++++. ... ...+. .+... ...|+++|+||+|+.+.+
T Consensus        87 i~liDtPG~~---------~f~~~~~~~~~~~D~~llVVDa~~~~~~~~t~~~l~-~l~~~-~i~~iiVVlNK~Dl~~~~  155 (411)
T PRK04000         87 VSFVDAPGHE---------TLMATMLSGAALMDGAILVIAANEPCPQPQTKEHLM-ALDII-GIKNIVIVQNKIDLVSKE  155 (411)
T ss_pred             EEEEECCCHH---------HHHHHHHHHHhhCCEEEEEEECCCCCCChhHHHHHH-HHHHc-CCCcEEEEEEeeccccch
Confidence            9999999932         22334445567789999999999753 222 22222 22211 224799999999998765


Q ss_pred             hH
Q 025346          243 EI  244 (254)
Q Consensus       243 ~~  244 (254)
                      +.
T Consensus       156 ~~  157 (411)
T PRK04000        156 RA  157 (411)
T ss_pred             hH
Confidence            43

>KOG0090 consensus Signal recognition particle receptor, beta subunit (small G protein superfamily) [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.31  E-value=1.4e-11  Score=98.70  Aligned_cols=117  Identities=25%  Similarity=0.279  Sum_probs=79.2

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      ++.++++|+.++|||+|..++..+...    ...|......+.+......+.++|.||.         ...+.....++.
T Consensus        38 ~~~Vll~Gl~dSGKT~LF~qL~~gs~~----~TvtSiepn~a~~r~gs~~~~LVD~PGH---------~rlR~kl~e~~~  104 (238)
T KOG0090|consen   38 QNAVLLVGLSDSGKTSLFTQLITGSHR----GTVTSIEPNEATYRLGSENVTLVDLPGH---------SRLRRKLLEYLK  104 (238)
T ss_pred             CCcEEEEecCCCCceeeeeehhcCCcc----CeeeeeccceeeEeecCcceEEEeCCCc---------HHHHHHHHHHcc
Confidence            357999999999999999999876321    2222333334444445556899999993         223344445555


Q ss_pred             ---CccEEEEEEeCCCCc---hhHHHHHHHhhccc---CCCCCEEEEEecCCCCChHhH
Q 025346          195 ---NADCIVVLVDACKAP---ERIDEILEEGVGDH---KDKLPILLVLNKKDLIKPGEI  244 (254)
Q Consensus       195 ---~~d~iv~vid~~~~~---~~~~~~~~~~~~~~---~~~~piivV~nK~Dl~~~~~~  244 (254)
                         .+.+||||+|+....   ....+.+..++...   ...+|+++++||.|+.....-
T Consensus       105 ~~~~akaiVFVVDSa~f~k~vrdvaefLydil~~~~~~~~~~~vLIaCNKqDl~tAkt~  163 (238)
T KOG0090|consen  105 HNYSAKAIVFVVDSATFLKNVRDVAEFLYDILLDSRVKKNKPPVLIACNKQDLFTAKTA  163 (238)
T ss_pred             ccccceeEEEEEeccccchhhHHHHHHHHHHHHhhccccCCCCEEEEecchhhhhcCcH
Confidence               799999999997744   34445555554433   456899999999999765433

>TIGR00993 3a0901s04IAP86 chloroplast protein import component Toc86/159, G and M domains

Probab=99.31  E-value=5.4e-11  Score=110.28  Aligned_cols=128  Identities=17%  Similarity=0.085  Sum_probs=84.5

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCC-CCceEEEEEEEEecCCeeEEEEecCCCcccchhh-hhHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNK-PQTTRHRILGICSGPEYQMILYDTPGIIEKKIHM-LDSMMMKNVR  190 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~-~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~-~~~~~~~~~~  190 (254)
                      ....+|+++|.+|+||||++|.+++.+...+... +.||. .........+..+.+|||||+.+..... ........+.
T Consensus       116 dfslrIvLVGKTGVGKSSLINSILGekvf~vss~~~~TTr-~~ei~~~idG~~L~VIDTPGL~dt~~dq~~neeILk~Ik  194 (763)
T TIGR00993       116 DFSLNILVLGKSGVGKSATINSIFGEVKFSTDAFGMGTTS-VQEIEGLVQGVKIRVIDTPGLKSSASDQSKNEKILSSVK  194 (763)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhccccccccCCCCCceE-EEEEEEEECCceEEEEECCCCCccccchHHHHHHHHHHH
Confidence            3456899999999999999999999876555554 45554 3333334457889999999998754322 2223334444


Q ss_pred             HHcc--CccEEEEEEeCCCCch--hHHHHHHHhhcccCC--CCCEEEEEecCCCCCh
Q 025346          191 SAGI--NADCIVVLVDACKAPE--RIDEILEEGVGDHKD--KLPILLVLNKKDLIKP  241 (254)
Q Consensus       191 ~~~~--~~d~iv~vid~~~~~~--~~~~~~~~~~~~~~~--~~piivV~nK~Dl~~~  241 (254)
                      .++.  .+|+|+||........  .....+..+...++.  -..+|||.|..|...+
T Consensus       195 ~~Lsk~gpDVVLlV~RLd~~~~D~eD~~aLr~Iq~lFG~~Iwk~tIVVFThgD~lpp  251 (763)
T TIGR00993       195 KFIKKNPPDIVLYVDRLDMQTRDSNDLPLLRTITDVLGPSIWFNAIVTLTHAASAPP  251 (763)
T ss_pred             HHHhcCCCCEEEEEEeCCCccccHHHHHHHHHHHHHhCHHhHcCEEEEEeCCccCCC
Confidence            4433  5899999987754222  222344444444443  3579999999999974

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.

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

Probab=99.30  E-value=6.1e-13  Score=98.72  Aligned_cols=115  Identities=19%  Similarity=0.215  Sum_probs=83.8

Q ss_pred             EEeCCCCChHHHHHHHhcCccccccCCCCce-EEEEEE--EEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCc
Q 025346          120 VLGKPNVGKSTLANQMIGQKLSIVTNKPQTT-RHRILG--ICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINA  196 (254)
Q Consensus       120 ~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt-~~~~~~--~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~  196 (254)
                      ++|.+++|||.|+-++-...+- ..+...|. .+....  ..+...+++++|||+|  +++       ++.-+.+|++.+
T Consensus         2 llgds~~gktcllir~kdgafl-~~~fistvgid~rnkli~~~~~kvklqiwdtag--qer-------frsvt~ayyrda   71 (192)
T KOG0083|consen    2 LLGDSCTGKTCLLIRFKDGAFL-AGNFISTVGIDFRNKLIDMDDKKVKLQIWDTAG--QER-------FRSVTHAYYRDA   71 (192)
T ss_pred             ccccCccCceEEEEEeccCcee-cCceeeeeeeccccceeccCCcEEEEEEeeccc--hHH-------HhhhhHhhhccc
Confidence            5799999999999887766553 12222111 111111  2344567899999999  443       334466789999


Q ss_pred             cEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhH
Q 025346          197 DCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEI  244 (254)
Q Consensus       197 d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~  244 (254)
                      |++++++|+.+  +++....|+.++.........+.+++||||+.+++.+
T Consensus        72 ~allllydiankasfdn~~~wlsei~ey~k~~v~l~llgnk~d~a~er~v  121 (192)
T KOG0083|consen   72 DALLLLYDIANKASFDNCQAWLSEIHEYAKEAVALMLLGNKCDLAHERAV  121 (192)
T ss_pred             ceeeeeeecccchhHHHHHHHHHHHHHHHHhhHhHhhhccccccchhhcc
Confidence            99999999987  7889999999887776677889999999999876544

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

Probab=99.30  E-value=4.5e-11  Score=90.86  Aligned_cols=124  Identities=24%  Similarity=0.273  Sum_probs=86.6

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecC---CeeEEEEecCCCcccchhhhhHHHHHHHH
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGP---EYQMILYDTPGIIEKKIHMLDSMMMKNVR  190 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~---~~~~~liDtpG~~~~~~~~~~~~~~~~~~  190 (254)
                      +..+++++|..++|||+++..++...-.......+|..+.+...++.+   ...+.+.||.|+.+...        +--.
T Consensus         8 k~~kVvVcG~k~VGKTaileQl~yg~~~~~~e~~pTiEDiY~~svet~rgarE~l~lyDTaGlq~~~~--------eLpr   79 (198)
T KOG3883|consen    8 KVCKVVVCGMKSVGKTAILEQLLYGNHVPGTELHPTIEDIYVASVETDRGAREQLRLYDTAGLQGGQQ--------ELPR   79 (198)
T ss_pred             cceEEEEECCccccHHHHHHHHHhccCCCCCccccchhhheeEeeecCCChhheEEEeecccccCchh--------hhhH
Confidence            456899999999999999999987665445555566666666655432   34689999999865421        2234


Q ss_pred             HHccCccEEEEEEeCCCC--chhHHHHHHHhhcc-cCCCCCEEEEEecCCCCChHhHH
Q 025346          191 SAGINADCIVVLVDACKA--PERIDEILEEGVGD-HKDKLPILLVLNKKDLIKPGEIA  245 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~-~~~~~piivV~nK~Dl~~~~~~~  245 (254)
                      .|+.-+|+.++|++..+.  +..+...-.++-+. ....+||++++||+|+.++.++.
T Consensus        80 hy~q~aDafVLVYs~~d~eSf~rv~llKk~Idk~KdKKEvpiVVLaN~rdr~~p~~vd  137 (198)
T KOG3883|consen   80 HYFQFADAFVLVYSPMDPESFQRVELLKKEIDKHKDKKEVPIVVLANKRDRAEPREVD  137 (198)
T ss_pred             hHhccCceEEEEecCCCHHHHHHHHHHHHHHhhccccccccEEEEechhhcccchhcC
Confidence            567889999999999873  33333222222221 23568999999999998776654

>KOG0074 consensus GTP-binding ADP-ribosylation factor-like protein ARL3 [General function prediction only]

Probab=99.29  E-value=1.6e-11  Score=92.11  Aligned_cols=124  Identities=20%  Similarity=0.319  Sum_probs=87.5

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      ..+..+++++|-.++|||||++.+.+.+..   ...+|........-......+.+||..|  +..   +    +.-|..
T Consensus        14 t~rEirilllGldnAGKTT~LKqL~sED~~---hltpT~GFn~k~v~~~g~f~LnvwDiGG--qr~---I----RpyWsN   81 (185)
T KOG0074|consen   14 TRREIRILLLGLDNAGKTTFLKQLKSEDPR---HLTPTNGFNTKKVEYDGTFHLNVWDIGG--QRG---I----RPYWSN   81 (185)
T ss_pred             CcceEEEEEEecCCCcchhHHHHHccCChh---hccccCCcceEEEeecCcEEEEEEecCC--ccc---c----chhhhh
Confidence            345568999999999999999999987653   2222222222222233458999999999  322   2    234678


Q ss_pred             HccCccEEEEEEeCCC--CchhHHHHHHHhhcccC-CCCCEEEEEecCCCCChHhHHHH
Q 025346          192 AGINADCIVVLVDACK--APERIDEILEEGVGDHK-DKLPILLVLNKKDLIKPGEIAKK  247 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~-~~~piivV~nK~Dl~~~~~~~~~  247 (254)
                      |+.+.|.+|||+|+++  .++++.+.+-+++...+ ...|+.+..||.|++.+..+++.
T Consensus        82 Yyenvd~lIyVIDS~D~krfeE~~~el~ELleeeKl~~vpvlIfankQdlltaa~~eei  140 (185)
T KOG0074|consen   82 YYENVDGLIYVIDSTDEKRFEEISEELVELLEEEKLAEVPVLIFANKQDLLTAAKVEEI  140 (185)
T ss_pred             hhhccceEEEEEeCCchHhHHHHHHHHHHHhhhhhhhccceeehhhhhHHHhhcchHHH
Confidence            8999999999999876  45666666666655433 56899999999999877555543

>PRK05433 GTP-binding protein LepA; Provisional

Probab=99.29  E-value=4.7e-11  Score=112.35  Aligned_cols=116  Identities=25%  Similarity=0.283  Sum_probs=74.9

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCcccc--------cc------CCCCceEEEEEEEE-----ecCCeeEEEEecCCCc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSI--------VT------NKPQTTRHRILGIC-----SGPEYQMILYDTPGII  174 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~--------~~------~~~~tt~~~~~~~~-----~~~~~~~~liDtpG~~  174 (254)
                      ..++++++|+.++|||||+.+++...-..        ..      ...+.|.......+     ++....+.+|||||+.
T Consensus         6 ~iRNi~IiGhvd~GKTTL~~rLl~~tg~i~~~~~~~~~lD~~~~ErerGiTi~~~~v~~~~~~~dg~~~~lnLiDTPGh~   85 (600)
T PRK05433          6 NIRNFSIIAHIDHGKSTLADRLIELTGTLSEREMKAQVLDSMDLERERGITIKAQAVRLNYKAKDGETYILNLIDTPGHV   85 (600)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHhcCCCcccccccccccCchHHhhcCCcccccEEEEEEEccCCCcEEEEEEECCCcH
Confidence            45689999999999999999998632110        00      11123322222222     3346789999999964


Q ss_pred             ccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHH-HHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          175 EKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDE-ILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       175 ~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~-~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      +..         ..+..++..+|++++|+|++++.+.... .+....   ..++|+++|+||+|+...
T Consensus        86 dF~---------~~v~~sl~~aD~aILVVDas~gv~~qt~~~~~~~~---~~~lpiIvViNKiDl~~a  141 (600)
T PRK05433         86 DFS---------YEVSRSLAACEGALLVVDASQGVEAQTLANVYLAL---ENDLEIIPVLNKIDLPAA  141 (600)
T ss_pred             HHH---------HHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHH---HCCCCEEEEEECCCCCcc
Confidence            422         3344557789999999999986543322 222221   246899999999999653

>smart00053 DYNc Dynamin, GTPase

Probab=99.29  E-value=9.3e-11  Score=98.00  Aligned_cols=127  Identities=19%  Similarity=0.187  Sum_probs=78.8

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEE--------------------------------------
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRI--------------------------------------  154 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~--------------------------------------  154 (254)
                      ...+.++++|+.|+||||+++.+.+..+...... ..|+.+.                                      
T Consensus        24 i~~p~i~vvG~~~~GKSt~l~~i~g~~~~~~~~g-~~t~~p~~i~l~~~~~~~~~~~~~~~~~~~~~~~v~~~i~~~~~~  102 (240)
T smart00053       24 LDLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSG-IVTRRPLILQLINSSTEYAEFLHCKGKKFTDFDEVRNEIEAETDR  102 (240)
T ss_pred             CCCCeEEEEcCCCccHHHHHHHHhCCCccccCCC-cccccceEEEccCCCCcceEEEecCCcccCCHHHHHHHHHHHHHH
Confidence            4456899999999999999999998753211110 1110000                                      


Q ss_pred             -------------EEEEe-cCCeeEEEEecCCCcccc----hhhhhHHHHHHHHHHcc-CccEEEEEEeCCCCchhHH-H
Q 025346          155 -------------LGICS-GPEYQMILYDTPGIIEKK----IHMLDSMMMKNVRSAGI-NADCIVVLVDACKAPERID-E  214 (254)
Q Consensus       155 -------------~~~~~-~~~~~~~liDtpG~~~~~----~~~~~~~~~~~~~~~~~-~~d~iv~vid~~~~~~~~~-~  214 (254)
                                   .-.+. .....+.++||||+....    .........+....++. ..++|++|+|+........ .
T Consensus       103 ~~~~~~~~s~~~i~l~i~~p~~~~ltLIDlPGl~~~~~~~~~~~~~~~i~~lv~~yi~~~~~IIL~Vvda~~d~~~~d~l  182 (240)
T smart00053      103 VTGTNKGISPVPINLRVYSPHVLNLTLIDLPGITKVAVGDQPPDIEEQIKDMIKQFISKEECLILAVTPANVDLANSDAL  182 (240)
T ss_pred             hcCCCCcccCcceEEEEeCCCCCceEEEeCCCccccccCCccHHHHHHHHHHHHHHHhCccCeEEEEEECCCCCCchhHH
Confidence                         00001 112569999999996431    12333445456777777 4569999999877554433 1


Q ss_pred             HHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          215 ILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       215 ~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      .+...+.  ..+.|+++|+||+|..++.
T Consensus       183 ~ia~~ld--~~~~rti~ViTK~D~~~~~  208 (240)
T smart00053      183 KLAKEVD--PQGERTIGVITKLDLMDEG  208 (240)
T ss_pred             HHHHHHH--HcCCcEEEEEECCCCCCcc
Confidence            2222222  3568999999999998754

Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.

>KOG1707 consensus Predicted Ras related/Rac-GTP binding protein [Defense mechanisms]

Probab=99.28  E-value=2.4e-11  Score=110.03  Aligned_cols=121  Identities=19%  Similarity=0.200  Sum_probs=85.2

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCC-ceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQ-TTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~-tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      .+..+|+++|..|+||||||..++..++.  ...|. -....+...+..+..+..++||+.-.+..         ..+.+
T Consensus         7 ~kdVRIvliGD~G~GKtSLImSL~~eef~--~~VP~rl~~i~IPadvtPe~vpt~ivD~ss~~~~~---------~~l~~   75 (625)
T KOG1707|consen    7 LKDVRIVLIGDEGVGKTSLIMSLLEEEFV--DAVPRRLPRILIPADVTPENVPTSIVDTSSDSDDR---------LCLRK   75 (625)
T ss_pred             ccceEEEEECCCCccHHHHHHHHHhhhcc--ccccccCCccccCCccCcCcCceEEEecccccchh---------HHHHH
Confidence            45578999999999999999999998874  22222 11222234445566779999998632221         34456


Q ss_pred             HccCccEEEEEEeCCC--CchhHHHHHHHhhcccC---CCCCEEEEEecCCCCChHhH
Q 025346          192 AGINADCIVVLVDACK--APERIDEILEEGVGDHK---DKLPILLVLNKKDLIKPGEI  244 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~---~~~piivV~nK~Dl~~~~~~  244 (254)
                      .++.||+|++|+..++  ..+.+...|..+++...   .++|+|+|+||+|.......
T Consensus        76 EirkA~vi~lvyavd~~~T~D~ist~WLPlir~~~~~~~~~PVILvGNK~d~~~~~~~  133 (625)
T KOG1707|consen   76 EIRKADVICLVYAVDDESTVDRISTKWLPLIRQLFGDYHETPVILVGNKSDNGDNENN  133 (625)
T ss_pred             HHhhcCEEEEEEecCChHHhhhhhhhhhhhhhcccCCCccCCEEEEeeccCCcccccc
Confidence            6899999999998877  34555555555555555   78999999999999865443

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

Probab=99.28  E-value=3.4e-12  Score=97.53  Aligned_cols=119  Identities=19%  Similarity=0.225  Sum_probs=82.0

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEE----EEEEEEe---------cCCeeEEEEecCCCcccchhhhhH
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRH----RILGICS---------GPEYQMILYDTPGIIEKKIHMLDS  183 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~----~~~~~~~---------~~~~~~~liDtpG~~~~~~~~~~~  183 (254)
                      +.+.+|.+|+||||++.++...++..  .. .+|..    .....++         ...+.+++|||+|  ++++.++  
T Consensus        11 kfLaLGDSGVGKTs~Ly~YTD~~F~~--qF-IsTVGIDFreKrvvY~s~gp~g~gr~~rihLQlWDTAG--QERFRSL--   83 (219)
T KOG0081|consen   11 KFLALGDSGVGKTSFLYQYTDGKFNT--QF-ISTVGIDFREKRVVYNSSGPGGGGRGQRIHLQLWDTAG--QERFRSL--   83 (219)
T ss_pred             HHHhhccCCCCceEEEEEecCCcccc--ee-EEEeecccccceEEEeccCCCCCCcceEEEEeeecccc--HHHHHHH--
Confidence            46778999999999999998877631  11 11110    0011111         1125699999999  5544443  


Q ss_pred             HHHHHHHHHccCccEEEEEEeCCC--CchhHHHHHHHhhcccC-CCCCEEEEEecCCCCChHhHHHH
Q 025346          184 MMMKNVRSAGINADCIVVLVDACK--APERIDEILEEGVGDHK-DKLPILLVLNKKDLIKPGEIAKK  247 (254)
Q Consensus       184 ~~~~~~~~~~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~-~~~piivV~nK~Dl~~~~~~~~~  247 (254)
                           +.+.++.|-+.++++|.++  ++-++..|+..+..... .+.-+++++||+||.+.+++++.
T Consensus        84 -----TTAFfRDAMGFlLiFDlT~eqSFLnvrnWlSQL~~hAYcE~PDivlcGNK~DL~~~R~Vs~~  145 (219)
T KOG0081|consen   84 -----TTAFFRDAMGFLLIFDLTSEQSFLNVRNWLSQLQTHAYCENPDIVLCGNKADLEDQRVVSED  145 (219)
T ss_pred             -----HHHHHHhhccceEEEeccchHHHHHHHHHHHHHHHhhccCCCCEEEEcCccchhhhhhhhHH
Confidence                 4456888999999999987  66777888877554332 45669999999999999888654

>PF00735 Septin: Septin; InterPro: IPR000038 Septins constitute a eukaryotic family of guanine nucleotide-binding proteins, most of which polymerise to form filaments []

Probab=99.27  E-value=1e-10  Score=100.24  Aligned_cols=133  Identities=15%  Similarity=0.208  Sum_probs=77.2

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCcccccc-CCC-------Cce-EEEEEEEEe--cCCeeEEEEecCCCcccch-----h
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVT-NKP-------QTT-RHRILGICS--GPEYQMILYDTPGIIEKKI-----H  179 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~-~~~-------~tt-~~~~~~~~~--~~~~~~~liDtpG~~~~~~-----~  179 (254)
                      .+++++|.+|+|||||+|.|++....... ..+       .+. .........  +....++++||||+++...     .
T Consensus         5 fnImVvG~sG~GKTTFIntL~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~l~LtiiDTpGfGd~i~n~~~~~   84 (281)
T PF00735_consen    5 FNIMVVGESGLGKTTFINTLFNSDIISEDSSIPPPSASISRTLEIEERTVELEENGVKLNLTIIDTPGFGDNIDNSDCWE   84 (281)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHTSS---------S------SCEEEEEEEEEEEETCEEEEEEEEEEC-CSSSSTHCHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHhcccccccccccccccccccccceeeEEEEeccCCcceEEEEEeCCCccccccchhhhH
Confidence            47999999999999999999987654332 111       111 111122222  2345799999999876431     1


Q ss_pred             hhhHHHHHHHHHHc-------------cCccEEEEEEeCCC-CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHH
Q 025346          180 MLDSMMMKNVRSAG-------------INADCIVVLVDACK-APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIA  245 (254)
Q Consensus       180 ~~~~~~~~~~~~~~-------------~~~d~iv~vid~~~-~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~  245 (254)
                      .+.....+++..++             ...|+++|+++.+. +....+-....   ......++|-|+.|+|.+.++++.
T Consensus        85 ~I~~yI~~qf~~~l~eE~~~~R~~~~D~RVH~cLYfI~pt~~~L~~~Di~~mk---~Ls~~vNvIPvIaKaD~lt~~el~  161 (281)
T PF00735_consen   85 PIVDYIESQFDSYLEEESKINRPRIEDTRVHACLYFIPPTGHGLKPLDIEFMK---RLSKRVNVIPVIAKADTLTPEELQ  161 (281)
T ss_dssp             HHHHHHHHHHHHHHHHHTSSS-TTS----EEEEEEEE-TTSSSS-HHHHHHHH---HHTTTSEEEEEESTGGGS-HHHHH
T ss_pred             HHHHHHHHHHHHHHHHhhcccccCcCCCCcceEEEEEcCCCccchHHHHHHHH---HhcccccEEeEEecccccCHHHHH
Confidence            22222222222221             25799999999864 55555543333   234568899999999999999987


Q ss_pred             HHHHHH
Q 025346          246 KKLEVT  251 (254)
Q Consensus       246 ~~~~~~  251 (254)
                      .....+
T Consensus       162 ~~k~~i  167 (281)
T PF00735_consen  162 AFKQRI  167 (281)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            665544

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.

>KOG0071 consensus GTP-binding ADP-ribosylation factor Arf6 (dArf3) [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.26  E-value=1e-10  Score=87.64  Aligned_cols=120  Identities=18%  Similarity=0.178  Sum_probs=85.6

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      ..+++.+|-.++||||++..+.-....  ...  .|..-....+.+.+..+.+||..|  +..       .+.-|..|+.
T Consensus        17 E~~ilmlGLd~aGKTtiLyKLkl~~~~--~~i--pTvGFnvetVtykN~kfNvwdvGG--qd~-------iRplWrhYy~   83 (180)
T KOG0071|consen   17 EMRILMLGLDAAGKTTILYKLKLGQSV--TTI--PTVGFNVETVTYKNVKFNVWDVGG--QDK-------IRPLWRHYYT   83 (180)
T ss_pred             cceEEEEecccCCceehhhHHhcCCCc--ccc--cccceeEEEEEeeeeEEeeeeccC--chh-------hhHHHHhhcc
Confidence            457999999999999999998765432  222  222333455677889999999999  322       2245678899


Q ss_pred             CccEEEEEEeCCCC--chhHHHHHHHhhcccC-CCCCEEEEEecCCCCChHhHHHH
Q 025346          195 NADCIVVLVDACKA--PERIDEILEEGVGDHK-DKLPILLVLNKKDLIKPGEIAKK  247 (254)
Q Consensus       195 ~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~-~~~piivV~nK~Dl~~~~~~~~~  247 (254)
                      +..++|||+|+.++  .++.+..+..++.... .+.|++|.+||.|+.+.....+.
T Consensus        84 gtqglIFV~Dsa~~dr~eeAr~ELh~ii~~~em~~~~~LvlANkQDlp~A~~pqei  139 (180)
T KOG0071|consen   84 GTQGLIFVVDSADRDRIEEARNELHRIINDREMRDAIILILANKQDLPDAMKPQEI  139 (180)
T ss_pred             CCceEEEEEeccchhhHHHHHHHHHHHhCCHhhhcceEEEEecCcccccccCHHHH
Confidence            99999999999774  3445555555555432 56899999999999766444443

>cd01882 BMS1 Bms1

Probab=99.26  E-value=1.8e-10  Score=95.84  Aligned_cols=111  Identities=23%  Similarity=0.292  Sum_probs=73.0

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCcc-ccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHH
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQKL-SIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVR  190 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~~-~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~  190 (254)
                      ...+..++++|.+|+|||||++.+.+... .......++    + ......+.++.++||||..            ....
T Consensus        36 ~~~~~~i~ivG~~~~GKstl~~~l~~~~~~~~~~~~~g~----i-~i~~~~~~~i~~vDtPg~~------------~~~l   98 (225)
T cd01882          36 EPPPLVVAVVGPPGVGKTTLIKSLVKNYTKQNISDIKGP----I-TVVTGKKRRLTFIECPNDI------------NAMI   98 (225)
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHHhhcccCcccccccc----E-EEEecCCceEEEEeCCchH------------HHHH
Confidence            45567899999999999999999986521 112222221    1 1123457789999999832            1222


Q ss_pred             HHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCE-EEEEecCCCCCh
Q 025346          191 SAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPI-LLVLNKKDLIKP  241 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~pi-ivV~nK~Dl~~~  241 (254)
                      ..+..+|++++|+|++.+.......+...+..  .+.|. ++|+||+|+.++
T Consensus        99 ~~ak~aDvVllviDa~~~~~~~~~~i~~~l~~--~g~p~vi~VvnK~D~~~~  148 (225)
T cd01882          99 DIAKVADLVLLLIDASFGFEMETFEFLNILQV--HGFPRVMGVLTHLDLFKK  148 (225)
T ss_pred             HHHHhcCEEEEEEecCcCCCHHHHHHHHHHHH--cCCCeEEEEEeccccCCc
Confidence            33678999999999988665544444443332  34674 559999999854

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.

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=99.25  E-value=1.3e-10  Score=105.91  Aligned_cols=114  Identities=20%  Similarity=0.204  Sum_probs=77.0

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCcc--c----------------------------cccCCCCceEEEEEEEEecCC
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKL--S----------------------------IVTNKPQTTRHRILGICSGPE  162 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~--~----------------------------~~~~~~~tt~~~~~~~~~~~~  162 (254)
                      .+..+++++|+.++|||||+.+++...-  .                            ......+.|.+.....+.+.+
T Consensus         5 k~~~nv~i~Ghvd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~s~~~a~~~D~~~~Er~rGiTid~~~~~~~~~~   84 (446)
T PTZ00141          5 KTHINLVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAEMGKGSFKYAWVLDKLKAERERGITIDIALWKFETPK   84 (446)
T ss_pred             CceEEEEEEecCCCCHHHHHHHHHHHcCCcChHHHHHHhhHHHhhCCcchhhhhhhcCChHHHhcCEeEEeeeEEEccCC
Confidence            3456899999999999999999875210  0                            011123455565556667788


Q ss_pred             eeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCc--------hhHHHHHHHhhcccCCCCC-EEEEE
Q 025346          163 YQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAP--------ERIDEILEEGVGDHKDKLP-ILLVL  233 (254)
Q Consensus       163 ~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~--------~~~~~~~~~~~~~~~~~~p-iivV~  233 (254)
                      ..+.|+||||+.         .+.......+..+|++++|+|+..+.        ....+.+. +..  ..++| +++++
T Consensus        85 ~~i~lIDtPGh~---------~f~~~~~~g~~~aD~ailVVda~~G~~e~~~~~~~qT~eh~~-~~~--~~gi~~iiv~v  152 (446)
T PTZ00141         85 YYFTIIDAPGHR---------DFIKNMITGTSQADVAILVVASTAGEFEAGISKDGQTREHAL-LAF--TLGVKQMIVCI  152 (446)
T ss_pred             eEEEEEECCChH---------HHHHHHHHhhhhcCEEEEEEEcCCCceecccCCCccHHHHHH-HHH--HcCCCeEEEEE
Confidence            899999999943         23344555678999999999998753        12223332 222  23555 78999


Q ss_pred             ecCCC
Q 025346          234 NKKDL  238 (254)
Q Consensus       234 nK~Dl  238 (254)
                      ||+|.
T Consensus       153 NKmD~  157 (446)
T PTZ00141        153 NKMDD  157 (446)
T ss_pred             Ecccc
Confidence            99995

>PTZ00416 elongation factor 2; Provisional

Probab=99.25  E-value=8.4e-11  Score=114.60  Aligned_cols=117  Identities=20%  Similarity=0.206  Sum_probs=76.3

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCc---------------eEEEEEEEEec----------CCeeEE
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQT---------------TRHRILGICSG----------PEYQMI  166 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~t---------------t~~~~~~~~~~----------~~~~~~  166 (254)
                      ....++|+++|+.++|||||+++++...-.......++               |.......+.+          .+..+.
T Consensus        16 ~~~irni~iiGh~d~GKTTL~~~Ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~~~~~~~~~~~i~   95 (836)
T PTZ00416         16 PDQIRNMSVIAHVDHGKSTLTDSLVCKAGIISSKNAGDARFTDTRADEQERGITIKSTGISLYYEHDLEDGDDKQPFLIN   95 (836)
T ss_pred             ccCcCEEEEECCCCCCHHHHHHHHHHhcCCcccccCCceeecccchhhHhhcceeeccceEEEeecccccccCCCceEEE
Confidence            34566899999999999999999986432111111111               11111111112          256799


Q ss_pred             EEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCC
Q 025346          167 LYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLI  239 (254)
Q Consensus       167 liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~  239 (254)
                      ++||||+.+         +.......+..+|++++|+|+..+.......+.....  ..++|+++++||+|+.
T Consensus        96 liDtPG~~~---------f~~~~~~al~~~D~ailVvda~~g~~~~t~~~~~~~~--~~~~p~iv~iNK~D~~  157 (836)
T PTZ00416         96 LIDSPGHVD---------FSSEVTAALRVTDGALVVVDCVEGVCVQTETVLRQAL--QERIRPVLFINKVDRA  157 (836)
T ss_pred             EEcCCCHHh---------HHHHHHHHHhcCCeEEEEEECCCCcCccHHHHHHHHH--HcCCCEEEEEEChhhh
Confidence            999999643         2234455678999999999999876544443333332  2468999999999997

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=99.24  E-value=4.3e-11  Score=115.15  Aligned_cols=117  Identities=21%  Similarity=0.254  Sum_probs=75.6

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCc---------------cccccCCCCceEEEE----EEEEecCCeeEEEEecCCC
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQK---------------LSIVTNKPQTTRHRI----LGICSGPEYQMILYDTPGI  173 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~---------------~~~~~~~~~tt~~~~----~~~~~~~~~~~~liDtpG~  173 (254)
                      ...++|+++|+.++|||||+++++...               +.......+.|....    ...+.+.+..+.+|||||+
T Consensus        17 ~~irnI~ivGh~~~GKTTL~~~ll~~~g~i~~~~~~~~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~~~~~i~liDTPG~   96 (720)
T TIGR00490        17 KFIRNIGIVAHIDHGKTTLSDNLLAGAGMISEELAGQQLYLDFDEQEQERGITINAANVSMVHEYEGNEYLINLIDTPGH   96 (720)
T ss_pred             ccccEEEEEEeCCCCHHHHHHHHHHHcCCCchhcCCceeecCCCHHHHhhcchhhcccceeEEeecCCceEEEEEeCCCc
Confidence            345789999999999999999997531               100001112232211    1124567889999999996


Q ss_pred             cccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          174 IEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       174 ~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      .+..         ......+..+|++++|+|+..+.......+.....  ..+.|+++|+||+|...
T Consensus        97 ~~f~---------~~~~~al~~aD~~llVvda~~g~~~~t~~~~~~~~--~~~~p~ivviNKiD~~~  152 (720)
T TIGR00490        97 VDFG---------GDVTRAMRAVDGAIVVVCAVEGVMPQTETVLRQAL--KENVKPVLFINKVDRLI  152 (720)
T ss_pred             cccH---------HHHHHHHHhcCEEEEEEecCCCCCccHHHHHHHHH--HcCCCEEEEEEChhccc
Confidence            5422         22345578899999999998865433322222221  24578899999999974

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.

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

Probab=99.21  E-value=5.5e-12  Score=98.24  Aligned_cols=120  Identities=17%  Similarity=0.231  Sum_probs=85.7

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCce-EEE--EEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTT-RHR--ILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNV  189 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt-~~~--~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~  189 (254)
                      ....+++++|..++||||++.+++..-|.  .++..+. .+.  -...+..++.+..+|||+|  +..+.       ...
T Consensus        18 e~aiK~vivGng~VGKssmiqryCkgifT--kdykktIgvdflerqi~v~~Edvr~mlWdtag--qeEfD-------aIt   86 (246)
T KOG4252|consen   18 ERAIKFVIVGNGSVGKSSMIQRYCKGIFT--KDYKKTIGVDFLERQIKVLIEDVRSMLWDTAG--QEEFD-------AIT   86 (246)
T ss_pred             hhhEEEEEECCCccchHHHHHHHhccccc--cccccccchhhhhHHHHhhHHHHHHHHHHhcc--chhHH-------HHH
Confidence            44568999999999999999999965543  2222111 111  1112345667889999999  33322       445


Q ss_pred             HHHccCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhH
Q 025346          190 RSAGINADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEI  244 (254)
Q Consensus       190 ~~~~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~  244 (254)
                      .+|+++|.+.++|+..++  +++....|...+... ...+|.++|-||+|+++...+
T Consensus        87 kAyyrgaqa~vLVFSTTDr~SFea~~~w~~kv~~e-~~~IPtV~vqNKIDlveds~~  142 (246)
T KOG4252|consen   87 KAYYRGAQASVLVFSTTDRYSFEATLEWYNKVQKE-TERIPTVFVQNKIDLVEDSQM  142 (246)
T ss_pred             HHHhccccceEEEEecccHHHHHHHHHHHHHHHHH-hccCCeEEeeccchhhHhhhc
Confidence            678999999999999988  677777777765544 356999999999999877654

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=99.21  E-value=2.2e-10  Score=111.90  Aligned_cols=118  Identities=23%  Similarity=0.231  Sum_probs=76.7

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCC---------------CceEEEEEEEEe----------------
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKP---------------QTTRHRILGICS----------------  159 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~---------------~tt~~~~~~~~~----------------  159 (254)
                      ...+.++|+++|+.++|||||+.+++...-.......               +.|.......+.                
T Consensus        15 ~~~~Irni~iiGhvd~GKTTL~~~Ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~~~~~~~~~~~~   94 (843)
T PLN00116         15 KKHNIRNMSVIAHVDHGKSTLTDSLVAAAGIIAQEVAGDVRMTDTRADEAERGITIKSTGISLYYEMTDESLKDFKGERD   94 (843)
T ss_pred             CccCccEEEEEcCCCCCHHHHHHHHHHhcCCcccccCCceeeccCcHHHHHhCCceecceeEEEeecccccccccccccC
Confidence            3455678999999999999999999854321111111               112111111111                


Q ss_pred             cCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCC
Q 025346          160 GPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLI  239 (254)
Q Consensus       160 ~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~  239 (254)
                      ..+..++++||||+.+.         .......+..+|++++|+|+..+.....+.+.....  ..++|+++++||+|+.
T Consensus        95 ~~~~~inliDtPGh~dF---------~~e~~~al~~~D~ailVvda~~Gv~~~t~~~~~~~~--~~~~p~i~~iNK~D~~  163 (843)
T PLN00116         95 GNEYLINLIDSPGHVDF---------SSEVTAALRITDGALVVVDCIEGVCVQTETVLRQAL--GERIRPVLTVNKMDRC  163 (843)
T ss_pred             CCceEEEEECCCCHHHH---------HHHHHHHHhhcCEEEEEEECCCCCcccHHHHHHHHH--HCCCCEEEEEECCccc
Confidence            13567899999995332         244455678999999999999876544433322222  3578999999999998

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

Probab=99.20  E-value=2.3e-10  Score=103.28  Aligned_cols=117  Identities=17%  Similarity=0.182  Sum_probs=87.8

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEec---CCeeEEEEecCCCcccchhhhhHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSG---PEYQMILYDTPGIIEKKIHMLDSMMMKNV  189 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~---~~~~~~liDtpG~~~~~~~~~~~~~~~~~  189 (254)
                      .++|-+.++|+-..|||||+..+-..... ....-+.|.......+..   ....++|+||||  ...|..++..     
T Consensus         3 ~R~PvVtimGHVDHGKTtLLD~IR~t~Va-~~EaGGITQhIGA~~v~~~~~~~~~itFiDTPG--HeAFt~mRaR-----   74 (509)
T COG0532           3 LRPPVVTIMGHVDHGKTTLLDKIRKTNVA-AGEAGGITQHIGAYQVPLDVIKIPGITFIDTPG--HEAFTAMRAR-----   74 (509)
T ss_pred             CCCCEEEEeCcccCCccchhhhHhcCccc-cccCCceeeEeeeEEEEeccCCCceEEEEcCCc--HHHHHHHHhc-----
Confidence            46788999999999999999999888775 455556777666655554   346899999999  4444444432     


Q ss_pred             HHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          190 RSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       190 ~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                        -..-+|++++|+++.++.......-....+  ..+.|+++.+||+|+.+.
T Consensus        75 --Ga~vtDIaILVVa~dDGv~pQTiEAI~hak--~a~vP~iVAiNKiDk~~~  122 (509)
T COG0532          75 --GASVTDIAILVVAADDGVMPQTIEAINHAK--AAGVPIVVAINKIDKPEA  122 (509)
T ss_pred             --CCccccEEEEEEEccCCcchhHHHHHHHHH--HCCCCEEEEEecccCCCC
Confidence              367899999999999987665443333333  468999999999999853

>KOG1954 consensus Endocytosis/signaling protein EHD1 [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=99.20  E-value=2.4e-10  Score=98.60  Aligned_cols=133  Identities=19%  Similarity=0.266  Sum_probs=86.8

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCcccc--ccCCCCceEEEEEEEEecC-----------------------------
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSI--VTNKPQTTRHRILGICSGP-----------------------------  161 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~--~~~~~~tt~~~~~~~~~~~-----------------------------  161 (254)
                      ...+.|+++|..+.||||+|+.++..+++-  +++.|.|......-+.+..                             
T Consensus        56 d~KPmill~GqyStGKTtfi~yLle~dypg~riGpEPTtd~Fi~vM~G~~e~~ipGnal~vd~~~pF~gL~~FG~aflnR  135 (532)
T KOG1954|consen   56 DAKPMILLVGQYSTGKTTFIRYLLEQDYPGLRIGPEPTTDRFIAVMHGDEEGSIPGNALVVDAKKPFRGLNKFGNAFLNR  135 (532)
T ss_pred             ccCceEEEEeccccchhHHHHHHHhCCCCccccCCCCCcceeEEEEecCcccccCCceeeecCCCchhhhhhhHHHHHHH
Confidence            346789999999999999999999988753  3334433332222111100                             


Q ss_pred             ----------CeeEEEEecCCCcccchhhhhHH--HHHHHHHHccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCC
Q 025346          162 ----------EYQMILYDTPGIIEKKIHMLDSM--MMKNVRSAGINADCIVVLVDACKA--PERIDEILEEGVGDHKDKL  227 (254)
Q Consensus       162 ----------~~~~~liDtpG~~~~~~~~~~~~--~~~~~~~~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~  227 (254)
                                -.++.++||||+.......+...  +.....-.+..+|.|++++|+..-  ..+..+.+..+ +  +..-
T Consensus       136 f~csqmp~~vLe~vtiVdtPGILsgeKQrisR~ydF~~v~~WFaeR~D~IiLlfD~hKLDIsdEf~~vi~aL-k--G~Ed  212 (532)
T KOG1954|consen  136 FMCSQLPNQVLESVTIVDTPGILSGEKQRISRGYDFTGVLEWFAERVDRIILLFDAHKLDISDEFKRVIDAL-K--GHED  212 (532)
T ss_pred             HHHhcCChhhhhheeeeccCcccccchhcccccCChHHHHHHHHHhccEEEEEechhhccccHHHHHHHHHh-h--CCcc
Confidence                      04699999999987664433221  223333447899999999998652  23333333332 2  4556


Q ss_pred             CEEEEEecCCCCChHhHHHHH
Q 025346          228 PILLVLNKKDLIKPGEIAKKL  248 (254)
Q Consensus       228 piivV~nK~Dl~~~~~~~~~~  248 (254)
                      .+-||+||+|.++.+++....
T Consensus       213 kiRVVLNKADqVdtqqLmRVy  233 (532)
T KOG1954|consen  213 KIRVVLNKADQVDTQQLMRVY  233 (532)
T ss_pred             eeEEEeccccccCHHHHHHHH
Confidence            789999999999999876543

>PTZ00258 GTP-binding protein; Provisional

Probab=99.18  E-value=1.4e-10  Score=103.15  Aligned_cols=91  Identities=24%  Similarity=0.220  Sum_probs=70.8

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCC-----------------eeEEEEecCCCcc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPE-----------------YQMILYDTPGIIE  175 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~-----------------~~~~liDtpG~~~  175 (254)
                      ....+++++|.||+|||||+|++.+.+. .++++|+||.....+.+...+                 .++.++||||+..
T Consensus        19 ~~~~kvgIVG~PNvGKSTLfnaLt~~~~-~v~n~pftTi~p~~g~v~~~d~r~~~l~~~~~~~~~~~aqi~lvDtpGLv~   97 (390)
T PTZ00258         19 GNNLKMGIVGLPNVGKSTTFNALCKQQV-PAENFPFCTIDPNTARVNVPDERFDWLCKHFKPKSIVPAQLDITDIAGLVK   97 (390)
T ss_pred             CCCcEEEEECCCCCChHHHHHHHhcCcc-cccCCCCCcccceEEEEecccchhhHHHHHcCCcccCCCCeEEEECCCcCc
Confidence            3455899999999999999999988775 589999999988888776542                 3589999999875


Q ss_pred             cchhhhhHHHHHHHHHHccCccEEEEEEeCC
Q 025346          176 KKIHMLDSMMMKNVRSAGINADCIVVLVDAC  206 (254)
Q Consensus       176 ~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~  206 (254)
                      ....  .......+...++.+|++++|+|+.
T Consensus        98 ga~~--g~gLg~~fL~~Ir~aD~il~VVd~f  126 (390)
T PTZ00258         98 GASE--GEGLGNAFLSHIRAVDGIYHVVRAF  126 (390)
T ss_pred             CCcc--hhHHHHHHHHHHHHCCEEEEEEeCC
Confidence            4322  1223345667789999999999984

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

Probab=99.18  E-value=8.4e-11  Score=97.80  Aligned_cols=90  Identities=23%  Similarity=0.303  Sum_probs=57.9

Q ss_pred             eeEEEEecCCCcccc-hhhhhHHHHHHHHHHccCccEEEEEEeCCCC---chhHHHHHHHhhcccCCCCCEEEEEecCCC
Q 025346          163 YQMILYDTPGIIEKK-IHMLDSMMMKNVRSAGINADCIVVLVDACKA---PERIDEILEEGVGDHKDKLPILLVLNKKDL  238 (254)
Q Consensus       163 ~~~~liDtpG~~~~~-~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~---~~~~~~~~~~~~~~~~~~~piivV~nK~Dl  238 (254)
                      ..++++||||.++.- .+.......+.+.  -...-+|+||+|..++   .+.+...+....-..+.+.|+++|.||+|+
T Consensus       116 ~~~~liDTPGQIE~FtWSAsGsIIte~la--ss~ptvv~YvvDt~rs~~p~tFMSNMlYAcSilyktklp~ivvfNK~Dv  193 (366)
T KOG1532|consen  116 FDYVLIDTPGQIEAFTWSASGSIITETLA--SSFPTVVVYVVDTPRSTSPTTFMSNMLYACSILYKTKLPFIVVFNKTDV  193 (366)
T ss_pred             cCEEEEcCCCceEEEEecCCccchHhhHh--hcCCeEEEEEecCCcCCCchhHHHHHHHHHHHHHhccCCeEEEEecccc
Confidence            569999999965421 1222222223222  2356789999998663   334444444322223467999999999999


Q ss_pred             CChHhHHHHHHHHhcC
Q 025346          239 IKPGEIAKKLEVTTCF  254 (254)
Q Consensus       239 ~~~~~~~~~~~~~~~~  254 (254)
                      .+.+-..++...++.|
T Consensus       194 ~d~~fa~eWm~DfE~F  209 (366)
T KOG1532|consen  194 SDSEFALEWMTDFEAF  209 (366)
T ss_pred             cccHHHHHHHHHHHHH
Confidence            9998888887777654

>cd01900 YchF YchF subfamily

Probab=99.17  E-value=1.1e-10  Score=99.52  Aligned_cols=86  Identities=26%  Similarity=0.325  Sum_probs=67.3

Q ss_pred             EEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCe-----------------eEEEEecCCCcccchhh
Q 025346          118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEY-----------------QMILYDTPGIIEKKIHM  180 (254)
Q Consensus       118 ~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~-----------------~~~liDtpG~~~~~~~~  180 (254)
                      ++++|.+++|||||+|++.+.+. .++++|++|.+...+.+...+.                 .+.++||||+...... 
T Consensus         1 igivG~PN~GKSTLfn~Lt~~~~-~~~n~pftTi~p~~g~v~v~d~r~~~l~~~~~~~k~~~~~i~lvD~pGl~~~a~~-   78 (274)
T cd01900           1 IGIVGLPNVGKSTLFNALTKAGA-EAANYPFCTIEPNVGIVPVPDERLDKLAEIVKPKKIVPATIEFVDIAGLVKGASK-   78 (274)
T ss_pred             CeEeCCCCCcHHHHHHHHhCCCC-ccccccccchhceeeeEEeccchhhhHHHHhCCceeeeeEEEEEECCCcCCCCch-
Confidence            47899999999999999999887 5899999998888776655443                 4899999998754322 


Q ss_pred             hhHHHHHHHHHHccCccEEEEEEeCC
Q 025346          181 LDSMMMKNVRSAGINADCIVVLVDAC  206 (254)
Q Consensus       181 ~~~~~~~~~~~~~~~~d~iv~vid~~  206 (254)
                       .......+...++.+|++++|+|+.
T Consensus        79 -~~glg~~fL~~i~~~D~li~VV~~f  103 (274)
T cd01900          79 -GEGLGNKFLSHIREVDAIAHVVRCF  103 (274)
T ss_pred             -hhHHHHHHHHHHHhCCEEEEEEeCc
Confidence             1223355667788999999999873

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.

>PRK09601 GTP-binding protein YchF; Reviewed

Probab=99.17  E-value=2e-10  Score=101.11  Aligned_cols=88  Identities=24%  Similarity=0.298  Sum_probs=69.7

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCC-----------------eeEEEEecCCCcccch
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPE-----------------YQMILYDTPGIIEKKI  178 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~-----------------~~~~liDtpG~~~~~~  178 (254)
                      .+++++|.|++|||||+|++.+.+ ..++++|+||..+..+.+...+                 .++.++||||+.....
T Consensus         3 ~~vgIVG~PNvGKSTLfnaLt~~~-~~v~nypftTi~p~~G~~~v~d~r~~~l~~~~~p~~~~~a~i~lvD~pGL~~~a~   81 (364)
T PRK09601          3 LKCGIVGLPNVGKSTLFNALTKAG-AEAANYPFCTIEPNVGVVPVPDPRLDKLAEIVKPKKIVPATIEFVDIAGLVKGAS   81 (364)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCC-CeecccccccccceEEEEEeccccchhhHHhcCCccccCceEEEEECCCCCCCCC
Confidence            579999999999999999999988 4689999999888877665443                 2589999999875432


Q ss_pred             hhhhHHHHHHHHHHccCccEEEEEEeCC
Q 025346          179 HMLDSMMMKNVRSAGINADCIVVLVDAC  206 (254)
Q Consensus       179 ~~~~~~~~~~~~~~~~~~d~iv~vid~~  206 (254)
                      .  .......+...++.+|++++|+|+.
T Consensus        82 ~--g~glg~~fL~~i~~aD~li~VVd~f  107 (364)
T PRK09601         82 K--GEGLGNQFLANIREVDAIVHVVRCF  107 (364)
T ss_pred             h--HHHHHHHHHHHHHhCCEEEEEEeCC
Confidence            2  2233356667789999999999984

>PLN00043 elongation factor 1-alpha; Provisional

Probab=99.16  E-value=1e-09  Score=100.06  Aligned_cols=115  Identities=22%  Similarity=0.220  Sum_probs=77.1

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCcc------------------------c------cccCCCCceEEEEEEEEecCC
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKL------------------------S------IVTNKPQTTRHRILGICSGPE  162 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~------------------------~------~~~~~~~tt~~~~~~~~~~~~  162 (254)
                      .+..+++++|+.++|||||+.+++...-                        +      ......+.|.+.....+...+
T Consensus         5 k~~~ni~i~Ghvd~GKSTL~g~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~a~~~D~~~~Er~rGiTi~~~~~~~~~~~   84 (447)
T PLN00043          5 KVHINIVVIGHVDSGKSTTTGHLIYKLGGIDKRVIERFEKEAAEMNKRSFKYAWVLDKLKAERERGITIDIALWKFETTK   84 (447)
T ss_pred             CceEEEEEEecCCCCHHHHHHHHHHHhCCCcHHHHHHHhhhhhhhcccchhhhhhhcCCHhHHhcCceEEEEEEEecCCC
Confidence            3456799999999999999998874210                        0      011122445555555667788


Q ss_pred             eeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCC-ch-------hHHHHHHHhhcccCCCC-CEEEEE
Q 025346          163 YQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKA-PE-------RIDEILEEGVGDHKDKL-PILLVL  233 (254)
Q Consensus       163 ~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~-~~-------~~~~~~~~~~~~~~~~~-piivV~  233 (254)
                      ..+.++||||.         ..+.......+..+|++++|+|+..+ ++       ...+.+. +..  ..++ ++++++
T Consensus        85 ~~i~liDtPGh---------~df~~~~~~g~~~aD~aIlVVda~~G~~e~g~~~~~qT~eh~~-~~~--~~gi~~iIV~v  152 (447)
T PLN00043         85 YYCTVIDAPGH---------RDFIKNMITGTSQADCAVLIIDSTTGGFEAGISKDGQTREHAL-LAF--TLGVKQMICCC  152 (447)
T ss_pred             EEEEEEECCCH---------HHHHHHHHhhhhhccEEEEEEEcccCceecccCCCchHHHHHH-HHH--HcCCCcEEEEE
Confidence            89999999993         23334555667899999999999874 21       2223222 222  2356 578899


Q ss_pred             ecCCCC
Q 025346          234 NKKDLI  239 (254)
Q Consensus       234 nK~Dl~  239 (254)
                      ||+|+.
T Consensus       153 NKmD~~  158 (447)
T PLN00043        153 NKMDAT  158 (447)
T ss_pred             EcccCC
Confidence            999987

>KOG0077 consensus Vesicle coat complex COPII, GTPase subunit SAR1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.16  E-value=3e-10  Score=87.60  Aligned_cols=117  Identities=24%  Similarity=0.217  Sum_probs=85.1

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      .+..+++++|-.|+|||||++.+-..+...-.+..+.|    .......+.+++.+|..|.         ..-+..|..+
T Consensus        18 kK~gKllFlGLDNAGKTTLLHMLKdDrl~qhvPTlHPT----SE~l~Ig~m~ftt~DLGGH---------~qArr~wkdy   84 (193)
T KOG0077|consen   18 KKFGKLLFLGLDNAGKTTLLHMLKDDRLGQHVPTLHPT----SEELSIGGMTFTTFDLGGH---------LQARRVWKDY   84 (193)
T ss_pred             ccCceEEEEeecCCchhhHHHHHccccccccCCCcCCC----hHHheecCceEEEEccccH---------HHHHHHHHHH
Confidence            45678999999999999999999888765433333322    3344566789999999994         3334778889


Q ss_pred             ccCccEEEEEEeCCCC--chhHHHHHHHhhccc-CCCCCEEEEEecCCCCChH
Q 025346          193 GINADCIVVLVDACKA--PERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~  242 (254)
                      +..+|+|||++|+.+.  +.+.+..+...+... -.+.|+++.+||+|...+-
T Consensus        85 f~~v~~iv~lvda~d~er~~es~~eld~ll~~e~la~vp~lilgnKId~p~a~  137 (193)
T KOG0077|consen   85 FPQVDAIVYLVDAYDQERFAESKKELDALLSDESLATVPFLILGNKIDIPYAA  137 (193)
T ss_pred             HhhhceeEeeeehhhHHHhHHHHHHHHHHHhHHHHhcCcceeecccccCCCcc
Confidence            9999999999999772  334444444333322 2679999999999998653

>KOG0076 consensus GTP-binding ADP-ribosylation factor-like protein yARL3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.13  E-value=2.2e-10  Score=88.93  Aligned_cols=126  Identities=21%  Similarity=0.194  Sum_probs=85.7

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCcccccc----CCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVT----NKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVR  190 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~----~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~  190 (254)
                      ...++++|..++|||||+...-........    ..-.+|.....+.......++.+||..|  +.       .....|.
T Consensus        17 ~y~vlIlgldnAGKttfLe~~Kt~~~~~~~~l~~~ki~~tvgLnig~i~v~~~~l~fwdlgG--Qe-------~lrSlw~   87 (197)
T KOG0076|consen   17 DYSVLILGLDNAGKTTFLEALKTDFSKAYGGLNPSKITPTVGLNIGTIEVCNAPLSFWDLGG--QE-------SLRSLWK   87 (197)
T ss_pred             hhhheeeccccCCchhHHHHHHHHHHhhhcCCCHHHeecccceeecceeeccceeEEEEcCC--hH-------HHHHHHH
Confidence            346899999999999999876543211111    1223455566677777788999999999  33       2335567


Q ss_pred             HHccCccEEEEEEeCCCC--chhHHHHHHHhhc-ccCCCCCEEEEEecCCCCChHhHHHHHH
Q 025346          191 SAGINADCIVVLVDACKA--PERIDEILEEGVG-DHKDKLPILLVLNKKDLIKPGEIAKKLE  249 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~-~~~~~~piivV~nK~Dl~~~~~~~~~~~  249 (254)
                      .|+..+++|+|+||++++  ++.....+..... ..-.+.|+++.+||.|+.+..+..+.-.
T Consensus        88 ~yY~~~H~ii~viDa~~~eR~~~~~t~~~~v~~~E~leg~p~L~lankqd~q~~~~~~El~~  149 (197)
T KOG0076|consen   88 KYYWLAHGIIYVIDATDRERFEESKTAFEKVVENEKLEGAPVLVLANKQDLQNAMEAAELDG  149 (197)
T ss_pred             HHHHHhceeEEeecCCCHHHHHHHHHHHHHHHHHHHhcCCchhhhcchhhhhhhhhHHHHHH
Confidence            789999999999999883  2333333333222 2236799999999999988766555433

>PRK12740 elongation factor G; Reviewed

Probab=99.13  E-value=4.9e-10  Score=107.32  Aligned_cols=110  Identities=24%  Similarity=0.252  Sum_probs=74.0

Q ss_pred             EeCCCCChHHHHHHHhcCcccc-----------cc------CCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhH
Q 025346          121 LGKPNVGKSTLANQMIGQKLSI-----------VT------NKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDS  183 (254)
Q Consensus       121 ~G~~~~gKssl~~~~~~~~~~~-----------~~------~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~  183 (254)
                      +|+.++|||||+++++...-.+           +.      ...+.|.......+.+.+..+.+|||||..+        
T Consensus         1 ig~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~d~~~~e~~rgiTi~~~~~~~~~~~~~i~liDtPG~~~--------   72 (668)
T PRK12740          1 VGHSGAGKTTLTEAILFYTGAIHRIGEVEDGTTTMDFMPEERERGISITSAATTCEWKGHKINLIDTPGHVD--------   72 (668)
T ss_pred             CCCCCCcHHHHHHHHHHhcCCCccCccccCCcccCCCChHHHhcCCCeeeceEEEEECCEEEEEEECCCcHH--------
Confidence            5899999999999996542211           00      1133444555556677889999999999532        


Q ss_pred             HHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          184 MMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       184 ~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                       +...+...+..+|++++|+|++.........+.....  ..++|+++|+||+|+...
T Consensus        73 -~~~~~~~~l~~aD~vllvvd~~~~~~~~~~~~~~~~~--~~~~p~iiv~NK~D~~~~  127 (668)
T PRK12740         73 -FTGEVERALRVLDGAVVVVCAVGGVEPQTETVWRQAE--KYGVPRIIFVNKMDRAGA  127 (668)
T ss_pred             -HHHHHHHHHHHhCeEEEEEeCCCCcCHHHHHHHHHHH--HcCCCEEEEEECCCCCCC
Confidence             1133445577899999999998865443332222222  246899999999999754

>PRK09602 translation-associated GTPase; Reviewed

Probab=99.11  E-value=6.7e-10  Score=99.55  Aligned_cols=88  Identities=26%  Similarity=0.298  Sum_probs=67.3

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEe------------------------cCCeeEEEEecC
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICS------------------------GPEYQMILYDTP  171 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~------------------------~~~~~~~liDtp  171 (254)
                      .+++++|.+++|||||+|++.+.+.. ++++|++|..+..+...                        ....+++++|||
T Consensus         2 ~kigivG~pnvGKSTlfn~Lt~~~~~-~~~y~f~t~~p~~g~~~v~~~~~~~r~~~~~~~~~~~~~~~~~~~~i~i~D~a   80 (396)
T PRK09602          2 ITIGLVGKPNVGKSTFFNAATLADVE-IANYPFTTIDPNVGVAYVRVECPCKELGVKCNPRNGKCIDGTRFIPVELIDVA   80 (396)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCccc-ccCCCCcceeeeeeeeeeccCCchhhhhhhhccccccccCCcceeeEEEEEcC
Confidence            47999999999999999999988764 68899999877776432                        122568999999


Q ss_pred             CCcccchhhhhHHHHHHHHHHccCccEEEEEEeCC
Q 025346          172 GIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDAC  206 (254)
Q Consensus       172 G~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~  206 (254)
                      |+.......  ......+...++.+|++++|+|+.
T Consensus        81 Gl~~ga~~g--~glg~~fL~~ir~ad~ll~Vvd~~  113 (396)
T PRK09602         81 GLVPGAHEG--RGLGNQFLDDLRQADALIHVVDAS  113 (396)
T ss_pred             CcCCCccch--hhHHHHHHHHHHHCCEEEEEEeCC
Confidence            986532111  123345666789999999999996

>KOG1145 consensus Mitochondrial translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.10  E-value=1.6e-09  Score=97.80  Aligned_cols=117  Identities=18%  Similarity=0.221  Sum_probs=83.9

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEE--EEEecCCeeEEEEecCCCcccchhhhhHHHHHHH
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRIL--GICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNV  189 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~--~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~  189 (254)
                      .+++|.|-++|.-..|||||+..+-...++ ....-+.|...-.  ..+. .+.+++|.||||  ...|..|+.      
T Consensus       150 ~~RpPVVTiMGHVDHGKTTLLD~lRks~VA-A~E~GGITQhIGAF~V~~p-~G~~iTFLDTPG--HaAF~aMRa------  219 (683)
T KOG1145|consen  150 EPRPPVVTIMGHVDHGKTTLLDALRKSSVA-AGEAGGITQHIGAFTVTLP-SGKSITFLDTPG--HAAFSAMRA------  219 (683)
T ss_pred             CCCCCeEEEeecccCChhhHHHHHhhCcee-hhhcCCccceeceEEEecC-CCCEEEEecCCc--HHHHHHHHh------
Confidence            457889999999999999999999888765 3444455554332  2233 678999999999  333444433      


Q ss_pred             HHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          190 RSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       190 ~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                       +-+..+|.+|+|+.+.++.......-....+  ..+.|+++.+||||....
T Consensus       220 -RGA~vtDIvVLVVAadDGVmpQT~EaIkhAk--~A~VpiVvAinKiDkp~a  268 (683)
T KOG1145|consen  220 -RGANVTDIVVLVVAADDGVMPQTLEAIKHAK--SANVPIVVAINKIDKPGA  268 (683)
T ss_pred             -ccCccccEEEEEEEccCCccHhHHHHHHHHH--hcCCCEEEEEeccCCCCC
Confidence             3367899999999999976554332222222  468999999999998754

>PRK07560 elongation factor EF-2; Reviewed

Probab=99.09  E-value=5.1e-10  Score=108.00  Aligned_cols=117  Identities=22%  Similarity=0.265  Sum_probs=74.1

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCC---------------CceEEEEEE----EEecCCeeEEEEecCC
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKP---------------QTTRHRILG----ICSGPEYQMILYDTPG  172 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~---------------~tt~~~~~~----~~~~~~~~~~liDtpG  172 (254)
                      ..+.++|+++|+.++|||||+.+++...-.......               +.|......    .....+..+.++||||
T Consensus        17 ~~~iRni~iigh~d~GKTTL~e~ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiTi~~~~~~~~~~~~~~~~~i~liDtPG   96 (731)
T PRK07560         17 PEQIRNIGIIAHIDHGKTTLSDNLLAGAGMISEELAGEQLALDFDEEEQARGITIKAANVSMVHEYEGKEYLINLIDTPG   96 (731)
T ss_pred             hhcccEEEEEEeCCCCHHHHHHHHHHHcCCcchhhcCcceecCccHHHHHhhhhhhccceEEEEEecCCcEEEEEEcCCC
Confidence            345678999999999999999999854211111111               112111111    1123467899999999


Q ss_pred             CcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCC
Q 025346          173 IIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLI  239 (254)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~  239 (254)
                      +.+.         .......+..+|++++|+|+..+.......+.....  ..+.|.++++||+|+.
T Consensus        97 ~~df---------~~~~~~~l~~~D~avlVvda~~g~~~~t~~~~~~~~--~~~~~~iv~iNK~D~~  152 (731)
T PRK07560         97 HVDF---------GGDVTRAMRAVDGAIVVVDAVEGVMPQTETVLRQAL--RERVKPVLFINKVDRL  152 (731)
T ss_pred             ccCh---------HHHHHHHHHhcCEEEEEEECCCCCCccHHHHHHHHH--HcCCCeEEEEECchhh
Confidence            6542         133445578899999999998865443333222221  2356889999999986

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=99.08  E-value=1.5e-09  Score=98.89  Aligned_cols=129  Identities=19%  Similarity=0.248  Sum_probs=77.2

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccc--cCCCCceEEEEEE---------------------------EEe----
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIV--TNKPQTTRHRILG---------------------------ICS----  159 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~--~~~~~tt~~~~~~---------------------------~~~----  159 (254)
                      ....+|+++|+-..|||||+.++.+.....-  ....+.|.+.-..                           .+.    
T Consensus        32 ~~~~~ig~~GHVDhGKTtLv~aLtg~~~~r~~~E~~rGiTi~lGfa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  111 (460)
T PTZ00327         32 QATINIGTIGHVAHGKSTVVKALSGVKTVRFKREKVRNITIKLGYANAKIYKCPKCPRPTCYQSYGSSKPDNPPCPGCGH  111 (460)
T ss_pred             CCcEEEEEEccCCCCHHHHHHHHhCCCcccchhhHHhCCchhccccccccccCcccCCcccccccCCCcccccccccccc
Confidence            4456899999999999999999997532110  0111111110000                           000    


Q ss_pred             --cCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCC-chhHHHHHHHhhcccCCCCCEEEEEecC
Q 025346          160 --GPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKA-PERIDEILEEGVGDHKDKLPILLVLNKK  236 (254)
Q Consensus       160 --~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~-~~~~~~~~~~~~~~~~~~~piivV~nK~  236 (254)
                        .....+.++||||.         ..+.......+..+|++++|+|+.++ ..........+.... .-.|+++|+||+
T Consensus       112 ~~~~~~~i~~IDtPGH---------~~fi~~m~~g~~~~D~alLVVda~~g~~~~qT~ehl~i~~~l-gi~~iIVvlNKi  181 (460)
T PTZ00327        112 KMTLKRHVSFVDCPGH---------DILMATMLNGAAVMDAALLLIAANESCPQPQTSEHLAAVEIM-KLKHIIILQNKI  181 (460)
T ss_pred             cccccceEeeeeCCCH---------HHHHHHHHHHHhhCCEEEEEEECCCCccchhhHHHHHHHHHc-CCCcEEEEEecc
Confidence              00246899999993         23345555667899999999999974 333222222222222 124789999999


Q ss_pred             CCCChHhHHHHHHHH
Q 025346          237 DLIKPGEIAKKLEVT  251 (254)
Q Consensus       237 Dl~~~~~~~~~~~~~  251 (254)
                      |+.+.+.+.+..+.+
T Consensus       182 Dlv~~~~~~~~~~ei  196 (460)
T PTZ00327        182 DLVKEAQAQDQYEEI  196 (460)
T ss_pred             cccCHHHHHHHHHHH
Confidence            999876655544444

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=99.07  E-value=1e-09  Score=96.99  Aligned_cols=121  Identities=20%  Similarity=0.299  Sum_probs=76.5

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcC----ccc-----------cccCCCC---ceEEEEE---E-----EEecCCeeEEEEe
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQ----KLS-----------IVTNKPQ---TTRHRIL---G-----ICSGPEYQMILYD  169 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~----~~~-----------~~~~~~~---tt~~~~~---~-----~~~~~~~~~~liD  169 (254)
                      .-++++|+.++|||||+|+|++.    ...           .+++.++   +|.++..   .     ..++-..++.++|
T Consensus        18 IyIGvvGpvrtGKSTfIn~fm~q~VlP~i~~~~~k~Ra~DELpqs~~GktItTTePkfvP~kAvEI~~~~~~~~~VrlID   97 (492)
T TIGR02836        18 IYIGVVGPVRTGKSTFIKKFMELLVLPNISNEYDKERAQDELPQSAAGKTIMTTEPKFVPNEAVEININEGTKFKVRLVD   97 (492)
T ss_pred             EEEEEEcCCCCChHHHHHHHHhhhccccccchhHHhHHHhccCcCCCCCCcccCCCccccCcceEEeccCCCcccEEEEE
Confidence            35899999999999999999998    555           5667777   5544333   1     1123347899999


Q ss_pred             cCCCcccchh-hhh--H-------H------HH----HHHHHHcc-CccEEEEEE-eCC------CCchhH-HHHHHHhh
Q 025346          170 TPGIIEKKIH-MLD--S-------M------MM----KNVRSAGI-NADCIVVLV-DAC------KAPERI-DEILEEGV  220 (254)
Q Consensus       170 tpG~~~~~~~-~~~--~-------~------~~----~~~~~~~~-~~d~iv~vi-d~~------~~~~~~-~~~~~~~~  220 (254)
                      |+|+.....- .++  .       +      |.    -.+...+. +++..++|. |.+      ...... ..++.+ +
T Consensus        98 cvG~~v~GalG~~r~~k~RmV~TPW~d~~IPF~~AAeiGT~kVI~dhstIgivVtTDgsi~dI~Re~y~~aEe~~i~e-L  176 (492)
T TIGR02836        98 CVGYTVKGALGYMEEDKPRMVSTPWYDYEIPFEEAAEIGTRKVIQEHSTIGVVVTTDGTITDIPREDYVEAEERVIEE-L  176 (492)
T ss_pred             CCCcccCCCccceeccccccccCCcccccCchhhhhhhhHHHHHHhcCcEEEEEEcCCCccccccccchHHHHHHHHH-H
Confidence            9998643210 000  0       0      00    01333455 899999888 764      223333 333433 3


Q ss_pred             cccCCCCCEEEEEecCCCC
Q 025346          221 GDHKDKLPILLVLNKKDLI  239 (254)
Q Consensus       221 ~~~~~~~piivV~nK~Dl~  239 (254)
                      +  ..++|+++|+||+|-.
T Consensus       177 k--~~~kPfiivlN~~dp~  193 (492)
T TIGR02836       177 K--ELNKPFIILLNSTHPY  193 (492)
T ss_pred             H--hcCCCEEEEEECcCCC
Confidence            3  3579999999999944

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.

>PTZ00099 rab6; Provisional

Probab=99.03  E-value=1.7e-09  Score=86.66  Aligned_cols=75  Identities=20%  Similarity=0.228  Sum_probs=56.2

Q ss_pred             EecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEec
Q 025346          158 CSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNK  235 (254)
Q Consensus       158 ~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK  235 (254)
                      +++....+.||||||.  ..+..       .+..+++++|++++|+|+++  +++....|+..+......+.|+++|+||
T Consensus        24 ~~~~~v~l~iwDt~G~--e~~~~-------~~~~~~~~ad~~ilv~D~t~~~sf~~~~~w~~~i~~~~~~~~piilVgNK   94 (176)
T PTZ00099         24 LDEGPVRLQLWDTAGQ--ERFRS-------LIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNERGKDVIIALVGNK   94 (176)
T ss_pred             ECCEEEEEEEEECCCh--HHhhh-------ccHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCeEEEEEEC
Confidence            3455678999999993  33222       23345799999999999988  4667777777776554567899999999


Q ss_pred             CCCCCh
Q 025346          236 KDLIKP  241 (254)
Q Consensus       236 ~Dl~~~  241 (254)
                      +|+...
T Consensus        95 ~DL~~~  100 (176)
T PTZ00099         95 TDLGDL  100 (176)
T ss_pred             cccccc
Confidence            999653

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

Probab=99.02  E-value=5.3e-09  Score=91.87  Aligned_cols=118  Identities=19%  Similarity=0.234  Sum_probs=80.3

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCc------------------------ccc------ccCCCCceEEEEEEEEecCC
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQK------------------------LSI------VTNKPQTTRHRILGICSGPE  162 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~------------------------~~~------~~~~~~tt~~~~~~~~~~~~  162 (254)
                      .+..+++++|+..+|||||+-+++..-                        ++.      .....+.|.+.....+..+.
T Consensus         5 Kph~nl~~iGHVD~GKSTl~GrLly~~G~id~~tmeK~~~ea~~~gK~sf~fawvlD~tkeERerGvTi~~~~~~fet~k   84 (428)
T COG5256           5 KPHLNLVFIGHVDAGKSTLVGRLLYDLGEIDKRTMEKLEKEAKELGKESFKFAWVLDKTKEERERGVTIDVAHSKFETDK   84 (428)
T ss_pred             CCceEEEEEcCCCCCchhhhhhhHHHhCCCCHHHHHHHHHHHHhcCCCceEEEEEecCChhHHhcceEEEEEEEEeecCC
Confidence            455689999999999999999997541                        111      12234556666666667777


Q ss_pred             eeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCC-------chhHHHHHHHhhcccCCCCCEEEEEec
Q 025346          163 YQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKA-------PERIDEILEEGVGDHKDKLPILLVLNK  235 (254)
Q Consensus       163 ~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~-------~~~~~~~~~~~~~~~~~~~piivV~nK  235 (254)
                      ..++++|+||..+         +.......+..||+.|+|+|+..+       ...+.....-+.+..+ -..+|+++||
T Consensus        85 ~~~tIiDaPGHrd---------FvknmItGasqAD~aVLVV~a~~~efE~g~~~~gQtrEH~~La~tlG-i~~lIVavNK  154 (428)
T COG5256          85 YNFTIIDAPGHRD---------FVKNMITGASQADVAVLVVDARDGEFEAGFGVGGQTREHAFLARTLG-IKQLIVAVNK  154 (428)
T ss_pred             ceEEEeeCCchHH---------HHHHhhcchhhccEEEEEEECCCCccccccccCCchhHHHHHHHhcC-CceEEEEEEc
Confidence            8899999999433         334445567889999999999875       2222222222222222 3578999999


Q ss_pred             CCCCC
Q 025346          236 KDLIK  240 (254)
Q Consensus       236 ~Dl~~  240 (254)
                      +|+.+
T Consensus       155 MD~v~  159 (428)
T COG5256         155 MDLVS  159 (428)
T ss_pred             ccccc
Confidence            99985

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=99.02  E-value=5.2e-10  Score=93.73  Aligned_cols=76  Identities=22%  Similarity=0.236  Sum_probs=39.1

Q ss_pred             eEEEEecCCCcccchhhhhHHHHHHHHHHc--cCccEEEEEEeCCCCc---hhHHHHHHHhhcccCCCCCEEEEEecCCC
Q 025346          164 QMILYDTPGIIEKKIHMLDSMMMKNVRSAG--INADCIVVLVDACKAP---ERIDEILEEGVGDHKDKLPILLVLNKKDL  238 (254)
Q Consensus       164 ~~~liDtpG~~~~~~~~~~~~~~~~~~~~~--~~~d~iv~vid~~~~~---~~~~~~~~~~~~~~~~~~piivV~nK~Dl  238 (254)
                      .+.++||||.  -+.-..+... ..+...+  ...-++|+++|+....   ..+...+.......+.+.|.+.|+||+|+
T Consensus        92 ~y~l~DtPGQ--iElf~~~~~~-~~i~~~L~~~~~~~~v~LvD~~~~~~~~~f~s~~L~s~s~~~~~~lP~vnvlsK~Dl  168 (238)
T PF03029_consen   92 DYLLFDTPGQ--IELFTHSDSG-RKIVERLQKNGRLVVVFLVDSSFCSDPSKFVSSLLLSLSIMLRLELPHVNVLSKIDL  168 (238)
T ss_dssp             SEEEEE--SS--HHHHHHSHHH-HHHHHTSSS----EEEEEE-GGG-SSHHHHHHHHHHHHHHHHHHTSEEEEEE--GGG
T ss_pred             cEEEEeCCCC--EEEEEechhH-HHHHHHHhhhcceEEEEEEecccccChhhHHHHHHHHHHHHhhCCCCEEEeeeccCc
Confidence            7999999994  3333333333 2222223  3466899999987532   23333333333333457999999999999


Q ss_pred             CChH
Q 025346          239 IKPG  242 (254)
Q Consensus       239 ~~~~  242 (254)
                      .++.
T Consensus       169 ~~~~  172 (238)
T PF03029_consen  169 LSKY  172 (238)
T ss_dssp             S-HH
T ss_pred             ccch
Confidence            9854

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]

Probab=99.02  E-value=1.3e-08  Score=88.20  Aligned_cols=136  Identities=15%  Similarity=0.160  Sum_probs=84.8

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCcccccc---CCCC----ce--EEEEEEEEecC--CeeEEEEecCCCcccc----
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVT---NKPQ----TT--RHRILGICSGP--EYQMILYDTPGIIEKK----  177 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~---~~~~----tt--~~~~~~~~~~~--~~~~~liDtpG~~~~~----  177 (254)
                      .-...++++|++|.|||||+|.+++.......   +..+    .|  .......+..+  ...++++||||+++.-    
T Consensus        21 Gi~f~im~~G~sG~GKttfiNtL~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~~~l~vIDtpGfGD~idNs~  100 (373)
T COG5019          21 GIDFTIMVVGESGLGKTTFINTLFGTSLVDETEIDDIRAEGTSPTLEIKITKAELEEDGFHLNLTVIDTPGFGDFIDNSK  100 (373)
T ss_pred             CCceEEEEecCCCCchhHHHHhhhHhhccCCCCccCcccccCCcceEEEeeeeeeecCCeEEEEEEeccCCccccccccc
Confidence            34568999999999999999999987432111   1111    11  12222233333  3578999999998643    


Q ss_pred             -hhhhhHHHHHHHHHHcc--------------CccEEEEEEeCCC-CchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          178 -IHMLDSMMMKNVRSAGI--------------NADCIVVLVDACK-APERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       178 -~~~~~~~~~~~~~~~~~--------------~~d~iv~vid~~~-~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                       ++.+-.+...++..++.              ..|+++|.+..+. +...++-....-+   ...+.+|-|+.|+|.+..
T Consensus       101 ~we~I~~yI~~q~d~yl~~E~~~~R~~~~~D~RVH~cLYFI~Ptgh~l~~~DIe~Mk~l---s~~vNlIPVI~KaD~lT~  177 (373)
T COG5019         101 CWEPIVDYIDDQFDQYLDEEQKIKRNPKFKDTRVHACLYFIRPTGHGLKPLDIEAMKRL---SKRVNLIPVIAKADTLTD  177 (373)
T ss_pred             cHHHHHHHHHHHHHHHHHHhhccccccccccCceEEEEEEecCCCCCCCHHHHHHHHHH---hcccCeeeeeeccccCCH
Confidence             22222333333333321              4789999998755 5666554433322   345778888999999999


Q ss_pred             HhHHHHHHHH
Q 025346          242 GEIAKKLEVT  251 (254)
Q Consensus       242 ~~~~~~~~~~  251 (254)
                      +++....+++
T Consensus       178 ~El~~~K~~I  187 (373)
T COG5019         178 DELAEFKERI  187 (373)
T ss_pred             HHHHHHHHHH
Confidence            9987765554

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

Probab=99.00  E-value=2.4e-09  Score=96.60  Aligned_cols=127  Identities=24%  Similarity=0.259  Sum_probs=85.6

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCcccc--------------ccCCCCceEEEEEEEEe---cCCeeEEEEecCCC
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQKLSI--------------VTNKPQTTRHRILGICS---GPEYQMILYDTPGI  173 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~--------------~~~~~~tt~~~~~~~~~---~~~~~~~liDtpG~  173 (254)
                      +..+.+++.++.+-..|||||..+++...-.+              +....+.|.........   +...-+++|||||.
T Consensus        56 P~~~iRNfsIIAHVDHGKSTLaDrLLe~tg~i~~~~~q~q~LDkl~vERERGITIkaQtasify~~~~~ylLNLIDTPGH  135 (650)
T KOG0462|consen   56 PVENIRNFSIIAHVDHGKSTLADRLLELTGTIDNNIGQEQVLDKLQVERERGITIKAQTASIFYKDGQSYLLNLIDTPGH  135 (650)
T ss_pred             chhhccceEEEEEecCCcchHHHHHHHHhCCCCCCCchhhhhhhhhhhhhcCcEEEeeeeEEEEEcCCceEEEeecCCCc
Confidence            34556789999999999999999998543211              22334445443333332   44588999999998


Q ss_pred             cccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh--HhHHHHH
Q 025346          174 IEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP--GEIAKKL  248 (254)
Q Consensus       174 ~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~--~~~~~~~  248 (254)
                      .+...+..         +.+.-++++++|+|++.+.+.....-  +...+..+..+|.|+||+|+...  +++...+
T Consensus       136 vDFs~EVs---------Rslaac~G~lLvVDA~qGvqAQT~an--f~lAfe~~L~iIpVlNKIDlp~adpe~V~~q~  201 (650)
T KOG0462|consen  136 VDFSGEVS---------RSLAACDGALLVVDASQGVQAQTVAN--FYLAFEAGLAIIPVLNKIDLPSADPERVENQL  201 (650)
T ss_pred             ccccceeh---------ehhhhcCceEEEEEcCcCchHHHHHH--HHHHHHcCCeEEEeeeccCCCCCCHHHHHHHH
Confidence            87765443         33667999999999999865543221  12222457899999999999754  4555443

>KOG1547 consensus Septin CDC10 and related P-loop GTPases [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms; Cytoskeleton]

Probab=98.98  E-value=1.1e-08  Score=83.89  Aligned_cols=134  Identities=16%  Similarity=0.241  Sum_probs=84.9

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccc-------cCCCCceEEEEEE-EEecCC--eeEEEEecCCCcccc-----hh
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIV-------TNKPQTTRHRILG-ICSGPE--YQMILYDTPGIIEKK-----IH  179 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~-------~~~~~tt~~~~~~-~~~~~~--~~~~liDtpG~~~~~-----~~  179 (254)
                      ..+|.++|.+|.||||++|.++..+....       .+.+.|+...... .+...+  .+++++||||+++.-     .+
T Consensus        46 ~FNIMVVgqSglgkstlinTlf~s~v~~~s~~~~~~~p~pkT~eik~~thvieE~gVklkltviDTPGfGDqInN~ncWe  125 (336)
T KOG1547|consen   46 DFNIMVVGQSGLGKSTLINTLFKSHVSDSSSSDNSAEPIPKTTEIKSITHVIEEKGVKLKLTVIDTPGFGDQINNDNCWE  125 (336)
T ss_pred             ceEEEEEecCCCCchhhHHHHHHHHHhhccCCCcccCcccceEEEEeeeeeeeecceEEEEEEecCCCcccccCccchhH
Confidence            35899999999999999999986654321       1334444433333 233333  468899999998643     33


Q ss_pred             hhhHHHHHHHHHHcc--------------CccEEEEEEeCCC-CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhH
Q 025346          180 MLDSMMMKNVRSAGI--------------NADCIVVLVDACK-APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEI  244 (254)
Q Consensus       180 ~~~~~~~~~~~~~~~--------------~~d~iv~vid~~~-~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~  244 (254)
                      .+.++..+++..|++              ..++++|.+..+. +...++-.+...+   ..-..++-|+-|+|-+.-++.
T Consensus       126 PI~kyIneQye~yL~eElni~R~kripDTRVHcclyFi~ptGhsLrplDieflkrL---t~vvNvvPVIakaDtlTleEr  202 (336)
T KOG1547|consen  126 PIEKYINEQYEQYLREELNIAREKRIPDTRVHCCLYFIPPTGHSLRPLDIEFLKRL---TEVVNVVPVIAKADTLTLEER  202 (336)
T ss_pred             HHHHHHHHHHHHHHHHHHhHHhhhcCCCceEEEEEEEeCCCCCccCcccHHHHHHH---hhhheeeeeEeecccccHHHH
Confidence            444444455444433              4688888888764 4555443332222   223567888899999988887


Q ss_pred             HHHHHHH
Q 025346          245 AKKLEVT  251 (254)
Q Consensus       245 ~~~~~~~  251 (254)
                      ++...++
T Consensus       203 ~~FkqrI  209 (336)
T KOG1547|consen  203 SAFKQRI  209 (336)
T ss_pred             HHHHHHH
Confidence            7665554

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

Probab=98.97  E-value=5.1e-09  Score=99.34  Aligned_cols=120  Identities=23%  Similarity=0.227  Sum_probs=84.2

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCcc-----cccc------------CCCCceEEEEEEEEecCC-eeEEEEecCCC
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQKL-----SIVT------------NKPQTTRHRILGICSGPE-YQMILYDTPGI  173 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~~-----~~~~------------~~~~tt~~~~~~~~~~~~-~~~~liDtpG~  173 (254)
                      ..+.+++.++|+-.+||||+..+++...-     ..+.            ...+.|.......+.+.+ ..+++|||||+
T Consensus         7 ~~~~RNigI~aHidaGKTTltE~lL~~tG~i~k~G~v~~g~~~~D~~e~EqeRGITI~saa~s~~~~~~~~iNlIDTPGH   86 (697)
T COG0480           7 LERIRNIGIVAHIDAGKTTLTERILFYTGIISKIGEVHDGAATMDWMEQEQERGITITSAATTLFWKGDYRINLIDTPGH   86 (697)
T ss_pred             cccceEEEEEeccCCChHHHHHHHHHHcCCcCCCccccCCCccCCCcHHHHhcCCEEeeeeeEEEEcCceEEEEeCCCCc
Confidence            34567899999999999999999985421     1111            112334444444556674 99999999998


Q ss_pred             cccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          174 IEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       174 ~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      .+..         ....+.++-+|+.|.|+|+..+.+...+.......  ..++|.++++||+|....+
T Consensus        87 VDFt---------~EV~rslrvlDgavvVvdaveGV~~QTEtv~rqa~--~~~vp~i~fiNKmDR~~a~  144 (697)
T COG0480          87 VDFT---------IEVERSLRVLDGAVVVVDAVEGVEPQTETVWRQAD--KYGVPRILFVNKMDRLGAD  144 (697)
T ss_pred             cccH---------HHHHHHHHhhcceEEEEECCCCeeecHHHHHHHHh--hcCCCeEEEEECccccccC
Confidence            7764         33445578899999999999977665544333222  3579999999999997653

>PRK13768 GTPase; Provisional

Probab=98.96  E-value=3.5e-09  Score=89.68  Aligned_cols=86  Identities=27%  Similarity=0.336  Sum_probs=49.8

Q ss_pred             eeEEEEecCCCcccc-hhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHH---HHHHHhhcccCCCCCEEEEEecCCC
Q 025346          163 YQMILYDTPGIIEKK-IHMLDSMMMKNVRSAGINADCIVVLVDACKAPERID---EILEEGVGDHKDKLPILLVLNKKDL  238 (254)
Q Consensus       163 ~~~~liDtpG~~~~~-~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~---~~~~~~~~~~~~~~piivV~nK~Dl  238 (254)
                      ..+.+|||||..+.. .......+.+.....  .++++++|+|++......+   ..+.........+.|+++|+||+|+
T Consensus        97 ~~~~~~d~~g~~~~~~~~~~~~~~~~~l~~~--~~~~ii~liD~~~~~~~~d~~~~~~l~~~~~~~~~~~~i~v~nK~D~  174 (253)
T PRK13768         97 ADYVLVDTPGQMELFAFRESGRKLVERLSGS--SKSVVVFLIDAVLAKTPSDFVSLLLLALSVQLRLGLPQIPVLNKADL  174 (253)
T ss_pred             CCEEEEeCCcHHHHHhhhHHHHHHHHHHHhc--CCeEEEEEechHHhCCHHHHHHHHHHHHHHHHHcCCCEEEEEEhHhh
Confidence            369999999954322 111222222222111  1899999999976443322   2221111112357999999999999


Q ss_pred             CChHhHHHHHHH
Q 025346          239 IKPGEIAKKLEV  250 (254)
Q Consensus       239 ~~~~~~~~~~~~  250 (254)
                      .+..+..+..+.
T Consensus       175 ~~~~~~~~~~~~  186 (253)
T PRK13768        175 LSEEELERILKW  186 (253)
T ss_pred             cCchhHHHHHHH
Confidence            988766554443

>KOG2655 consensus Septin family protein (P-loop GTPase) [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton; Intracellular trafficking, secretion, and vesicular transport]

Probab=98.96  E-value=2.1e-08  Score=87.49  Aligned_cols=134  Identities=16%  Similarity=0.193  Sum_probs=83.7

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccc------cCCCCceE--EEEEEEEecC--CeeEEEEecCCCcccc-----hh
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIV------TNKPQTTR--HRILGICSGP--EYQMILYDTPGIIEKK-----IH  179 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~------~~~~~tt~--~~~~~~~~~~--~~~~~liDtpG~~~~~-----~~  179 (254)
                      ...++++|++|.|||||+|.++...+...      ...+..|.  ......+..+  ..+++++||||+++.-     +.
T Consensus        21 ~ftlmvvG~sGlGKsTfiNsLf~~~l~~~~~~~~~~~~~~~t~~i~~~~~~iee~g~~l~LtvidtPGfGD~vdns~~w~  100 (366)
T KOG2655|consen   21 DFTLMVVGESGLGKSTFINSLFLTDLSGNREVPGASERIKETVEIESTKVEIEENGVKLNLTVIDTPGFGDAVDNSNCWR  100 (366)
T ss_pred             ceEEEEecCCCccHHHHHHHHHhhhccCCcccCCcccCccccceeeeeeeeecCCCeEEeeEEeccCCCcccccccccch
Confidence            36899999999999999999988754311      11111121  1222223333  3578999999987633     22


Q ss_pred             hhhHHHHHHHHHHc-----------c--CccEEEEEEeCCC-CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHH
Q 025346          180 MLDSMMMKNVRSAG-----------I--NADCIVVLVDACK-APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIA  245 (254)
Q Consensus       180 ~~~~~~~~~~~~~~-----------~--~~d~iv~vid~~~-~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~  245 (254)
                      .+-.....++..|+           .  ..|+++|.+..+. +...++-.+..-+   ....++|-|+.|+|.+.++++.
T Consensus       101 pi~~yi~~q~~~yl~~E~~~~R~~~~D~RVH~cLYFI~P~ghgL~p~Di~~Mk~l---~~~vNiIPVI~KaD~lT~~El~  177 (366)
T KOG2655|consen  101 PIVNYIDSQFDQYLDEESRLNRSKIKDNRVHCCLYFISPTGHGLKPLDIEFMKKL---SKKVNLIPVIAKADTLTKDELN  177 (366)
T ss_pred             hhhHHHHHHHHHHHhhhccCCcccccCCceEEEEEEeCCCCCCCcHhhHHHHHHH---hccccccceeeccccCCHHHHH
Confidence            22222223333222           1  5889999998765 5666665444333   3457888888999999999887


Q ss_pred             HHHHHH
Q 025346          246 KKLEVT  251 (254)
Q Consensus       246 ~~~~~~  251 (254)
                      ....++
T Consensus       178 ~~K~~I  183 (366)
T KOG2655|consen  178 QFKKRI  183 (366)
T ss_pred             HHHHHH
Confidence            665544

>KOG0410 consensus Predicted GTP binding protein [General function prediction only]

Probab=98.92  E-value=3.1e-09  Score=90.49  Aligned_cols=129  Identities=22%  Similarity=0.186  Sum_probs=90.2

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEe-cCCeeEEEEecCCCcccchhhhhHHHHHHH
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICS-GPEYQMILYDTPGIIEKKIHMLDSMMMKNV  189 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~-~~~~~~~liDtpG~~~~~~~~~~~~~~~~~  189 (254)
                      .....+.|.++|.+++|||||++.+.+.... ..+..+.|.+....... ..+..+.+.||-|+.+.-+..+-..| +++
T Consensus       174 ~~~s~pviavVGYTNaGKsTLikaLT~Aal~-p~drLFATLDpT~h~a~Lpsg~~vlltDTvGFisdLP~~LvaAF-~AT  251 (410)
T KOG0410|consen  174 EGESSPVIAVVGYTNAGKSTLIKALTKAALY-PNDRLFATLDPTLHSAHLPSGNFVLLTDTVGFISDLPIQLVAAF-QAT  251 (410)
T ss_pred             ccCCCceEEEEeecCccHHHHHHHHHhhhcC-ccchhheeccchhhhccCCCCcEEEEeechhhhhhCcHHHHHHH-HHH
Confidence            3455678999999999999999999955443 45555666655543333 34667889999999887766666666 666


Q ss_pred             HHHccCccEEEEEEeCCCCc-hhHHHHHHHhhcccC-C----CCCEEEEEecCCCCCh
Q 025346          190 RSAGINADCIVVLVDACKAP-ERIDEILEEGVGDHK-D----KLPILLVLNKKDLIKP  241 (254)
Q Consensus       190 ~~~~~~~d~iv~vid~~~~~-~~~~~~~~~~~~~~~-~----~~piivV~nK~Dl~~~  241 (254)
                      .+....+|+++.|+|++++. +.........++... +    ...++-|-||+|..+.
T Consensus       252 LeeVaeadlllHvvDiShP~ae~q~e~Vl~vL~~igv~~~pkl~~mieVdnkiD~e~~  309 (410)
T KOG0410|consen  252 LEEVAEADLLLHVVDISHPNAEEQRETVLHVLNQIGVPSEPKLQNMIEVDNKIDYEED  309 (410)
T ss_pred             HHHHhhcceEEEEeecCCccHHHHHHHHHHHHHhcCCCcHHHHhHHHhhccccccccc
Confidence            77788999999999999964 333333333333322 1    2347889999998653

>KOG0096 consensus GTPase Ran/TC4/GSP1 (nuclear protein transport pathway), small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.92  E-value=5.6e-09  Score=82.33  Aligned_cols=118  Identities=18%  Similarity=0.280  Sum_probs=81.5

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEE--EecC-CeeEEEEecCCCcccchhhhhHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGI--CSGP-EYQMILYDTPGIIEKKIHMLDSMMMKNV  189 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~--~~~~-~~~~~liDtpG~~~~~~~~~~~~~~~~~  189 (254)
                      ....+++++|..|.|||+++++.+..++.  ..++.|+.-.....  .++. ..++..|||.|.  +.+..+..      
T Consensus         8 ~~~fklvlvGdgg~gKtt~vkr~ltgeFe--~~y~at~Gv~~~pl~f~tn~g~irf~~wdtagq--Ek~gglrd------   77 (216)
T KOG0096|consen    8 GLTFKLVLVGDGGTGKTTFVKRHLTGEFE--KTYPATLGVEVHPLLFDTNRGQIRFNVWDTAGQ--EKKGGLRD------   77 (216)
T ss_pred             cceEEEEEecCCcccccchhhhhhcccce--ecccCcceeEEeeeeeecccCcEEEEeeecccc--eeeccccc------
Confidence            34678999999999999999999999885  44444443322221  1233 489999999994  32222211      


Q ss_pred             HHHccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          190 RSAGINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       190 ~~~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                       .++-...+.++++|.+..  ......|..++.+. ..++||++++||.|.....
T Consensus        78 -gyyI~~qcAiimFdVtsr~t~~n~~rwhrd~~rv-~~NiPiv~cGNKvDi~~r~  130 (216)
T KOG0096|consen   78 -GYYIQGQCAIIMFDVTSRFTYKNVPRWHRDLVRV-RENIPIVLCGNKVDIKARK  130 (216)
T ss_pred             -ccEEecceeEEEeeeeehhhhhcchHHHHHHHHH-hcCCCeeeeccceeccccc
Confidence             235566777888998764  35566777665554 4569999999999997765

>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence

Probab=98.91  E-value=3.4e-09  Score=93.45  Aligned_cols=114  Identities=19%  Similarity=0.161  Sum_probs=59.5

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCc-----cccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQK-----LSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNV  189 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~-----~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~  189 (254)
                      ...|+|+|.+|+|||||||.+.|-.     .+.++ ...||....... ...-..+.+||.||++...+.. +.++ +. 
T Consensus        35 ~l~IaV~G~sGsGKSSfINalrGl~~~d~~aA~tG-v~etT~~~~~Y~-~p~~pnv~lWDlPG~gt~~f~~-~~Yl-~~-  109 (376)
T PF05049_consen   35 PLNIAVTGESGSGKSSFINALRGLGHEDEGAAPTG-VVETTMEPTPYP-HPKFPNVTLWDLPGIGTPNFPP-EEYL-KE-  109 (376)
T ss_dssp             -EEEEEEESTTSSHHHHHHHHTT--TTSTTS--SS-SHSCCTS-EEEE--SS-TTEEEEEE--GGGSS--H-HHHH-HH-
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCCCCCCcCcCCCC-CCcCCCCCeeCC-CCCCCCCeEEeCCCCCCCCCCH-HHHH-HH-
Confidence            4589999999999999999997632     11111 122333332222 2222359999999987654322 2222 11 


Q ss_pred             HHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCC
Q 025346          190 RSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDL  238 (254)
Q Consensus       190 ~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl  238 (254)
                       ..+...|.+|++.+ ++ +...+.++...++  ..+.|+++|-||+|.
T Consensus       110 -~~~~~yD~fiii~s-~r-f~~ndv~La~~i~--~~gK~fyfVRTKvD~  153 (376)
T PF05049_consen  110 -VKFYRYDFFIIISS-ER-FTENDVQLAKEIQ--RMGKKFYFVRTKVDS  153 (376)
T ss_dssp             -TTGGG-SEEEEEES-SS---HHHHHHHHHHH--HTT-EEEEEE--HHH
T ss_pred             -ccccccCEEEEEeC-CC-CchhhHHHHHHHH--HcCCcEEEEEecccc
Confidence             12567787655443 33 4455555444444  247899999999996

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.

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

Probab=98.91  E-value=1.7e-08  Score=86.94  Aligned_cols=119  Identities=22%  Similarity=0.190  Sum_probs=85.2

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCcccc--------------------------------ccCCCCceEEEEEEEEecC
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSI--------------------------------VTNKPQTTRHRILGICSGP  161 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~--------------------------------~~~~~~tt~~~~~~~~~~~  161 (254)
                      ...+.+.+|.-.-||||||-+++...-..                                .....+.|.+....++..+
T Consensus         5 ~lLRfiTcGSVDDGKSTLIGRLL~Dtk~i~eDQla~l~~dS~~~~t~g~~~D~ALLvDGL~AEREQGITIDVAYRyFsT~   84 (431)
T COG2895           5 SLLRFITCGSVDDGKSTLIGRLLYDTKAIYEDQLASLERDSKRKGTQGEKIDLALLVDGLEAEREQGITIDVAYRYFSTE   84 (431)
T ss_pred             cceeEEEeccccCcchhhhhhhhhcchhhhHHHHHHHhcccccccCCCCccchhhhhhhhHHHHhcCceEEEEeeecccc
Confidence            45689999999999999999998652110                                1223355677777777888


Q ss_pred             CeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          162 EYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       162 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      .+++.+.||||.         ..+.+....-...||+.|+++|+..+..+......-+....+ -..+++.+||+||++-
T Consensus        85 KRkFIiADTPGH---------eQYTRNMaTGASTadlAIlLVDAR~Gvl~QTrRHs~I~sLLG-IrhvvvAVNKmDLvdy  154 (431)
T COG2895          85 KRKFIIADTPGH---------EQYTRNMATGASTADLAILLVDARKGVLEQTRRHSFIASLLG-IRHVVVAVNKMDLVDY  154 (431)
T ss_pred             cceEEEecCCcH---------HHHhhhhhcccccccEEEEEEecchhhHHHhHHHHHHHHHhC-CcEEEEEEeeeccccc
Confidence            899999999994         334455555577899999999998876555544444443332 2568999999999864


Q ss_pred             H
Q 025346          242 G  242 (254)
Q Consensus       242 ~  242 (254)
                      +
T Consensus       155 ~  155 (431)
T COG2895         155 S  155 (431)
T ss_pred             C
Confidence            3

>cd01858 NGP_1 NGP-1

Probab=98.91  E-value=4.2e-09  Score=82.68  Aligned_cols=56  Identities=30%  Similarity=0.412  Sum_probs=46.1

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCC
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGI  173 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~  173 (254)
                      ..+++++|.+|+|||||+|++.+.+...+++.+++|+.......   +..+.++||||+
T Consensus       102 ~~~v~~~G~~nvGKStliN~l~~~~~~~~~~~~g~T~~~~~~~~---~~~~~liDtPGi  157 (157)
T cd01858         102 QISVGFIGYPNVGKSSIINTLRSKKVCKVAPIPGETKVWQYITL---MKRIYLIDCPGV  157 (157)
T ss_pred             ceEEEEEeCCCCChHHHHHHHhcCCceeeCCCCCeeEeEEEEEc---CCCEEEEECcCC
Confidence            45788999999999999999999888778999999987544332   234889999994

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.

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

Probab=98.88  E-value=1.2e-08  Score=90.69  Aligned_cols=116  Identities=20%  Similarity=0.194  Sum_probs=79.3

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCcccc---------------ccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchh
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSI---------------VTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIH  179 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~---------------~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~  179 (254)
                      .++|+++.+-..|||||+..++.+.-..               .....+.|.-....-+.+.+.++.++||||..+... 
T Consensus         5 iRNIAIIAHVDHGKTTLVD~LLkQSGtf~~~e~v~ERvMDSnDlEkERGITILaKnTav~~~~~~INIvDTPGHADFGG-   83 (603)
T COG1217           5 IRNIAIIAHVDHGKTTLVDALLKQSGTFREREEVAERVMDSNDLEKERGITILAKNTAVNYNGTRINIVDTPGHADFGG-   83 (603)
T ss_pred             cceeEEEEEecCCcchHHHHHHhhccccccccchhhhhcCccchhhhcCcEEEeccceeecCCeEEEEecCCCcCCccc-
Confidence            4579999999999999999999764211               011123333333344578889999999999766542 


Q ss_pred             hhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          180 MLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       180 ~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                              ...+.+.-.|++++++|+.++..........  +.+..+.+-|+|+||+|..+.
T Consensus        84 --------EVERvl~MVDgvlLlVDA~EGpMPQTrFVlk--KAl~~gL~PIVVvNKiDrp~A  135 (603)
T COG1217          84 --------EVERVLSMVDGVLLLVDASEGPMPQTRFVLK--KALALGLKPIVVINKIDRPDA  135 (603)
T ss_pred             --------hhhhhhhhcceEEEEEEcccCCCCchhhhHH--HHHHcCCCcEEEEeCCCCCCC
Confidence                    2233467799999999999976554443221  122346677899999999765

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=98.88  E-value=5.7e-09  Score=83.22  Aligned_cols=58  Identities=34%  Similarity=0.423  Sum_probs=48.6

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCC
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGI  173 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~  173 (254)
                      ....+++++|.+|+|||||+|++.+.+...+++.|++|+.......   +..+.++||||+
T Consensus       115 ~~~~~~~~vG~pnvGKSslin~l~~~~~~~~~~~pg~T~~~~~~~~---~~~~~l~DtPGi  172 (172)
T cd04178         115 KTSITVGVVGFPNVGKSSLINSLKRSRACNVGATPGVTKSMQEVHL---DKKVKLLDSPGI  172 (172)
T ss_pred             ccCcEEEEEcCCCCCHHHHHHHHhCcccceecCCCCeEcceEEEEe---CCCEEEEECcCC
Confidence            3446899999999999999999999888779999999987655444   246899999994

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

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

Probab=98.86  E-value=2.5e-08  Score=88.10  Aligned_cols=119  Identities=20%  Similarity=0.234  Sum_probs=86.1

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcC--cccc-------------------ccCCCCceEEEEEEEEecCCeeEEEEecC
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQ--KLSI-------------------VTNKPQTTRHRILGICSGPEYQMILYDTP  171 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~--~~~~-------------------~~~~~~tt~~~~~~~~~~~~~~~~liDtp  171 (254)
                      .+.+..+|+..|.+|||||...++--  .+..                   .....+.+.....-.+++.+..++++|||
T Consensus        10 ~rRRTFAIISHPDAGKTTlTEkLLlfGgaIq~AG~Vk~rk~~~~a~SDWM~iEkqRGISVtsSVMqF~Y~~~~iNLLDTP   89 (528)
T COG4108          10 ARRRTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGKHAKSDWMEIEKQRGISVTSSVMQFDYADCLVNLLDTP   89 (528)
T ss_pred             hhhcceeEEecCCCCcccHHHHHHHhcchhhhcceeeeccCCcccccHHHHHHHhcCceEEeeEEEeccCCeEEeccCCC
Confidence            34567899999999999999987622  1100                   01111222233334567889999999999


Q ss_pred             CCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          172 GIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       172 G~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      |..+.+         +.+.+.+..+|..|.|+|+..+.+.....+.+..+  .+++||+-.+||.|....+
T Consensus        90 GHeDFS---------EDTYRtLtAvDsAvMVIDaAKGiE~qT~KLfeVcr--lR~iPI~TFiNKlDR~~rd  149 (528)
T COG4108          90 GHEDFS---------EDTYRTLTAVDSAVMVIDAAKGIEPQTLKLFEVCR--LRDIPIFTFINKLDREGRD  149 (528)
T ss_pred             Cccccc---------hhHHHHHHhhheeeEEEecccCccHHHHHHHHHHh--hcCCceEEEeeccccccCC
Confidence            977665         33445567799999999999998887777777766  4689999999999997543

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

Probab=98.83  E-value=1.3e-08  Score=75.15  Aligned_cols=111  Identities=20%  Similarity=0.177  Sum_probs=73.6

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccC
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGIN  195 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~  195 (254)
                      .+++++|..|+|||||.+.+.+....    +.- |..   ..+..    =-.+||||-.-.     ++.+...+......
T Consensus         2 Kri~~vG~~gcGKTtL~q~L~G~~~l----ykK-TQA---ve~~d----~~~IDTPGEy~~-----~~~~Y~aL~tt~~d   64 (148)
T COG4917           2 KRIAFVGQVGCGKTTLFQSLYGNDTL----YKK-TQA---VEFND----KGDIDTPGEYFE-----HPRWYHALITTLQD   64 (148)
T ss_pred             ceeEEecccccCchhHHHHhhcchhh----hcc-cce---eeccC----ccccCCchhhhh-----hhHHHHHHHHHhhc
Confidence            47999999999999999999987642    111 110   01111    125899993211     23333556667889


Q ss_pred             ccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHHHH
Q 025346          196 ADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKL  248 (254)
Q Consensus       196 ~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~~~  248 (254)
                      +|++++|-.+.+........+..+     ...|+|-|++|+|+.+..+++...
T Consensus        65 advi~~v~~and~~s~f~p~f~~~-----~~k~vIgvVTK~DLaed~dI~~~~  112 (148)
T COG4917          65 ADVIIYVHAANDPESRFPPGFLDI-----GVKKVIGVVTKADLAEDADISLVK  112 (148)
T ss_pred             cceeeeeecccCccccCCcccccc-----cccceEEEEecccccchHhHHHHH
Confidence            999999999988655544443332     235699999999999877666543

>KOG2486 consensus Predicted GTPase [General function prediction only]

Probab=98.82  E-value=3.6e-08  Score=82.49  Aligned_cols=124  Identities=24%  Similarity=0.171  Sum_probs=82.9

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCcccc--ccCCCCceEEEEEEEEecCCeeEEEEecCCC-----cccchhhhhHH
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQKLSI--VTNKPQTTRHRILGICSGPEYQMILYDTPGI-----IEKKIHMLDSM  184 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~--~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~-----~~~~~~~~~~~  184 (254)
                      ..+.+.+++.|.+++|||||+|.+++.+...  ....++-|+.....   .-+.++.++|.||+     .......+...
T Consensus       133 k~~~pe~~~~g~SNVGKSSLln~~~r~k~~~~t~k~K~g~Tq~in~f---~v~~~~~~vDlPG~~~a~y~~~~~~d~~~~  209 (320)
T KOG2486|consen  133 KDKRPELAFYGRSNVGKSSLLNDLVRVKNIADTSKSKNGKTQAINHF---HVGKSWYEVDLPGYGRAGYGFELPADWDKF  209 (320)
T ss_pred             CCCCceeeeecCCcccHHHHHhhhhhhhhhhhhcCCCCccceeeeee---eccceEEEEecCCcccccCCccCcchHhHh
Confidence            4556799999999999999999999876422  12244555443322   33668999999994     33333333332


Q ss_pred             HHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          185 MMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       185 ~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                       ...+...-...-.+++++|++-+....+.....++.  ..+.|+.+|.||||....
T Consensus       210 -t~~Y~leR~nLv~~FLLvd~sv~i~~~D~~~i~~~g--e~~VP~t~vfTK~DK~k~  263 (320)
T KOG2486|consen  210 -TKSYLLERENLVRVFLLVDASVPIQPTDNPEIAWLG--ENNVPMTSVFTKCDKQKK  263 (320)
T ss_pred             -HHHHHHhhhhhheeeeeeeccCCCCCCChHHHHHHh--hcCCCeEEeeehhhhhhh
Confidence             233333344566678889998877666655555554  358999999999998643

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.81  E-value=1.3e-08  Score=78.52  Aligned_cols=55  Identities=35%  Similarity=0.594  Sum_probs=45.4

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGII  174 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~  174 (254)
                      +++++|.+|+||||++|++.+.....++..+++|+......++.   .+.+|||||+.
T Consensus        85 ~~~~~G~~~vGKstlin~l~~~~~~~~~~~~~~~~~~~~~~~~~---~~~i~DtpG~~  139 (141)
T cd01857          85 TIGLVGYPNVGKSSLINALVGKKKVSVSATPGKTKHFQTIFLTP---TITLCDCPGLV  139 (141)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCceeeCCCCCcccceEEEEeCC---CEEEEECCCcC
Confidence            89999999999999999999988766788888887755444422   68999999974

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.

>KOG0468 consensus U5 snRNP-specific protein [Translation, ribosomal structure and biogenesis]

Probab=98.80  E-value=1.9e-08  Score=92.64  Aligned_cols=128  Identities=22%  Similarity=0.365  Sum_probs=84.5

Q ss_pred             hhhhhccccCCCCCCCcEEEEEeCCCCChHHHHHHHhcCcccccc-------CCCCc---------eEEEE--EEE---E
Q 025346          100 YEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVT-------NKPQT---------TRHRI--LGI---C  158 (254)
Q Consensus       100 ~~~~~~~~~~~~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~-------~~~~t---------t~~~~--~~~---~  158 (254)
                      +.+..+............++++|+-.+|||+|+..+....-+...       .++.+         +....  .-.   .
T Consensus       113 y~~~yl~~l~~~p~~irnV~l~GhLhhGKT~l~D~Lv~~tHp~~~~~~e~~lrytD~l~~E~eRg~sIK~~p~Tl~l~D~  192 (971)
T KOG0468|consen  113 YDLEYLAGLMDNPERIRNVGLVGHLHHGKTALMDLLVEQTHPDFSKNTEADLRYTDTLFYEQERGCSIKSTPVTLVLSDS  192 (971)
T ss_pred             hhHHHHHHhccCcceEEEEEEeeccccChhHHHHhhceeccccccccccccccccccchhhHhcCceEeecceEEEEecC
Confidence            444555555666777889999999999999999999876432110       11111         11111  111   1


Q ss_pred             ecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchh-HHHHHHHhhcccCCCCCEEEEEecCC
Q 025346          159 SGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPER-IDEILEEGVGDHKDKLPILLVLNKKD  237 (254)
Q Consensus       159 ~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~-~~~~~~~~~~~~~~~~piivV~nK~D  237 (254)
                      .+..+-++++||||..+..         ....+.++.+|++++|+|+.++..- ..+.+...++   .+.|+++|+||+|
T Consensus       193 ~~KS~l~nilDTPGHVnF~---------DE~ta~l~~sDgvVlvvDv~EGVmlntEr~ikhaiq---~~~~i~vviNKiD  260 (971)
T KOG0468|consen  193 KGKSYLMNILDTPGHVNFS---------DETTASLRLSDGVVLVVDVAEGVMLNTERIIKHAIQ---NRLPIVVVINKVD  260 (971)
T ss_pred             cCceeeeeeecCCCcccch---------HHHHHHhhhcceEEEEEEcccCceeeHHHHHHHHHh---ccCcEEEEEehhH
Confidence            2334568999999965443         5555668899999999999986543 3344444443   4689999999999


Q ss_pred             CC
Q 025346          238 LI  239 (254)
Q Consensus       238 l~  239 (254)
                      ++
T Consensus       261 RL  262 (971)
T KOG0468|consen  261 RL  262 (971)
T ss_pred             HH
Confidence            84

>KOG3886 consensus GTP-binding protein [Signal transduction mechanisms]

Probab=98.79  E-value=2.1e-08  Score=81.69  Aligned_cols=129  Identities=15%  Similarity=0.177  Sum_probs=88.4

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCC-eeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPE-YQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~-~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      ..+|+++|.+|+||||+-..+...-.+.-...++.|.+....++..-| .-+.+||..|.  .  .-++.++..+-...+
T Consensus         4 ~kKvlLMGrsGsGKsSmrsiiF~ny~a~D~~rlg~tidveHsh~RflGnl~LnlwDcGgq--e--~fmen~~~~q~d~iF   79 (295)
T KOG3886|consen    4 KKKVLLMGRSGSGKSSMRSIIFANYIARDTRRLGATIDVEHSHVRFLGNLVLNLWDCGGQ--E--EFMENYLSSQEDNIF   79 (295)
T ss_pred             cceEEEeccCCCCccccchhhhhhhhhhhhhccCCcceeeehhhhhhhhheeehhccCCc--H--HHHHHHHhhcchhhh
Confidence            468999999999999998877766555556667777777776665443 67999999993  2  123333333333457


Q ss_pred             cCccEEEEEEeCCCCc-----hhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHHHH
Q 025346          194 INADCIVVLVDACKAP-----ERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKL  248 (254)
Q Consensus       194 ~~~d~iv~vid~~~~~-----~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~~~  248 (254)
                      ...+++++|+|++...     ......++.+++ ..+...+.+.++|.|++..+..+...
T Consensus        80 ~nV~vli~vFDves~e~~~D~~~yqk~Le~ll~-~SP~AkiF~l~hKmDLv~~d~r~~if  138 (295)
T KOG3886|consen   80 RNVQVLIYVFDVESREMEKDFHYYQKCLEALLQ-NSPEAKIFCLLHKMDLVQEDARELIF  138 (295)
T ss_pred             eeheeeeeeeeccchhhhhhHHHHHHHHHHHHh-cCCcceEEEEEeechhcccchHHHHH
Confidence            8899999999997631     222233333333 34667899999999998876655443

>KOG1486 consensus GTP-binding protein DRG2 (ODN superfamily) [Signal transduction mechanisms]

Probab=98.78  E-value=1.9e-08  Score=83.01  Aligned_cols=91  Identities=31%  Similarity=0.361  Sum_probs=73.5

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccC
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGIN  195 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~  195 (254)
                      -+++++|.|++|||||+..+...+.. ...+.+||..++.+...+.+..++++|.||+.+...+.... . ++..+.++.
T Consensus        63 aRValIGfPSVGKStlLs~iT~T~Se-aA~yeFTTLtcIpGvi~y~ga~IQllDLPGIieGAsqgkGR-G-RQviavArt  139 (364)
T KOG1486|consen   63 ARVALIGFPSVGKSTLLSKITSTHSE-AASYEFTTLTCIPGVIHYNGANIQLLDLPGIIEGASQGKGR-G-RQVIAVART  139 (364)
T ss_pred             eEEEEecCCCccHHHHHHHhhcchhh-hhceeeeEEEeecceEEecCceEEEecCcccccccccCCCC-C-ceEEEEeec
Confidence            48999999999999999999877654 67888999999999999999999999999987654322111 1 333455778


Q ss_pred             ccEEEEEEeCCCCc
Q 025346          196 ADCIVVLVDACKAP  209 (254)
Q Consensus       196 ~d~iv~vid~~~~~  209 (254)
                      ||+|+.|.|++.+.
T Consensus       140 aDlilMvLDatk~e  153 (364)
T KOG1486|consen  140 ADLILMVLDATKSE  153 (364)
T ss_pred             ccEEEEEecCCcch
Confidence            99999999998853

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

Probab=98.76  E-value=2.4e-08  Score=87.09  Aligned_cols=89  Identities=24%  Similarity=0.285  Sum_probs=69.1

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecC------------------CeeEEEEecCCCccc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGP------------------EYQMILYDTPGIIEK  176 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~------------------~~~~~liDtpG~~~~  176 (254)
                      ..++.++|.|++|||||.|.++... ....+||++|.++..+.....                  ...+.++|.+|+...
T Consensus         2 ~l~~GIVGlPNVGKSTlFnAlT~~~-a~~aNYPF~TIePN~Giv~v~d~rl~~L~~~~~c~~k~~~~~ve~vDIAGLV~G   80 (372)
T COG0012           2 SLKIGIVGLPNVGKSTLFNALTKAG-AEIANYPFCTIEPNVGVVYVPDCRLDELAEIVKCPPKIRPAPVEFVDIAGLVKG   80 (372)
T ss_pred             CceeEEecCCCCcHHHHHHHHHcCC-ccccCCCcccccCCeeEEecCchHHHHHHHhcCCCCcEEeeeeEEEEecccCCC
Confidence            4579999999999999999999988 558999999988877765321                  135889999998654


Q ss_pred             chhhhhHHHHHHHHHHccCccEEEEEEeCC
Q 025346          177 KIHMLDSMMMKNVRSAGINADCIVVLVDAC  206 (254)
Q Consensus       177 ~~~~~~~~~~~~~~~~~~~~d~iv~vid~~  206 (254)
                      ..+.  ..+-.++...++.+|+|+.|+|+.
T Consensus        81 As~G--eGLGNkFL~~IRevdaI~hVVr~f  108 (372)
T COG0012          81 ASKG--EGLGNKFLDNIREVDAIIHVVRCF  108 (372)
T ss_pred             cccC--CCcchHHHHhhhhcCeEEEEEEec
Confidence            3221  122356677789999999999986

>cd01851 GBP Guanylate-binding protein (GBP), N-terminal domain

Probab=98.74  E-value=1.2e-07  Score=78.87  Aligned_cols=93  Identities=20%  Similarity=0.201  Sum_probs=65.2

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcC--ccccccCCCCceEEEEEEEEec---CCeeEEEEecCCCcccchhh-hhHHHHH
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQ--KLSIVTNKPQTTRHRILGICSG---PEYQMILYDTPGIIEKKIHM-LDSMMMK  187 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~--~~~~~~~~~~tt~~~~~~~~~~---~~~~~~liDtpG~~~~~~~~-~~~~~~~  187 (254)
                      +...|+++|++++|||+|+|.+++.  .+........+|+.........   .+..+.++||||+.+..... ......-
T Consensus         6 ~v~vvsv~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~gi~~~~~~~~~~~~~~v~~lDteG~~~~~~~~~~~~~~~~   85 (224)
T cd01851           6 PVAVVSVFGPQSSGKSFLLNHLFGTLSGFDVMDTSQQTTKGIWMWSVPFKLGKEHAVLLLDTEGTDGRERGEFEDDARLF   85 (224)
T ss_pred             CEEEEEEECCCCCCHHHHHHHHhCCCCCeEecCCCCCCccceEEEeccccCCCcceEEEEecCCcCccccCchhhhhHHH
Confidence            3457999999999999999999999  7776666678888766655544   36789999999987654333 1111111


Q ss_pred             HHHHHccCccEEEEEEeCCCC
Q 025346          188 NVRSAGINADCIVVLVDACKA  208 (254)
Q Consensus       188 ~~~~~~~~~d~iv~vid~~~~  208 (254)
                      .+  ..-.++++||.++....
T Consensus        86 ~l--~~llss~~i~n~~~~~~  104 (224)
T cd01851          86 AL--ATLLSSVLIYNSWETIL  104 (224)
T ss_pred             HH--HHHHhCEEEEeccCccc
Confidence            11  12258899998888653

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

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.73  E-value=3.2e-08  Score=77.47  Aligned_cols=58  Identities=40%  Similarity=0.473  Sum_probs=48.0

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCC
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGI  173 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~  173 (254)
                      ....+++++|.+|+||||++|.+.+.....++..+++|+........   ..+.++||||+
T Consensus        98 ~~~~~~~~~G~~~~GKstlin~l~~~~~~~~~~~~~~t~~~~~~~~~---~~~~liDtPG~  155 (155)
T cd01849          98 KKSITVGVIGYPNVGKSSVINALLNKLKLKVGNVPGTTTSQQEVKLD---NKIKLLDTPGI  155 (155)
T ss_pred             ccCcEEEEEccCCCCHHHHHHHHHccccccccCCCCcccceEEEEec---CCEEEEECCCC
Confidence            34678999999999999999999998766678889999887665442   46899999995

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.

>COG1161 Predicted GTPases [General function prediction only]

Probab=98.72  E-value=2.9e-08  Score=86.87  Aligned_cols=63  Identities=41%  Similarity=0.571  Sum_probs=53.1

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccc
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK  177 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~  177 (254)
                      .....+++++|.+++||||+||++.++....+++.|++|........+.   .+.++||||+.-..
T Consensus       129 ~~~~~~v~vvG~PNVGKSslIN~L~~k~~~~~s~~PG~Tk~~q~i~~~~---~i~LlDtPGii~~~  191 (322)
T COG1161         129 LKRKIRVGVVGYPNVGKSTLINRLLGKKVAKTSNRPGTTKGIQWIKLDD---GIYLLDTPGIIPPK  191 (322)
T ss_pred             CccceEEEEEcCCCCcHHHHHHHHhcccceeeCCCCceecceEEEEcCC---CeEEecCCCcCCCC
Confidence            3455789999999999999999999999988999999998876655543   38999999987654

>cd01855 YqeH YqeH

Probab=98.71  E-value=2.5e-08  Score=80.68  Aligned_cols=57  Identities=42%  Similarity=0.482  Sum_probs=45.4

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCcc--------ccccCCCCceEEEEEEEEecCCeeEEEEecCCC
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKL--------SIVTNKPQTTRHRILGICSGPEYQMILYDTPGI  173 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~--------~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~  173 (254)
                      ....++++|.+|+|||||+|.+.+...        ..++..|+||+.........   .+.++||||+
T Consensus       126 ~~~~~~~~G~~nvGKStliN~l~~~~~~~~~~~~~~~~~~~~gtT~~~~~~~~~~---~~~~~DtPG~  190 (190)
T cd01855         126 KGGDVYVVGATNVGKSTLINALLKKDNGKKKLKDLLTTSPIPGTTLDLIKIPLGN---GKKLYDTPGI  190 (190)
T ss_pred             cCCcEEEEcCCCCCHHHHHHHHHHhcccccccccccccCCCCCeeeeeEEEecCC---CCEEEeCcCC
Confidence            346899999999999999999997542        24677889998877665533   5799999995

YqeH is an essential GTP-binding protein. Depletion of YqeH induces an excess initiation of DNA replication, suggesting that it negatively controls initiation of chromosome replication. The YqeH subfamily is common in eukaryotes and sporadically present in bacteria with probable acquisition by plants from chloroplasts. Proteins of the YqeH family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases.

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.69  E-value=6.6e-08  Score=82.95  Aligned_cols=63  Identities=37%  Similarity=0.512  Sum_probs=50.7

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccch
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKI  178 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~  178 (254)
                      ....+++++|.+|+|||||+|++.+.+...+++.|++|+.......   +..+.++||||+.....
T Consensus       116 ~~~~~~~~vG~~nvGKSslin~l~~~~~~~~~~~~g~T~~~~~~~~---~~~~~l~DtPG~~~~~~  178 (276)
T TIGR03596       116 NRPIRAMIVGIPNVGKSTLINRLAGKKVAKVGNRPGVTKGQQWIKL---SDGLELLDTPGILWPKF  178 (276)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHhCCCccccCCCCCeecceEEEEe---CCCEEEEECCCcccCCC
Confidence            3457899999999999999999999887778999999987654433   23589999999865543

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.

>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]

Probab=98.69  E-value=4.9e-08  Score=90.88  Aligned_cols=117  Identities=21%  Similarity=0.245  Sum_probs=81.0

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEe------------------cCCeeEEEEecCC
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICS------------------GPEYQMILYDTPG  172 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~------------------~~~~~~~liDtpG  172 (254)
                      .+.+.+.++++|+..+|||-|+..+-+..+. .+...+.|...-..++.                  ..-..+.+|||||
T Consensus       471 ~~lRSPIcCilGHVDTGKTKlld~ir~tNVq-egeaggitqqIgAt~fp~~ni~e~tk~~~~~~K~~~kvPg~lvIdtpg  549 (1064)
T KOG1144|consen  471 ENLRSPICCILGHVDTGKTKLLDKIRGTNVQ-EGEAGGITQQIGATYFPAENIREKTKELKKDAKKRLKVPGLLVIDTPG  549 (1064)
T ss_pred             hhcCCceEEEeecccccchHHHHHhhccccc-cccccceeeeccccccchHHHHHHHHHHHhhhhhhcCCCeeEEecCCC
Confidence            4667889999999999999999999887654 34444555432222221                  1123488999999


Q ss_pred             CcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCC
Q 025346          173 IIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLI  239 (254)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~  239 (254)
                        ...|..++.       .....||.+|+|+|+.++.+...-.-..+++  .++.|+||.+||+|.+
T Consensus       550 --hEsFtnlRs-------rgsslC~~aIlvvdImhGlepqtiESi~lLR--~rktpFivALNKiDRL  605 (1064)
T KOG1144|consen  550 --HESFTNLRS-------RGSSLCDLAILVVDIMHGLEPQTIESINLLR--MRKTPFIVALNKIDRL  605 (1064)
T ss_pred             --chhhhhhhh-------ccccccceEEEEeehhccCCcchhHHHHHHH--hcCCCeEEeehhhhhh
Confidence              444444433       3367899999999999987654433333333  4679999999999986

>cd01856 YlqF YlqF

Probab=98.69  E-value=6.6e-08  Score=76.97  Aligned_cols=58  Identities=43%  Similarity=0.526  Sum_probs=47.6

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCC
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGI  173 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~  173 (254)
                      ....+++++|.+|+|||||+|++.+..+..++..+++|........+   ..+.++||||+
T Consensus       113 ~~~~~~~~~G~~~vGKstlin~l~~~~~~~~~~~~~~T~~~~~~~~~---~~~~~iDtpG~  170 (171)
T cd01856         113 PRGIRAMVVGIPNVGKSTLINRLRGKKVAKVGNKPGVTKGIQWIKIS---PGIYLLDTPGI  170 (171)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHhCCCceeecCCCCEEeeeEEEEec---CCEEEEECCCC
Confidence            34568999999999999999999998876677888888776654443   56899999996

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.

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

Probab=98.69  E-value=1.1e-07  Score=84.95  Aligned_cols=126  Identities=23%  Similarity=0.289  Sum_probs=82.1

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCcccc--------------ccCCCCceEEEEEEEE-----ecCCeeEEEEecCCC
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSI--------------VTNKPQTTRHRILGIC-----SGPEYQMILYDTPGI  173 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~--------------~~~~~~tt~~~~~~~~-----~~~~~~~~liDtpG~  173 (254)
                      .+.++..++.+-..|||||..+++...-..              .....+.|.-.....+     ++..+.+.++||||.
T Consensus         7 ~~IRNFsIIAHIDHGKSTLaDRlle~t~~~~~Rem~~Q~LDsMdiERERGITIKaq~v~l~Yk~~~g~~Y~lnlIDTPGH   86 (603)
T COG0481           7 KNIRNFSIIAHIDHGKSTLADRLLELTGGLSEREMRAQVLDSMDIERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGH   86 (603)
T ss_pred             hhccceEEEEEecCCcchHHHHHHHHhcCcChHHHHHHhhhhhhhHhhcCceEEeeEEEEEEEeCCCCEEEEEEcCCCCc
Confidence            344567888889999999999998542211              1223344433222222     335678999999998


Q ss_pred             cccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh--HhHHHHHH
Q 025346          174 IEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP--GEIAKKLE  249 (254)
Q Consensus       174 ~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~--~~~~~~~~  249 (254)
                      .+..++..+.         +..|.+.++|+|++.+.+...  +.........+.-++-|+||+||...  +.+....+
T Consensus        87 VDFsYEVSRS---------LAACEGalLvVDAsQGveAQT--lAN~YlAle~~LeIiPViNKIDLP~Adpervk~eIe  153 (603)
T COG0481          87 VDFSYEVSRS---------LAACEGALLVVDASQGVEAQT--LANVYLALENNLEIIPVLNKIDLPAADPERVKQEIE  153 (603)
T ss_pred             cceEEEehhh---------HhhCCCcEEEEECccchHHHH--HHHHHHHHHcCcEEEEeeecccCCCCCHHHHHHHHH
Confidence            8887665433         567889999999999765422  22222223457889999999999754  44444443

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.68  E-value=1e-07  Score=82.25  Aligned_cols=62  Identities=35%  Similarity=0.501  Sum_probs=51.1

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK  177 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~  177 (254)
                      ....+++++|.+|+||||++|++.+.+...+++.|++|+.......   +..+.++||||+....
T Consensus       119 ~~~~~~~~~G~pnvGKSsliN~l~~~~~~~~~~~~g~T~~~~~~~~---~~~~~l~DtPGi~~~~  180 (287)
T PRK09563        119 PRAIRAMIIGIPNVGKSTLINRLAGKKIAKTGNRPGVTKAQQWIKL---GKGLELLDTPGILWPK  180 (287)
T ss_pred             cCceEEEEECCCCCCHHHHHHHHhcCCccccCCCCCeEEEEEEEEe---CCcEEEEECCCcCCCC
Confidence            3456899999999999999999999988778999999988654333   2358899999987654

>KOG1673 consensus Ras GTPases [General function prediction only]

Probab=98.68  E-value=7.8e-08  Score=73.56  Aligned_cols=119  Identities=20%  Similarity=0.252  Sum_probs=78.8

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCcccccc-CCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHH
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVT-NKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNV  189 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~-~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~  189 (254)
                      .+....++.++|.+..|||||+..+.+....... ...+...........+....+.+||..|  +.++..       .+
T Consensus        16 ~n~Vslkv~llGD~qiGKTs~mvkYV~~~~de~~~q~~GvN~mdkt~~i~~t~IsfSIwdlgG--~~~~~n-------~l   86 (205)
T KOG1673|consen   16 SNLVSLKVGLLGDAQIGKTSLMVKYVQNEYDEEYTQTLGVNFMDKTVSIRGTDISFSIWDLGG--QREFIN-------ML   86 (205)
T ss_pred             ccceEEEEEeecccccCceeeehhhhcchhHHHHHHHhCccceeeEEEecceEEEEEEEecCC--cHhhhc-------cC
Confidence            4455679999999999999999999988763211 1112111111223345567899999999  332222       12


Q ss_pred             HHHccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCC
Q 025346          190 RSAGINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLI  239 (254)
Q Consensus       190 ~~~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~  239 (254)
                      --....+-+|+|++|.++.  ...+..|+.+.......-+| ++|++|.|+.
T Consensus        87 Piac~dsvaIlFmFDLt~r~TLnSi~~WY~QAr~~NktAiP-ilvGTKyD~f  137 (205)
T KOG1673|consen   87 PIACKDSVAILFMFDLTRRSTLNSIKEWYRQARGLNKTAIP-ILVGTKYDLF  137 (205)
T ss_pred             ceeecCcEEEEEEEecCchHHHHHHHHHHHHHhccCCccce-EEeccchHhh
Confidence            2235678899999999873  45677887776655445567 5689999984

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.67  E-value=3.4e-08  Score=87.83  Aligned_cols=127  Identities=20%  Similarity=0.171  Sum_probs=75.9

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCc-----cccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHH-
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQK-----LSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKN-  188 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~-----~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~-  188 (254)
                      ...++++|.+|+|||||+|.+++..     ...++..|+||........   +..+.++||||+....  .+....... 
T Consensus       154 ~~~v~~vG~~nvGKStliN~l~~~~~~~~~~~~~s~~pgtT~~~~~~~~---~~~~~l~DtPG~~~~~--~~~~~l~~~~  228 (360)
T TIGR03597       154 KKDVYVVGVTNVGKSSLINKLLKQNNGDKDVITTSPFPGTTLDLIEIPL---DDGHSLYDTPGIINSH--QMAHYLDKKD  228 (360)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHhhccCCcceeeecCCCCeEeeEEEEEe---CCCCEEEECCCCCChh--HhhhhcCHHH
Confidence            3689999999999999999999753     2457889999988765544   2236799999986542  222211111 


Q ss_pred             HHH--HccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHHHH
Q 025346          189 VRS--AGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKL  248 (254)
Q Consensus       189 ~~~--~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~~~  248 (254)
                      ...  --.....+++.++.......-.-...+.+.  ..+..+.+.++|.+..+.-..++..
T Consensus       229 l~~~~~~~~i~~~~~~l~~~q~~~~ggl~~~d~~~--~~~~~~~~~~~~~~~~h~t~~~~a~  288 (360)
T TIGR03597       229 LKYITPKKEIKPKTYQLNPNQTLFLGGLARFDYLK--GEKTSFTFYVSNELNIHRTKLENAD  288 (360)
T ss_pred             HhhcCCCCccCceEEEeCCCCEEEEceEEEEEEec--CCceEEEEEccCCceeEeechhhhH
Confidence            111  123567778888876532110000001111  2345677788887777664444333

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.

>KOG0072 consensus GTP-binding ADP-ribosylation factor-like protein ARL1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.66  E-value=9.7e-08  Score=72.16  Aligned_cols=118  Identities=17%  Similarity=0.206  Sum_probs=77.9

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      +..+++++|--|+|||++.-++--.+.  +...|+...  ....+...+.++++||..|  +.+   ++    --|..|+
T Consensus        17 ~e~rililgldGaGkttIlyrlqvgev--vttkPtigf--nve~v~yKNLk~~vwdLgg--qtS---ir----PyWRcYy   83 (182)
T KOG0072|consen   17 REMRILILGLDGAGKTTILYRLQVGEV--VTTKPTIGF--NVETVPYKNLKFQVWDLGG--QTS---IR----PYWRCYY   83 (182)
T ss_pred             cceEEEEeeccCCCeeEEEEEcccCcc--cccCCCCCc--CccccccccccceeeEccC--ccc---cc----HHHHHHh
Confidence            556899999999999999887765554  233333222  2334556788999999999  332   22    3356779


Q ss_pred             cCccEEEEEEeCCCCc--hhHHHHHHHhhccc-CCCCCEEEEEecCCCCChHhH
Q 025346          194 INADCIVVLVDACKAP--ERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPGEI  244 (254)
Q Consensus       194 ~~~d~iv~vid~~~~~--~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~~~  244 (254)
                      .+.|.+|||+|.++..  ......+...+++. -.+..+++++||.|.......
T Consensus        84 ~dt~avIyVVDssd~dris~a~~el~~mL~E~eLq~a~llv~anKqD~~~~~t~  137 (182)
T KOG0072|consen   84 ADTDAVIYVVDSSDRDRISIAGVELYSMLQEEELQHAKLLVFANKQDYSGALTR  137 (182)
T ss_pred             cccceEEEEEeccchhhhhhhHHHHHHHhccHhhcCceEEEEeccccchhhhhH
Confidence            9999999999998732  12222233333322 245778999999998655433

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

Probab=98.64  E-value=5.9e-07  Score=79.73  Aligned_cols=125  Identities=18%  Similarity=0.080  Sum_probs=94.2

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccc--cccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLS--IVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~--~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      .++..|.--.|||||+..+.+....  ......++|.+....+.+.++..+.|+|.||+.+.         .......+.
T Consensus         2 ii~t~GhidHgkT~L~~altg~~~d~l~EekKRG~TiDlg~~y~~~~d~~~~fIDvpgh~~~---------i~~miag~~   72 (447)
T COG3276           2 IIGTAGHIDHGKTTLLKALTGGVTDRLPEEKKRGITIDLGFYYRKLEDGVMGFIDVPGHPDF---------ISNLLAGLG   72 (447)
T ss_pred             eEEEeeeeeccchhhhhhhcccccccchhhhhcCceEeeeeEeccCCCCceEEeeCCCcHHH---------HHHHHhhhc
Confidence            3677888889999999999886532  23455688888888888877889999999995332         344555678


Q ss_pred             CccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHHHHHHH
Q 025346          195 NADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLEVT  251 (254)
Q Consensus       195 ~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~~~~~~  251 (254)
                      ..|+.++|+++.++..........++..++ ....++|+||+|+.++..++...+++
T Consensus        73 ~~d~alLvV~~deGl~~qtgEhL~iLdllg-i~~giivltk~D~~d~~r~e~~i~~I  128 (447)
T COG3276          73 GIDYALLVVAADEGLMAQTGEHLLILDLLG-IKNGIIVLTKADRVDEARIEQKIKQI  128 (447)
T ss_pred             CCceEEEEEeCccCcchhhHHHHHHHHhcC-CCceEEEEeccccccHHHHHHHHHHH
Confidence            899999999998877766665555565542 24569999999999987776665554

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

Probab=98.63  E-value=3.5e-07  Score=77.20  Aligned_cols=124  Identities=18%  Similarity=0.169  Sum_probs=83.3

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcC----------cccccc-----CCCCceEEEEEEEEecCCeeEEEEecCCCcccc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQ----------KLSIVT-----NKPQTTRHRILGICSGPEYQMILYDTPGIIEKK  177 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~----------~~~~~~-----~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~  177 (254)
                      .+..+|..+|.-..|||||...+...          .+....     ...+.|.......+......+-.+|+||..   
T Consensus        10 kphVNigtiGHvdHGKTTLtaAit~~la~~~~~~~~~y~~id~aPeEk~rGITIntahveyet~~rhyahVDcPGHa---   86 (394)
T COG0050          10 KPHVNVGTIGHVDHGKTTLTAAITTVLAKKGGAEAKAYDQIDNAPEEKARGITINTAHVEYETANRHYAHVDCPGHA---   86 (394)
T ss_pred             CCeeEEEEeccccCchhhHHHHHHHHHHhhccccccchhhhccCchHhhcCceeccceeEEecCCceEEeccCCChH---
Confidence            44568999999999999998877532          111111     223455555555667778889999999943   


Q ss_pred             hhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCC-CEEEEEecCCCCChHhHHHH
Q 025346          178 IHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKL-PILLVLNKKDLIKPGEIAKK  247 (254)
Q Consensus       178 ~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~-piivV~nK~Dl~~~~~~~~~  247 (254)
                            -+......-....|+.|+|+.+.++..........+.++  -+. .+++++||+|+++.+++.+.
T Consensus        87 ------DYvKNMItgAaqmDgAILVVsA~dGpmPqTrEHiLlarq--vGvp~ivvflnK~Dmvdd~ellel  149 (394)
T COG0050          87 ------DYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLARQ--VGVPYIVVFLNKVDMVDDEELLEL  149 (394)
T ss_pred             ------HHHHHHhhhHHhcCccEEEEEcCCCCCCcchhhhhhhhh--cCCcEEEEEEecccccCcHHHHHH
Confidence                  233444455678899999999999765544433333332  245 47888999999987665443

>TIGR00092 GTP-binding protein YchF

Probab=98.63  E-value=1e-07  Score=84.18  Aligned_cols=89  Identities=21%  Similarity=0.155  Sum_probs=69.1

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCC-----------------eeEEEEecCCCcccch
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPE-----------------YQMILYDTPGIIEKKI  178 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~-----------------~~~~liDtpG~~~~~~  178 (254)
                      .+++++|.|++|||||+|.+.+.....+.++|++|..+..+.+...+                 ..+.++|.||+.....
T Consensus         3 lk~GivGlPn~GKSTlfnaLT~~~~~~~a~ypftTi~p~~g~v~v~d~r~d~L~~~~~~~~~~~a~i~~~DiaGlv~gAs   82 (368)
T TIGR00092         3 LSGGIVGLPNVGKSTLFAATTNLLGNEAANPPFTTIEPNAGVVNPSDPRLDLLAIYIKPEKVPPTTTEFVDIAGLVGGAS   82 (368)
T ss_pred             ceEEEECCCCCChHHHHHHHhCCCccccCCCCCCCCCCceeEEEechhHHHHHHHHhCCcCcCCceEEEEeccccccchh
Confidence            57999999999999999999998874588999999887777665433                 3589999999876432


Q ss_pred             hhhhHHHHHHHHHHccCccEEEEEEeCC
Q 025346          179 HMLDSMMMKNVRSAGINADCIVVLVDAC  206 (254)
Q Consensus       179 ~~~~~~~~~~~~~~~~~~d~iv~vid~~  206 (254)
                      ...  .....+...++.+|++++|+++.
T Consensus        83 ~g~--Glgn~fL~~ir~~d~l~hVvr~f  108 (368)
T TIGR00092        83 KGE--GLGNQFLANIREVDIIQHVVRCF  108 (368)
T ss_pred             ccc--CcchHHHHHHHhCCEEEEEEeCC
Confidence            221  12245667789999999999984

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.

>PRK14845 translation initiation factor IF-2; Provisional

Probab=98.61  E-value=3e-07  Score=90.83  Aligned_cols=103  Identities=22%  Similarity=0.201  Sum_probs=65.7

Q ss_pred             CChHHHHHHHhcCccccccCCCCceEEEEEEEEecC------------------CeeEEEEecCCCcccchhhhhHHHHH
Q 025346          126 VGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGP------------------EYQMILYDTPGIIEKKIHMLDSMMMK  187 (254)
Q Consensus       126 ~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~------------------~~~~~liDtpG~~~~~~~~~~~~~~~  187 (254)
                      ++||||+.++.+...+ ....-+.|...-...+..+                  ...+.||||||.  ..+..+      
T Consensus       472 ~~KTtLLD~iR~t~v~-~~EaGGITQ~IGa~~v~~~~~~~~~~~~~~~~~~~~~~p~i~fiDTPGh--e~F~~l------  542 (1049)
T PRK14845        472 VHNTTLLDKIRKTRVA-KKEAGGITQHIGATEIPIDVIKKICGPLLKLLKAEIKIPGLLFIDTPGH--EAFTSL------  542 (1049)
T ss_pred             cccccHHHHHhCCCcc-cccCCCceeccceEEEEecccccccccccccccccCCcCcEEEEECCCc--HHHHHH------
Confidence            3599999999988764 3334455554333322221                  113899999994  222222      


Q ss_pred             HHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          188 NVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       188 ~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                       ....+..+|++++|+|++++...........+..  .++|+++|+||+|+..
T Consensus       543 -r~~g~~~aDivlLVVDa~~Gi~~qT~e~I~~lk~--~~iPiIVViNKiDL~~  592 (1049)
T PRK14845        543 -RKRGGSLADLAVLVVDINEGFKPQTIEAINILRQ--YKTPFVVAANKIDLIP  592 (1049)
T ss_pred             -HHhhcccCCEEEEEEECcccCCHhHHHHHHHHHH--cCCCEEEEEECCCCcc
Confidence             2234678999999999988654443333333332  3689999999999974

>KOG0458 consensus Elongation factor 1 alpha [Translation, ribosomal structure and biogenesis]

Probab=98.61  E-value=3.5e-07  Score=83.44  Aligned_cols=126  Identities=20%  Similarity=0.186  Sum_probs=83.2

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcC------------------------cccc------ccCCCCceEEEEEEEEecCCe
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQ------------------------KLSI------VTNKPQTTRHRILGICSGPEY  163 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~------------------------~~~~------~~~~~~tt~~~~~~~~~~~~~  163 (254)
                      ....++++|...+|||||+-+++..                        .+++      .....+.|.+.....++....
T Consensus       176 ~~l~lvv~GhVdaGKSTLmG~lLydLg~i~~~~m~kl~~es~~~Gk~Sf~yawiLDeT~eERerGvTm~v~~~~fes~~~  255 (603)
T KOG0458|consen  176 DHLNLVVLGHVDAGKSTLMGHLLYDLGEISSRSMHKLERESKNLGKSSFAYAWILDETKEERERGVTMDVKTTWFESKSK  255 (603)
T ss_pred             cceEEEEEeccccchhhhhhHHHHHhcCccHHHHHHHHHHHHhcCCcceeeeEEeccchhhhhcceeEEeeeEEEecCce
Confidence            4568999999999999999988743                        0111      122345566666667777788


Q ss_pred             eEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCC-----ch--hHHHHHHHhhcccCCCCCEEEEEecC
Q 025346          164 QMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKA-----PE--RIDEILEEGVGDHKDKLPILLVLNKK  236 (254)
Q Consensus       164 ~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~-----~~--~~~~~~~~~~~~~~~~~piivV~nK~  236 (254)
                      .++++|+||+.+..         .........||+.++|+|++.+     ++  ........+++.++ -..++|++||+
T Consensus       256 ~~tliDaPGhkdFi---------~nmi~g~sqaD~avLvvd~s~~~FE~gfd~~gQtrEha~llr~Lg-i~qlivaiNKm  325 (603)
T KOG0458|consen  256 IVTLIDAPGHKDFI---------PNMISGASQADVAVLVVDASTGEFESGFDPGGQTREHALLLRSLG-ISQLIVAINKM  325 (603)
T ss_pred             eEEEecCCCccccc---------hhhhccccccceEEEEEECCcchhhhccCCCCchHHHHHHHHHcC-cceEEEEeecc
Confidence            99999999965543         2233446789999999999752     21  12222333444443 35789999999


Q ss_pred             CCCC--hHhHHHHHH
Q 025346          237 DLIK--PGEIAKKLE  249 (254)
Q Consensus       237 Dl~~--~~~~~~~~~  249 (254)
                      |+++  ++...+...
T Consensus       326 D~V~Wsq~RF~eIk~  340 (603)
T KOG0458|consen  326 DLVSWSQDRFEEIKN  340 (603)
T ss_pred             cccCccHHHHHHHHH
Confidence            9975  333444433

>cd00066 G-alpha G protein alpha subunit

Probab=98.59  E-value=3.6e-07  Score=79.94  Aligned_cols=73  Identities=18%  Similarity=0.195  Sum_probs=51.1

Q ss_pred             ecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCC------------chhHHHHHHHhhcc-cCC
Q 025346          159 SGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKA------------PERIDEILEEGVGD-HKD  225 (254)
Q Consensus       159 ~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~------------~~~~~~~~~~~~~~-~~~  225 (254)
                      ...+..+.+||++|...         .+..|..++.++++|+||+|.++.            ..+....+..++.. ...
T Consensus       157 ~~~~~~~~~~DvgGq~~---------~R~kW~~~f~~v~~iifvv~lsd~d~~~~e~~~~nrl~esl~~f~~i~~~~~~~  227 (317)
T cd00066         157 TIKNLKFRMFDVGGQRS---------ERKKWIHCFEDVTAIIFVVALSEYDQVLFEDESTNRMQESLNLFDSICNSRWFA  227 (317)
T ss_pred             EecceEEEEECCCCCcc---------cchhHHHHhCCCCEEEEEEEchhcccccccCCcchHHHHHHHHHHHHHhCcccc
Confidence            34567899999999432         236677889999999999999863            12222334444432 226


Q ss_pred             CCCEEEEEecCCCCC
Q 025346          226 KLPILLVLNKKDLIK  240 (254)
Q Consensus       226 ~~piivV~nK~Dl~~  240 (254)
                      +.|+++++||.|+..
T Consensus       228 ~~pill~~NK~D~f~  242 (317)
T cd00066         228 NTSIILFLNKKDLFE  242 (317)
T ss_pred             CCCEEEEccChHHHH
Confidence            799999999999864

The alpha subunit of G proteins contains the guanine nucleotide binding site. The heterotrimeric GNP-binding proteins are signal transducers that communicate signals from many hormones, neurotransmitters, chemokines, and autocrine and paracrine factors. Extracellular signals are received by receptors, which activate the G proteins, which in turn route the signals to several distinct intracellular signaling pathways. The alpha subunit of G proteins is a weak GTPase. In the resting state, heterotrimeric G proteins are associated at the cytosolic face of the plasma membrane and the alpha subunit binds to GDP. Upon activation by a receptor GDP is replaced with GTP, and the G-alpha/GTP complex dissociates from the beta and gamma subunits. This results in activation of downstream signaling pathways, such as cAMP synthesis by adenylyl cyclase, which is terminated when GTP is hydrolized and the heterotrimers reconstitute.

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=98.57  E-value=3.8e-07  Score=79.81  Aligned_cols=65  Identities=22%  Similarity=0.234  Sum_probs=39.7

Q ss_pred             CCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          161 PEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       161 ~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      .+..+.|+||+|..+....            ....+|.+++|.+...+. .+......++     ...-++|+||+|+..
T Consensus       147 ~g~d~viieT~Gv~qs~~~------------i~~~aD~vlvv~~p~~gd-~iq~~k~gi~-----E~aDIiVVNKaDl~~  208 (332)
T PRK09435        147 AGYDVILVETVGVGQSETA------------VAGMVDFFLLLQLPGAGD-ELQGIKKGIM-----ELADLIVINKADGDN  208 (332)
T ss_pred             cCCCEEEEECCCCccchhH------------HHHhCCEEEEEecCCchH-HHHHHHhhhh-----hhhheEEeehhcccc
Confidence            3578999999998754311            245699999997643322 2211111111     122389999999987


Q ss_pred             hHh
Q 025346          241 PGE  243 (254)
Q Consensus       241 ~~~  243 (254)
                      ...
T Consensus       209 ~~~  211 (332)
T PRK09435        209 KTA  211 (332)
T ss_pred             hhH
Confidence            543

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

Probab=98.54  E-value=6.4e-07  Score=76.50  Aligned_cols=128  Identities=20%  Similarity=0.244  Sum_probs=82.3

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCcccccc-----------CCCCce-----------EEEEEEEEecC------CeeE
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVT-----------NKPQTT-----------RHRILGICSGP------EYQM  165 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~-----------~~~~tt-----------~~~~~~~~~~~------~~~~  165 (254)
                      ...+|..+|.-..|||||...+.+-....-+           .|..+.           .......+...      -+.+
T Consensus         9 p~vNIG~vGHVdHGKtTlv~AlsGvwT~~hseElkRgitIkLGYAd~~i~kC~~c~~~~~y~~~~~C~~cg~~~~l~R~V   88 (415)
T COG5257           9 PEVNIGMVGHVDHGKTTLTKALSGVWTDRHSEELKRGITIKLGYADAKIYKCPECYRPECYTTEPKCPNCGAETELVRRV   88 (415)
T ss_pred             cceEeeeeeecccchhhheehhhceeeechhHHHhcCcEEEeccccCceEeCCCCCCCcccccCCCCCCCCCCccEEEEE
Confidence            4568999999999999999999865211000           000000           00001111111      2568


Q ss_pred             EEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCc-hhHH-HHH--HHhhcccCCCCCEEEEEecCCCCCh
Q 025346          166 ILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAP-ERID-EIL--EEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       166 ~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~-~~~~-~~~--~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      .|+|.||         +..+|....+-..--|+.++|+.++.+. +... +.+  .+++.    -..+++|-||+|+++.
T Consensus        89 SfVDaPG---------He~LMATMLsGAAlMDgAlLvIaANEpcPQPQT~EHl~AleIig----ik~iiIvQNKIDlV~~  155 (415)
T COG5257          89 SFVDAPG---------HETLMATMLSGAALMDGALLVIAANEPCPQPQTREHLMALEIIG----IKNIIIVQNKIDLVSR  155 (415)
T ss_pred             EEeeCCc---------hHHHHHHHhcchhhhcceEEEEecCCCCCCCchHHHHHHHhhhc----cceEEEEecccceecH
Confidence            8999999         4455666666677789999999998742 2222 222  22222    2578999999999999


Q ss_pred             HhHHHHHHHHhcC
Q 025346          242 GEIAKKLEVTTCF  254 (254)
Q Consensus       242 ~~~~~~~~~~~~~  254 (254)
                      ++..+..+++++|
T Consensus       156 E~AlE~y~qIk~F  168 (415)
T COG5257         156 ERALENYEQIKEF  168 (415)
T ss_pred             HHHHHHHHHHHHH
Confidence            9988888888776

>smart00275 G_alpha G protein alpha subunit

Probab=98.52  E-value=8.5e-07  Score=78.30  Aligned_cols=73  Identities=19%  Similarity=0.136  Sum_probs=51.3

Q ss_pred             ecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCC------------chhHHHHHHHhhcc-cCC
Q 025346          159 SGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKA------------PERIDEILEEGVGD-HKD  225 (254)
Q Consensus       159 ~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~------------~~~~~~~~~~~~~~-~~~  225 (254)
                      ...+..+.+||.+|...         .+..|..++.++++|+||+|+++.            ..+....+..++.. ...
T Consensus       180 ~~~~~~~~~~DvgGqr~---------~R~kW~~~f~~v~~IiFvvdlSd~d~~~~Ed~~~nrl~esl~~f~~l~~~~~~~  250 (342)
T smart00275      180 IVKKLFFRMFDVGGQRS---------ERKKWIHCFDNVTAIIFCVALSEYDQVLEEDESTNRMQESLNLFESICNSRWFA  250 (342)
T ss_pred             EECCeEEEEEecCCchh---------hhhhHHHHhCCCCEEEEEEECcccccchhccCcchHHHHHHHHHHHHHcCcccc
Confidence            34567789999999322         235677789999999999999863            12233344444432 236


Q ss_pred             CCCEEEEEecCCCCC
Q 025346          226 KLPILLVLNKKDLIK  240 (254)
Q Consensus       226 ~~piivV~nK~Dl~~  240 (254)
                      +.|+++++||.|+..
T Consensus       251 ~~piil~~NK~D~~~  265 (342)
T smart00275      251 NTSIILFLNKIDLFE  265 (342)
T ss_pred             CCcEEEEEecHHhHH
Confidence            799999999999864

Subunit of G proteins that contains the guanine nucleotide binding site

>KOG0461 consensus Selenocysteine-specific elongation factor [Translation, ribosomal structure and biogenesis]

Probab=98.51  E-value=1.5e-06  Score=74.85  Aligned_cols=119  Identities=18%  Similarity=0.207  Sum_probs=74.6

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCcccc-ccCC-----CCceEEEEEEEE---------ecCCeeEEEEecCCCcccchh
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSI-VTNK-----PQTTRHRILGIC---------SGPEYQMILYDTPGIIEKKIH  179 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~-~~~~-----~~tt~~~~~~~~---------~~~~~~~~liDtpG~~~~~~~  179 (254)
                      ..++.++|.-.+|||||..++..-.... ....     .+.|.+.-...+         ..+..++.++|+||.      
T Consensus         7 n~N~GiLGHvDSGKTtLarals~~~STaAFDk~pqS~eRgiTLDLGFS~~~v~~parLpq~e~lq~tlvDCPGH------   80 (522)
T KOG0461|consen    7 NLNLGILGHVDSGKTTLARALSELGSTAAFDKHPQSTERGITLDLGFSTMTVLSPARLPQGEQLQFTLVDCPGH------   80 (522)
T ss_pred             eeeeeeEeeccCchHHHHHHHHhhccchhhccCCcccccceeEeecceeeecccccccCccccceeEEEeCCCc------
Confidence            4689999999999999999987532111 1111     222322221111         234567899999993      


Q ss_pred             hhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhH
Q 025346          180 MLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEI  244 (254)
Q Consensus       180 ~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~  244 (254)
                         ....+.+.....-.|..++|+|+..+.+........+-+..  -...++|+||+|.+.+.+.
T Consensus        81 ---asLIRtiiggaqiiDlm~lviDv~kG~QtQtAEcLiig~~~--c~klvvvinkid~lpE~qr  140 (522)
T KOG0461|consen   81 ---ASLIRTIIGGAQIIDLMILVIDVQKGKQTQTAECLIIGELL--CKKLVVVINKIDVLPENQR  140 (522)
T ss_pred             ---HHHHHHHHhhhheeeeeeEEEehhcccccccchhhhhhhhh--ccceEEEEeccccccchhh
Confidence               23334455556778999999999887655444333322222  2456889999999877543

>PRK12289 GTPase RsgA; Reviewed

Probab=98.51  E-value=1.9e-07  Score=82.57  Aligned_cols=60  Identities=33%  Similarity=0.352  Sum_probs=44.1

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCC-------ceEEEEEEEEecCCeeEEEEecCCCcccch
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQ-------TTRHRILGICSGPEYQMILYDTPGIIEKKI  178 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~-------tt~~~~~~~~~~~~~~~~liDtpG~~~~~~  178 (254)
                      ..++++|++|+|||||+|.+++.....++..++       ||+......+..++   .++||||+.....
T Consensus       173 ki~v~iG~SgVGKSSLIN~L~~~~~~~t~~vs~~~~rGrHTT~~~~l~~l~~g~---~liDTPG~~~~~l  239 (352)
T PRK12289        173 KITVVAGPSGVGKSSLINRLIPDVELRVGKVSGKLGRGRHTTRHVELFELPNGG---LLADTPGFNQPDL  239 (352)
T ss_pred             ceEEEEeCCCCCHHHHHHHHcCccccccccccCCCCCCCCcCceeEEEECCCCc---EEEeCCCcccccc
Confidence            358999999999999999999876555555555       77766444343322   7999999876554

>cd01859 MJ1464 MJ1464

Probab=98.49  E-value=4.7e-07  Score=70.81  Aligned_cols=57  Identities=37%  Similarity=0.568  Sum_probs=43.2

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCC
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGI  173 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~  173 (254)
                      ...+++++|.+++||||++|++.+.....+.+.+++|........   +..+.+|||||+
T Consensus       100 ~~~~~~~ig~~~~Gkssl~~~l~~~~~~~~~~~~~~t~~~~~~~~---~~~~~~~DtpGi  156 (156)
T cd01859         100 KEGKVGVVGYPNVGKSSIINALKGRHSASTSPSPGYTKGEQLVKI---TSKIYLLDTPGV  156 (156)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCccccCCCCCeeeeeEEEEc---CCCEEEEECcCC
Confidence            456789999999999999999998776556677777755332222   236999999994

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.

>PRK12288 GTPase RsgA; Reviewed

Probab=98.49  E-value=4e-07  Score=80.42  Aligned_cols=59  Identities=27%  Similarity=0.324  Sum_probs=42.1

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCC-------CceEEEEEEEEecCCeeEEEEecCCCcccch
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKP-------QTTRHRILGICSGPEYQMILYDTPGIIEKKI  178 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~-------~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~  178 (254)
                      .++++|.+|+|||||+|++++.....++..+       +||.......+..++   .++||||+.....
T Consensus       207 i~~~vG~sgVGKSTLiN~Ll~~~~~~t~~is~~~~rGrHTT~~~~l~~l~~~~---~liDTPGir~~~l  272 (347)
T PRK12288        207 ISIFVGQSGVGKSSLINALLPEAEILVGDVSDNSGLGQHTTTAARLYHFPHGG---DLIDSPGVREFGL  272 (347)
T ss_pred             CEEEECCCCCCHHHHHHHhccccceeeccccCcCCCCcCceeeEEEEEecCCC---EEEECCCCCcccC
Confidence            5899999999999999999987654444443       366655544443332   5999999866544

>TIGR00750 lao LAO/AO transport system ATPase

Probab=98.46  E-value=3.2e-06  Score=73.39  Aligned_cols=65  Identities=20%  Similarity=0.234  Sum_probs=41.1

Q ss_pred             CCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          161 PEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       161 ~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      .+..+.|+||+|......            .....+|.++++.+... ..++......+     .++|.++|+||+|+..
T Consensus       125 ~g~D~viidT~G~~~~e~------------~i~~~aD~i~vv~~~~~-~~el~~~~~~l-----~~~~~ivv~NK~Dl~~  186 (300)
T TIGR00750       125 AGYDVIIVETVGVGQSEV------------DIANMADTFVVVTIPGT-GDDLQGIKAGL-----MEIADIYVVNKADGEG  186 (300)
T ss_pred             CCCCEEEEeCCCCchhhh------------HHHHhhceEEEEecCCc-cHHHHHHHHHH-----hhhccEEEEEcccccc
Confidence            357899999999754321            12456788887754432 23333322222     2577899999999987


Q ss_pred             hHh
Q 025346          241 PGE  243 (254)
Q Consensus       241 ~~~  243 (254)
                      ...
T Consensus       187 ~~~  189 (300)
T TIGR00750       187 ATN  189 (300)
T ss_pred             hhH
Confidence            653

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.

>TIGR03348 VI_IcmF type VI secretion protein IcmF

Probab=98.45  E-value=4.9e-07  Score=91.51  Aligned_cols=123  Identities=24%  Similarity=0.271  Sum_probs=76.2

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCccccccC---C----CCceEEEEEEEEe-cCCeeEEEEecCCCccc--c----
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTN---K----PQTTRHRILGICS-GPEYQMILYDTPGIIEK--K----  177 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~---~----~~tt~~~~~~~~~-~~~~~~~liDtpG~~~~--~----  177 (254)
                      ...-|..+++|++|+||||+++.- +.+++....   .    .+.|+     .|+ +-.....++||+|..-.  .    
T Consensus       108 lY~LPWYlviG~~gsGKtt~l~~s-gl~~pl~~~~~~~~~~~~~~t~-----~c~wwf~~~avliDtaG~y~~~~~~~~~  181 (1169)
T TIGR03348       108 LYDLPWYLVIGPPGSGKTTLLQNS-GLKFPLAERLGAAALRGVGGTR-----NCDWWFTDEAVLIDTAGRYTTQDSDPEE  181 (1169)
T ss_pred             hhcCCCEEEECCCCCchhHHHHhC-CCCCcCchhhccccccCCCCCc-----ccceEecCCEEEEcCCCccccCCCcccc
Confidence            345678999999999999999986 444432110   0    11111     111 12345779999994321  1    


Q ss_pred             hhhhhHHHHHHHHHH--ccCccEEEEEEeCCCCc-----------hhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          178 IHMLDSMMMKNVRSA--GINADCIVVLVDACKAP-----------ERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       178 ~~~~~~~~~~~~~~~--~~~~d~iv~vid~~~~~-----------~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      .......+...+..+  ..-.++||+++|+.+-.           ..++..+.++....+...||+||+||||++.
T Consensus       182 ~~~~W~~fL~~L~k~R~r~plnGvil~vs~~~Ll~~~~~~~~~~a~~lR~rl~el~~~lg~~~PVYvv~Tk~Dll~  257 (1169)
T TIGR03348       182 DAAAWLGFLGLLRKHRRRQPLNGVVVTVSLADLLTADPAERKAHARAIRQRLQELREQLGARFPVYLVLTKADLLA  257 (1169)
T ss_pred             cHHHHHHHHHHHHHhCCCCCCCeEEEEEEHHHHhCCCHHHHHHHHHHHHHHHHHHHHHhCCCCCEEEEEecchhhc
Confidence            111122232333333  24689999999986521           2344556667777778899999999999973

Members of this protein family are IcmF homologs and tend to be associated with type VI secretion systems.

>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis

Probab=98.44  E-value=2.5e-07  Score=72.46  Aligned_cols=61  Identities=28%  Similarity=0.312  Sum_probs=36.0

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccc---c----CCCCceEEEEEEEEecCCeeEEEEecCCCcccchh
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIV---T----NKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIH  179 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~---~----~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~  179 (254)
                      ..++++|++|+|||||+|.+.+.....+   +    ...+||.......++   ....++||||+.+....
T Consensus        36 k~~vl~G~SGvGKSSLiN~L~~~~~~~t~~is~~~~rGkHTTt~~~l~~l~---~g~~iIDTPGf~~~~l~  103 (161)
T PF03193_consen   36 KTSVLLGQSGVGKSSLINALLPEAKQKTGEISEKTGRGKHTTTHRELFPLP---DGGYIIDTPGFRSFGLW  103 (161)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHTSS----S--------------SEEEEEET---TSEEEECSHHHHT--GC
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhcchhhhhhhcccCCCcccCCCeeEEecC---CCcEEEECCCCCccccc
Confidence            5799999999999999999998742222   1    223455544443442   23589999997655443

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.

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=98.43  E-value=5.4e-07  Score=75.93  Aligned_cols=61  Identities=28%  Similarity=0.259  Sum_probs=42.5

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccC-------CCCceEEEEEEEEecCCeeEEEEecCCCcccchh
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTN-------KPQTTRHRILGICSGPEYQMILYDTPGIIEKKIH  179 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~-------~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~  179 (254)
                      ...++++|.+|+|||||+|.+++.....++.       ..+||+......+ ..   -.++||||+......
T Consensus       120 ~~~~~~~G~sgvGKStLiN~L~~~~~~~t~~i~~~~~~G~hTT~~~~l~~l-~~---~~liDtPG~~~~~l~  187 (245)
T TIGR00157       120 NRISVFAGQSGVGKSSLINALDPSVKQQVNDISSKLGLGKHTTTHVELFHF-HG---GLIADTPGFNEFGLW  187 (245)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhhhhhccccceeccCCCCCCcCCceEEEEc-CC---cEEEeCCCccccCCC
Confidence            3579999999999999999999865433322       2347766555444 22   279999998765443

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

>KOG1491 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]

Probab=98.43  E-value=7.3e-07  Score=76.66  Aligned_cols=92  Identities=24%  Similarity=0.267  Sum_probs=70.8

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecC-----------------CeeEEEEecCCCc
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGP-----------------EYQMILYDTPGII  174 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~-----------------~~~~~liDtpG~~  174 (254)
                      .....++.++|.+++||||+.|.+...... ..++|++|.++....+.-.                 ...+++.|++|+.
T Consensus        17 ~~~~lkiGIVGlPNvGKST~fnalT~~~a~-~~NfPF~TIdPn~a~V~v~d~Rfd~l~~~Y~~~~~vpa~l~v~DIAGLv   95 (391)
T KOG1491|consen   17 DGNNLKIGIVGLPNVGKSTFFNALTKSKAG-AANFPFCTIDPNEARVEVPDSRFDLLCPIYGPKSKVPAFLTVYDIAGLV   95 (391)
T ss_pred             CCCcceeeEeeCCCCchHHHHHHHhcCCCC-ccCCCcceeccccceeecCchHHHHHHHhcCCcceeeeeEEEEeecccc
Confidence            345679999999999999999999998887 8999999988776654211                 2458999999986


Q ss_pred             ccchhhhhHHHHHHHHHHccCccEEEEEEeCC
Q 025346          175 EKKIHMLDSMMMKNVRSAGINADCIVVLVDAC  206 (254)
Q Consensus       175 ~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~  206 (254)
                      .....  ...+-..+...++.+|+++.|+++.
T Consensus        96 kGAs~--G~GLGN~FLs~iR~vDaifhVVr~f  125 (391)
T KOG1491|consen   96 KGASA--GEGLGNKFLSHIRHVDAIFHVVRAF  125 (391)
T ss_pred             cCccc--CcCchHHHHHhhhhccceeEEEEec
Confidence            54322  1223356677789999999999874

>PRK13796 GTPase YqeH; Provisional

Probab=98.42  E-value=4.9e-07  Score=80.56  Aligned_cols=58  Identities=41%  Similarity=0.497  Sum_probs=45.2

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCc-----cccccCCCCceEEEEEEEEecCCeeEEEEecCCCcc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQK-----LSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIE  175 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~-----~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~  175 (254)
                      ...+.++|.+|+|||||+|+++...     ...++..|+||.......++..   ..++||||+..
T Consensus       160 ~~~v~vvG~~NvGKSTLiN~L~~~~~~~~~~~~~s~~pGTT~~~~~~~l~~~---~~l~DTPGi~~  222 (365)
T PRK13796        160 GRDVYVVGVTNVGKSTLINRIIKEITGEKDVITTSRFPGTTLDKIEIPLDDG---SFLYDTPGIIH  222 (365)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHhhccCccceEEecCCCCccceeEEEEcCCC---cEEEECCCccc
Confidence            4579999999999999999998542     3336889999998776554332   47999999863

>cd03112 CobW_like The function of this protein family is unkown

Probab=98.36  E-value=3.6e-06  Score=66.16  Aligned_cols=71  Identities=23%  Similarity=0.375  Sum_probs=40.4

Q ss_pred             CeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHH--HHHHHhhcccCCCCCEEEEEecCCC
Q 025346          162 EYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERID--EILEEGVGDHKDKLPILLVLNKKDL  238 (254)
Q Consensus       162 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~--~~~~~~~~~~~~~~piivV~nK~Dl  238 (254)
                      .....++||||+.+.. ..++..............+.+++++|+.+......  ..+...+.     .-=++|+||+|+
T Consensus        86 ~~d~I~IEt~G~~~p~-~~~~~~~~~~~~~~~~~~d~vv~vvDa~~~~~~~~~~~~~~~Qi~-----~ad~ivlnk~dl  158 (158)
T cd03112          86 AFDRIVIETTGLADPG-PVAQTFFMDEELAERYLLDGVITLVDAKHANQHLDQQTEAQSQIA-----FADRILLNKTDL  158 (158)
T ss_pred             CCCEEEEECCCcCCHH-HHHHHHhhchhhhcceeeccEEEEEEhhHhHHHhhccHHHHHHHH-----HCCEEEEecccC
Confidence            3567899999986542 22222222223334567899999999976433221  11222121     112679999996

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.

>KOG0464 consensus Elongation factor G [Translation, ribosomal structure and biogenesis]

Probab=98.34  E-value=4.5e-07  Score=79.80  Aligned_cols=120  Identities=18%  Similarity=0.166  Sum_probs=84.9

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCccc-----------------cccCCCCceEEEEEEEEecCCeeEEEEecCCC
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQKLS-----------------IVTNKPQTTRHRILGICSGPEYQMILYDTPGI  173 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~-----------------~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~  173 (254)
                      +..+.++|.++..-.+||||...+++.-.-.                 ......+.|.......++|.+.++.++||||.
T Consensus        33 ~~akirnigiiahidagktttterily~ag~~~s~g~vddgdtvtdfla~erergitiqsaav~fdwkg~rinlidtpgh  112 (753)
T KOG0464|consen   33 AIAKIRNIGIIAHIDAGKTTTTERILYLAGAIHSAGDVDDGDTVTDFLAIERERGITIQSAAVNFDWKGHRINLIDTPGH  112 (753)
T ss_pred             chhhhhcceeEEEecCCCchhHHHHHHHhhhhhcccccCCCchHHHHHHHHHhcCceeeeeeeecccccceEeeecCCCc
Confidence            3445678999999999999999988743211                 11223344555666678999999999999997


Q ss_pred             cccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          174 IEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       174 ~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      .+...+.         .+.++-.|+++.|+|++.+.+...  +..+.+..+.++|-+..+||+|....
T Consensus       113 vdf~lev---------erclrvldgavav~dasagve~qt--ltvwrqadk~~ip~~~finkmdk~~a  169 (753)
T KOG0464|consen  113 VDFRLEV---------ERCLRVLDGAVAVFDASAGVEAQT--LTVWRQADKFKIPAHCFINKMDKLAA  169 (753)
T ss_pred             ceEEEEH---------HHHHHHhcCeEEEEeccCCcccce--eeeehhccccCCchhhhhhhhhhhhh
Confidence            7765332         345677899999999998765432  22222333568999999999999754

>KOG4423 consensus GTP-binding protein-like, RAS superfamily [Signal transduction mechanisms]

Probab=98.34  E-value=1.9e-08  Score=79.19  Aligned_cols=118  Identities=19%  Similarity=0.207  Sum_probs=77.9

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCc-eEEEEEEEEecC---CeeEEEEecCCCcccchhhhhHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQT-TRHRILGICSGP---EYQMILYDTPGIIEKKIHMLDSMMMKNVR  190 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~t-t~~~~~~~~~~~---~~~~~liDtpG~~~~~~~~~~~~~~~~~~  190 (254)
                      -.+++++|..|+|||+++.+.+...+.  ..+..| ..+.....+.++   -+++++||..|  +..+..+       ..
T Consensus        25 L~k~lVig~~~vgkts~i~ryv~~nfs--~~yRAtIgvdfalkVl~wdd~t~vRlqLwdIag--Qerfg~m-------tr   93 (229)
T KOG4423|consen   25 LFKVLVIGDLGVGKTSSIKRYVHQNFS--YHYRATIGVDFALKVLQWDDKTIVRLQLWDIAG--QERFGNM-------TR   93 (229)
T ss_pred             hhhhheeeeccccchhHHHHHHHHHHH--HHHHHHHhHHHHHHHhccChHHHHHHHHhcchh--hhhhcce-------EE
Confidence            357999999999999999998866543  111111 111111222333   35789999999  4333333       22


Q ss_pred             HHccCccEEEEEEeCCCC--chhHHHHHHHhhccc----CCCCCEEEEEecCCCCChHh
Q 025346          191 SAGINADCIVVLVDACKA--PERIDEILEEGVGDH----KDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~----~~~~piivV~nK~Dl~~~~~  243 (254)
                      -+++.+++.++|||.+++  ++....|..++-...    +...|+++..||||..+...
T Consensus        94 Vyykea~~~~iVfdvt~s~tfe~~skwkqdldsk~qLpng~Pv~~vllankCd~e~~a~  152 (229)
T KOG4423|consen   94 VYYKEAHGAFIVFDVTRSLTFEPVSKWKQDLDSKLQLPNGTPVPCVLLANKCDQEKSAK  152 (229)
T ss_pred             EEecCCcceEEEEEccccccccHHHHHHHhccCcccCCCCCcchheeccchhccChHhh
Confidence            357899999999999885  456667776654432    24478999999999976543

>KOG0447 consensus Dynamin-like GTP binding protein [General function prediction only]

Probab=98.33  E-value=3.5e-06  Score=76.61  Aligned_cols=130  Identities=19%  Similarity=0.261  Sum_probs=77.4

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCccc-cccC--------------------------------------------
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQKLS-IVTN--------------------------------------------  145 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~-~~~~--------------------------------------------  145 (254)
                      ....-++|+++|..++||||.+..+....+. +.+.                                            
T Consensus       304 t~DhLPRVVVVGDQSaGKTSVLEmiAqARIFPRGSGEMMTRaPVKVTLsEGPyHVAqFrDSsREfDLTKE~DLq~LR~e~  383 (980)
T KOG0447|consen  304 TQDHLPRVVVVGDQSAGKTSVLEMIAQARIFPRGSGEMMTRSPVKVTLSEGPHHVALFKDSSREFDLTKEEDLAALRHEI  383 (980)
T ss_pred             ccccCceEEEEcCccccchHHHHHHHHhccCcCCCcceeccCCeEEEeccCcchhhhhccccccccccchhHHHHHHHHH
Confidence            4455689999999999999999988754321 1000                                            


Q ss_pred             --------CCCceE--EEEEEEEecCC-eeEEEEecCCCcccchhhhh----HHHHHHHHHHccCccEEEEEEeCCCCch
Q 025346          146 --------KPQTTR--HRILGICSGPE-YQMILYDTPGIIEKKIHMLD----SMMMKNVRSAGINADCIVVLVDACKAPE  210 (254)
Q Consensus       146 --------~~~tt~--~~~~~~~~~~~-~~~~liDtpG~~~~~~~~~~----~~~~~~~~~~~~~~d~iv~vid~~~~~~  210 (254)
                              ..+.|.  ..+.-.+.+++ .+..++|.||+...--..+.    ........+++.++++||+|+-...- +
T Consensus       384 E~RMr~sVr~GkTVSnEvIsltVKGPgLqRMVLVDLPGvIsTvT~dMA~dTKd~I~~msKayM~NPNAIILCIQDGSV-D  462 (980)
T KOG0447|consen  384 ELRMRKNVKEGCTVSPETISLNVKGPGLQRMVLVDLPGVINTVTSGMAPDTKETIFSISKAYMQNPNAIILCIQDGSV-D  462 (980)
T ss_pred             HHHHHhcccCCcccccceEEEeecCCCcceeEEecCCchhhhhcccccccchHHHHHHHHHHhcCCCeEEEEeccCCc-c
Confidence                    000011  11112223333 36889999998754322221    12235567889999999999865442 1


Q ss_pred             hHHHHHHHhh-cccCCCCCEEEEEecCCCCCh
Q 025346          211 RIDEILEEGV-GDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       211 ~~~~~~~~~~-~~~~~~~piivV~nK~Dl~~~  241 (254)
                      ..+.....+. +.-+.+...|+|++|+|+...
T Consensus       463 AERSnVTDLVsq~DP~GrRTIfVLTKVDlAEk  494 (980)
T KOG0447|consen  463 AERSIVTDLVSQMDPHGRRTIFVLTKVDLAEK  494 (980)
T ss_pred             hhhhhHHHHHHhcCCCCCeeEEEEeecchhhh
Confidence            1122222222 223467889999999998643

>COG1162 Predicted GTPases [General function prediction only]

Probab=98.32  E-value=1.6e-06  Score=74.12  Aligned_cols=63  Identities=29%  Similarity=0.341  Sum_probs=43.5

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCcccc---cc----CCCCceEEEEEEEEecCCeeEEEEecCCCcccch
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSI---VT----NKPQTTRHRILGICSGPEYQMILYDTPGIIEKKI  178 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~---~~----~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~  178 (254)
                      ..+...+++|.+|+|||||+|++....-..   ++    ...+||+......+..++   .++||||+.+...
T Consensus       162 l~~~~svl~GqSGVGKSSLiN~L~p~~~~~t~eIS~~~~rGkHTTt~~~l~~l~~gG---~iiDTPGf~~~~l  231 (301)
T COG1162         162 LAGKITVLLGQSGVGKSTLINALLPELNQKTGEISEKLGRGRHTTTHVELFPLPGGG---WIIDTPGFRSLGL  231 (301)
T ss_pred             hcCCeEEEECCCCCcHHHHHHhhCchhhhhhhhhcccCCCCCCccceEEEEEcCCCC---EEEeCCCCCccCc
Confidence            345578999999999999999999743221   22    234667666665554333   6899999866554

>KOG1424 consensus Predicted GTP-binding protein MMR1 [General function prediction only]

Probab=98.29  E-value=1.3e-06  Score=78.68  Aligned_cols=63  Identities=32%  Similarity=0.433  Sum_probs=53.8

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhh
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHM  180 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~  180 (254)
                      ...|.+||.||+||||+||.+.|.+.-.++..|+-|+.-.+..++.   .++++|+||+..+++..
T Consensus       314 ~vtVG~VGYPNVGKSSTINaLvG~KkVsVS~TPGkTKHFQTi~ls~---~v~LCDCPGLVfPSf~~  376 (562)
T KOG1424|consen  314 VVTVGFVGYPNVGKSSTINALVGRKKVSVSSTPGKTKHFQTIFLSP---SVCLCDCPGLVFPSFSP  376 (562)
T ss_pred             eeEEEeecCCCCchhHHHHHHhcCceeeeecCCCCcceeEEEEcCC---CceecCCCCccccCCCc
Confidence            4689999999999999999999999777999999999877776643   48999999997766543

>KOG3887 consensus Predicted small GTPase involved in nuclear protein import [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.28  E-value=3e-06  Score=69.76  Aligned_cols=122  Identities=14%  Similarity=0.085  Sum_probs=77.1

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      .++++++|...+||||+.+....+-.+...-....|......++.+.-..+.+||.||..+.--...+.      ....+
T Consensus        27 kp~ilLMG~rRsGKsSI~KVVFhkMsPneTlflESTski~~d~is~sfinf~v~dfPGQ~~~Fd~s~D~------e~iF~  100 (347)
T KOG3887|consen   27 KPRILLMGLRRSGKSSIQKVVFHKMSPNETLFLESTSKITRDHISNSFINFQVWDFPGQMDFFDPSFDY------EMIFR  100 (347)
T ss_pred             CceEEEEeecccCcchhhheeeeccCCCceeEeeccCcccHhhhhhhhcceEEeecCCccccCCCccCH------HHHHh
Confidence            467999999999999998876654322111122222222233334455679999999975543222222      12367


Q ss_pred             CccEEEEEEeCCCCchhHHHHHHHhh---cccCCCCCEEEEEecCCCCChH
Q 025346          195 NADCIVVLVDACKAPERIDEILEEGV---GDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       195 ~~d~iv~vid~~~~~~~~~~~~~~~~---~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      ++.+++||+|+.+...+....+....   -..++++.+-+.+.|+|-+..+
T Consensus       101 ~~gALifvIDaQddy~eala~L~~~v~raykvNp~in~EVfiHKvDGLsdd  151 (347)
T KOG3887|consen  101 GVGALIFVIDAQDDYMEALARLHMTVERAYKVNPNINFEVFIHKVDGLSDD  151 (347)
T ss_pred             ccCeEEEEEechHHHHHHHHHHHHHhhheeecCCCceEEEEEEeccCCchh
Confidence            89999999999875443333222222   2345788999999999998764

>KOG0448 consensus Mitofusin 1 GTPase, involved in mitochondrila biogenesis [Posttranslational modification, protein turnover, chaperones]

Probab=98.28  E-value=9.9e-06  Score=75.40  Aligned_cols=120  Identities=25%  Similarity=0.339  Sum_probs=73.9

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEE----------------------------------------
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRH----------------------------------------  152 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~----------------------------------------  152 (254)
                      ....+|++.|.+++||||++|+++.+++-+ +...++|..                                        
T Consensus       107 r~~mKV~ifGrts~GKSt~iNAmL~~klLP-~g~gh~TncF~~VegadG~e~vl~~~~s~ek~d~~ti~~~~haL~~~~~  185 (749)
T KOG0448|consen  107 RRHMKVAIFGRTSAGKSTVINAMLHKKLLP-SGIGHTTNCFLEVEGADGAEAVLATEGSEEKIDMKTINQLAHALKPDKD  185 (749)
T ss_pred             hcccEEEEeCCCCCcHHHHHHHHHHHhhCc-ccccccceeeeeecccCCcceeeccCCCcccccHHHHhHHHHhcCcccc
Confidence            345689999999999999999999887542 222233210                                        


Q ss_pred             ----EEEEEEecCC------eeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcc
Q 025346          153 ----RILGICSGPE------YQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGD  222 (254)
Q Consensus       153 ----~~~~~~~~~~------~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~  222 (254)
                          .....+...+      ..+.++|.||+.-..      ....-.-+....+|++|||+++.+..+.....+......
T Consensus       186 ~~~~sLlrV~~p~~~csLLrnDivliDsPGld~~s------e~tswid~~cldaDVfVlV~NaEntlt~sek~Ff~~vs~  259 (749)
T KOG0448|consen  186 LGAGSLLRVFWPDDKCSLLRNDIVLIDSPGLDVDS------ELTSWIDSFCLDADVFVLVVNAENTLTLSEKQFFHKVSE  259 (749)
T ss_pred             cCcceEEEEEecCccchhhhccceeccCCCCCCch------hhhHHHHHHhhcCCeEEEEecCccHhHHHHHHHHHHhhc
Confidence                0000111111      258899999975432      111223344678999999999988655444433332222


Q ss_pred             cCCCCCEEEEEecCCCCCh
Q 025346          223 HKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       223 ~~~~~piivV~nK~Dl~~~  241 (254)
                        .+..|.|+.||.|....
T Consensus       260 --~KpniFIlnnkwDasas  276 (749)
T KOG0448|consen  260 --EKPNIFILNNKWDASAS  276 (749)
T ss_pred             --cCCcEEEEechhhhhcc
Confidence              24567888899899754

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=98.28  E-value=2.2e-06  Score=71.74  Aligned_cols=113  Identities=19%  Similarity=0.332  Sum_probs=64.7

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhc------CccccccCCC--CceE-----------------EEEEEE-----------
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIG------QKLSIVTNKP--QTTR-----------------HRILGI-----------  157 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~------~~~~~~~~~~--~tt~-----------------~~~~~~-----------  157 (254)
                      +...|.+.|+||+|||||++.+..      .+++...-.|  +.|.                 ..+...           
T Consensus        28 ~a~~iGiTG~PGaGKSTli~~l~~~~~~~g~~VaVlAVDPSSp~tGGAlLGDRiRM~~~~~d~~vfIRS~atRG~lGGls  107 (266)
T PF03308_consen   28 RAHVIGITGPPGAGKSTLIDALIRELRERGKRVAVLAVDPSSPFTGGALLGDRIRMQELSRDPGVFIRSMATRGSLGGLS  107 (266)
T ss_dssp             -SEEEEEEE-TTSSHHHHHHHHHHHHHHTT--EEEEEE-GGGGCC---SS--GGGCHHHHTSTTEEEEEE---SSHHHHH
T ss_pred             CceEEEeeCCCCCcHHHHHHHHHHHHhhcCCceEEEEECCCCCCCCCcccccHHHhcCcCCCCCEEEeecCcCCCCCCcc
Confidence            467899999999999999998863      2222211111  1110                 111111           


Q ss_pred             ---------EecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCC--CchhHHHHHHHhhcccCCC
Q 025346          158 ---------CSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACK--APERIDEILEEGVGDHKDK  226 (254)
Q Consensus       158 ---------~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~  226 (254)
                               ++..++.+.|+.|.|.++...            ....-+|.+++|+-...  ..+-++.-+.++-.     
T Consensus       108 ~~t~~~v~ll~aaG~D~IiiETVGvGQsE~------------~I~~~aD~~v~v~~Pg~GD~iQ~~KaGimEiaD-----  170 (266)
T PF03308_consen  108 RATRDAVRLLDAAGFDVIIIETVGVGQSEV------------DIADMADTVVLVLVPGLGDEIQAIKAGIMEIAD-----  170 (266)
T ss_dssp             HHHHHHHHHHHHTT-SEEEEEEESSSTHHH------------HHHTTSSEEEEEEESSTCCCCCTB-TTHHHH-S-----
T ss_pred             HhHHHHHHHHHHcCCCEEEEeCCCCCccHH------------HHHHhcCeEEEEecCCCccHHHHHhhhhhhhcc-----
Confidence                     123458899999999877642            22567999999987754  44555555555433     


Q ss_pred             CCEEEEEecCCCCChHhHHH
Q 025346          227 LPILLVLNKKDLIKPGEIAK  246 (254)
Q Consensus       227 ~piivV~nK~Dl~~~~~~~~  246 (254)
                         ++|+||+|+...+....
T Consensus       171 ---i~vVNKaD~~gA~~~~~  187 (266)
T PF03308_consen  171 ---IFVVNKADRPGADRTVR  187 (266)
T ss_dssp             ---EEEEE--SHHHHHHHHH
T ss_pred             ---EEEEeCCChHHHHHHHH
Confidence               88999999665544433

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=98.26  E-value=3.1e-06  Score=73.45  Aligned_cols=60  Identities=30%  Similarity=0.277  Sum_probs=40.9

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCC-------CceEEEEEEEEecCCeeEEEEecCCCccc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKP-------QTTRHRILGICSGPEYQMILYDTPGIIEK  176 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~-------~tt~~~~~~~~~~~~~~~~liDtpG~~~~  176 (254)
                      ....++++|.+|+|||||+|.+++.....++..+       +||+..........   ..++||||+...
T Consensus       163 ~gk~~~~~G~sgvGKStlin~l~~~~~~~~g~v~~~~~~G~htT~~~~~~~~~~~---~~~~DtpG~~~~  229 (298)
T PRK00098        163 AGKVTVLAGQSGVGKSTLLNALAPDLELKTGEISEALGRGKHTTTHVELYDLPGG---GLLIDTPGFSSF  229 (298)
T ss_pred             cCceEEEECCCCCCHHHHHHHHhCCcCCCCcceeccCCCCCcccccEEEEEcCCC---cEEEECCCcCcc
Confidence            3567999999999999999999987543333332       35554443333322   378999998743

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=98.23  E-value=4.7e-06  Score=76.65  Aligned_cols=203  Identities=16%  Similarity=0.202  Sum_probs=105.2

Q ss_pred             cccCCcchhhhccccccCCceeeeeecccccccccchHHHHHHHHhhhcccccCCCCCCCCc-----------cChHhhh
Q 025346           16 PHYSTLTAYREIKFGFQGRSSSITCRSNEHQSLVLSEKEVQQQKLWSNQREMDLDDGDEMEF-----------DDASSFL   84 (254)
Q Consensus        16 p~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~-----------~~~~~~~   84 (254)
                      |-..+-..+..|..++...+.++..+.....| +....+..+..+.++....+++++-....           .....+.
T Consensus       254 ~~~~~~~~l~~m~~El~~lR~lle~q~~~l~~-~~~~~~P~~~~l~~~L~~~Gvs~~la~~L~~~l~~~~~~~~~~~~l~  332 (559)
T PRK12727        254 PAPQNDEELKQLRGELALMRQMIEREMNRLTD-ERLRGSPVRAQALELMDDYGFDAGLTRDVAMQIPADTELHRGRGLML  332 (559)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHHHHhhhh-hhhccChHHHHHHHHHHHCCCCHHHHHHHHHhhhcccchhhHHHHHH
Confidence            33444455688889999999999888887766 33334455555555555555544210000           0011111


Q ss_pred             hhccCCcCCCCCCCchhhhhccccCCCCCCCcEEEEEeCCCCChHHHHHHHhcC--------ccccccCCCCce------
Q 025346           85 SLSEKPDRNMASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQ--------KLSIVTNKPQTT------  150 (254)
Q Consensus        85 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~G~~~~gKssl~~~~~~~--------~~~~~~~~~~tt------  150 (254)
                      ...   .+.+...          .......+..++++|++|+||||++..+...        ++..+...+...      
T Consensus       333 ~~L---~~~l~v~----------~~~~l~~G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLIdtDtyRigA~EQL  399 (559)
T PRK12727        333 GLL---SKRLPVA----------PVDPLERGGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTTDTQRVGGREQL  399 (559)
T ss_pred             HHH---HHhcCcC----------ccccccCCCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEecccccccHHHHH
Confidence            111   1111100          0112345678999999999999999887642        121111111000      


Q ss_pred             ------EE-EEEEEE----------ecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHH
Q 025346          151 ------RH-RILGIC----------SGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERID  213 (254)
Q Consensus       151 ------~~-~~~~~~----------~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~  213 (254)
                            .. ......          ...+..+.||||||........+...  ..+....  ....++|++.+.....+.
T Consensus       400 k~ya~iLgv~v~~a~d~~~L~~aL~~l~~~DLVLIDTaG~s~~D~~l~eeL--~~L~aa~--~~a~lLVLpAtss~~Dl~  475 (559)
T PRK12727        400 HSYGRQLGIAVHEADSAESLLDLLERLRDYKLVLIDTAGMGQRDRALAAQL--NWLRAAR--QVTSLLVLPANAHFSDLD  475 (559)
T ss_pred             HHhhcccCceeEecCcHHHHHHHHHHhccCCEEEecCCCcchhhHHHHHHH--HHHHHhh--cCCcEEEEECCCChhHHH
Confidence                  00 000000          11346799999999754322211111  1122211  235678888877655655


Q ss_pred             HHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          214 EILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       214 ~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      ..+..+..    ..+.-+|+||.|...
T Consensus       476 eii~~f~~----~~~~gvILTKlDEt~  498 (559)
T PRK12727        476 EVVRRFAH----AKPQGVVLTKLDETG  498 (559)
T ss_pred             HHHHHHHh----hCCeEEEEecCcCcc
Confidence            55444322    246779999999854

>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]

Probab=98.23  E-value=9.4e-06  Score=74.14  Aligned_cols=116  Identities=21%  Similarity=0.229  Sum_probs=74.7

Q ss_pred             CCCCCCCcEEEEEeCCCCChHHHHHHHhcCcccc-ccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHH
Q 025346          109 SHPNHKSGYVAVLGKPNVGKSTLANQMIGQKLSI-VTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMK  187 (254)
Q Consensus       109 ~~~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~-~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~  187 (254)
                      +...+++..++++|++|+||||||..+...-... .....+.     ...+.+...+++++.+|.  +-          .
T Consensus        63 p~d~PPPfIvavvGPpGtGKsTLirSlVrr~tk~ti~~i~GP-----iTvvsgK~RRiTflEcp~--Dl----------~  125 (1077)
T COG5192          63 PKDLPPPFIVAVVGPPGTGKSTLIRSLVRRFTKQTIDEIRGP-----ITVVSGKTRRITFLECPS--DL----------H  125 (1077)
T ss_pred             cccCCCCeEEEeecCCCCChhHHHHHHHHHHHHhhhhccCCc-----eEEeecceeEEEEEeChH--HH----------H
Confidence            3455667788899999999999999887542111 1111111     113456678899999985  21          2


Q ss_pred             HHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          188 NVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       188 ~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      +......-+|+|++++|..-+++-..-.+..++...+ -..++-|++..|+....
T Consensus       126 ~miDvaKIaDLVlLlIdgnfGfEMETmEFLnil~~HG-mPrvlgV~ThlDlfk~~  179 (1077)
T COG5192         126 QMIDVAKIADLVLLLIDGNFGFEMETMEFLNILISHG-MPRVLGVVTHLDLFKNP  179 (1077)
T ss_pred             HHHhHHHhhheeEEEeccccCceehHHHHHHHHhhcC-CCceEEEEeecccccCh
Confidence            3334567899999999998876543333334444322 23478899999997653

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=98.23  E-value=1.8e-05  Score=71.48  Aligned_cols=118  Identities=16%  Similarity=0.220  Sum_probs=66.9

Q ss_pred             CcEEEEEeCCCCChHHHHHHHh------cCccccccCCCCc-----------eE--EEEEEEEe----------------
Q 025346          115 SGYVAVLGKPNVGKSTLANQMI------GQKLSIVTNKPQT-----------TR--HRILGICS----------------  159 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~------~~~~~~~~~~~~t-----------t~--~~~~~~~~----------------  159 (254)
                      +..++++|.+|+||||++..+.      +.++..+...+..           ..  ........                
T Consensus       100 ~~vi~lvG~~GvGKTTtaaKLA~~l~~~G~kV~lV~~D~~R~aA~eQLk~~a~~~~vp~~~~~~~~dp~~i~~~~l~~~~  179 (429)
T TIGR01425       100 QNVIMFVGLQGSGKTTTCTKLAYYYQRKGFKPCLVCADTFRAGAFDQLKQNATKARIPFYGSYTESDPVKIASEGVEKFK  179 (429)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEcCcccchhHHHHHHHHhhccCCeEEeecCCCCHHHHHHHHHHHHH
Confidence            4679999999999999999886      3333323222211           00  01111111                


Q ss_pred             cCCeeEEEEecCCCcccchhhhhHHHHHHHHHH--ccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCC
Q 025346          160 GPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA--GINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKD  237 (254)
Q Consensus       160 ~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~--~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~D  237 (254)
                      ..+..+.|+||||.......     .+..+...  ...++.+++|+|+..+...... ...+.+   .-.+.-+|+||.|
T Consensus       180 ~~~~DvViIDTaGr~~~d~~-----lm~El~~i~~~~~p~e~lLVlda~~Gq~a~~~-a~~F~~---~~~~~g~IlTKlD  250 (429)
T TIGR01425       180 KENFDIIIVDTSGRHKQEDS-----LFEEMLQVAEAIQPDNIIFVMDGSIGQAAEAQ-AKAFKD---SVDVGSVIITKLD  250 (429)
T ss_pred             hCCCCEEEEECCCCCcchHH-----HHHHHHHHhhhcCCcEEEEEeccccChhHHHH-HHHHHh---ccCCcEEEEECcc
Confidence            12568999999995443222     22222222  3467889999999765333222 122211   1235678899999


Q ss_pred             CCCh
Q 025346          238 LIKP  241 (254)
Q Consensus       238 l~~~  241 (254)
                      ....
T Consensus       251 ~~ar  254 (429)
T TIGR01425       251 GHAK  254 (429)
T ss_pred             CCCC
Confidence            8543

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.

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.22  E-value=3.9e-06  Score=64.58  Aligned_cols=64  Identities=23%  Similarity=0.153  Sum_probs=44.0

Q ss_pred             HHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHHHHHHH
Q 025346          188 NVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLEVT  251 (254)
Q Consensus       188 ~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~~~~~~  251 (254)
                      .....+..+|++++|+|+.++.......+...+.....+.|+++|+||+|+.+++++......+
T Consensus         4 ~~~~~i~~aD~vl~ViD~~~p~~~~~~~l~~~l~~~~~~k~~iivlNK~DL~~~~~~~~~~~~~   67 (141)
T cd01857           4 QLWRVVERSDIVVQIVDARNPLLFRPPDLERYVKEVDPRKKNILLLNKADLLTEEQRKAWAEYF   67 (141)
T ss_pred             HHHHHHhhCCEEEEEEEccCCcccCCHHHHHHHHhccCCCcEEEEEechhcCCHHHHHHHHHHH
Confidence            3455688999999999998865443333333333223578999999999998776665544443

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.

>KOG0467 consensus Translation elongation factor 2/ribosome biogenesis protein RIA1 and related proteins [Translation, ribosomal structure and biogenesis]

Probab=98.20  E-value=8.1e-06  Score=76.68  Aligned_cols=117  Identities=21%  Similarity=0.228  Sum_probs=74.4

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCc---------------eEEEEEEEEecCCeeEEEEecCCCcc
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQT---------------TRHRILGICSGPEYQMILYDTPGIIE  175 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~t---------------t~~~~~~~~~~~~~~~~liDtpG~~~  175 (254)
                      +....++++++.+-..|||||+..++....-+.+...+.               |........-..+..+++||+||..+
T Consensus         5 ~~~~irn~~~vahvdhgktsladsl~asngvis~rlagkirfld~redeq~rgitmkss~is~~~~~~~~nlidspghvd   84 (887)
T KOG0467|consen    5 GSEGIRNICLVAHVDHGKTSLADSLVASNGVISSRLAGKIRFLDTREDEQTRGITMKSSAISLLHKDYLINLIDSPGHVD   84 (887)
T ss_pred             CCCceeEEEEEEEecCCccchHHHHHhhccEechhhccceeeccccchhhhhceeeeccccccccCceEEEEecCCCccc
Confidence            344567899999999999999999986543222222222               11111111223577899999999777


Q ss_pred             cchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCC
Q 025346          176 KKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDL  238 (254)
Q Consensus       176 ~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl  238 (254)
                      ..         ....+....+|+.+.++|+-.+.......+.+  +....+...++|+||+|.
T Consensus        85 f~---------sevssas~l~d~alvlvdvvegv~~qt~~vlr--q~~~~~~~~~lvinkidr  136 (887)
T KOG0467|consen   85 FS---------SEVSSASRLSDGALVLVDVVEGVCSQTYAVLR--QAWIEGLKPILVINKIDR  136 (887)
T ss_pred             hh---------hhhhhhhhhcCCcEEEEeeccccchhHHHHHH--HHHHccCceEEEEehhhh
Confidence            64         33445567899999999998865433222211  111235778999999993

>cd01854 YjeQ_engC YjeQ/EngC

Probab=98.18  E-value=8.1e-06  Score=70.45  Aligned_cols=58  Identities=34%  Similarity=0.390  Sum_probs=39.6

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccC-------CCCceEEEEEEEEecCCeeEEEEecCCCcc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTN-------KPQTTRHRILGICSGPEYQMILYDTPGIIE  175 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~-------~~~tt~~~~~~~~~~~~~~~~liDtpG~~~  175 (254)
                      ...++++|++|+|||||+|.+++.....++.       ..+||...........   ..++||||+..
T Consensus       161 ~k~~~~~G~sg~GKSTlin~l~~~~~~~~g~v~~~~~~g~~tT~~~~~~~~~~~---~~liDtPG~~~  225 (287)
T cd01854         161 GKTSVLVGQSGVGKSTLINALLPDLDLATGEISEKLGRGRHTTTHRELFPLPGG---GLLIDTPGFRE  225 (287)
T ss_pred             cceEEEECCCCCCHHHHHHHHhchhhccccceeccCCCCCcccceEEEEEcCCC---CEEEECCCCCc
Confidence            3689999999999999999999865432222       2245555444333322   26899999854

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.

>KOG3859 consensus Septins (P-loop GTPases) [Cell cycle control, cell division, chromosome partitioning]

Probab=98.17  E-value=1.1e-05  Score=67.72  Aligned_cols=131  Identities=15%  Similarity=0.185  Sum_probs=79.2

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCcccc---ccCCCCceEEEEEEEEe--cCCeeEEEEecCCCcccc-----hhhhhHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSI---VTNKPQTTRHRILGICS--GPEYQMILYDTPGIIEKK-----IHMLDSM  184 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~---~~~~~~tt~~~~~~~~~--~~~~~~~liDtpG~~~~~-----~~~~~~~  184 (254)
                      ..+|+.+|.+|.|||||+..++..++..   ....|..........+.  +-..++.++||.|+++.-     +..+-.+
T Consensus        42 ~FNilCvGETg~GKsTLmdtLFNt~f~~~p~~H~~~~V~L~~~TyelqEsnvrlKLtiv~tvGfGDQinK~~Syk~iVdy  121 (406)
T KOG3859|consen   42 CFNILCVGETGLGKSTLMDTLFNTKFESEPSTHTLPNVKLQANTYELQESNVRLKLTIVDTVGFGDQINKEDSYKPIVDY  121 (406)
T ss_pred             eEEEEEeccCCccHHHHHHHHhccccCCCCCccCCCCceeecchhhhhhcCeeEEEEEEeecccccccCcccccchHHHH
Confidence            4689999999999999999999887641   11122222222222222  224578999999998643     2222222


Q ss_pred             HHHHHHH-------------Hcc--CccEEEEEEeCCC-CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHHHH
Q 025346          185 MMKNVRS-------------AGI--NADCIVVLVDACK-APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKL  248 (254)
Q Consensus       185 ~~~~~~~-------------~~~--~~d~iv~vid~~~-~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~~~  248 (254)
                      ...++.+             .++  ..++++|.|..+. +...++.....   ....+..||-|+-|.|.....++....
T Consensus       122 idaQFEaYLQEELKi~Rsl~~~hDsRiH~CLYFI~PTGH~LKslDLvtmk---~LdskVNIIPvIAKaDtisK~eL~~FK  198 (406)
T KOG3859|consen  122 IDAQFEAYLQEELKIRRSLFTYHDSRIHVCLYFISPTGHSLKSLDLVTMK---KLDSKVNIIPVIAKADTISKEELKRFK  198 (406)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhccCceEEEEEEecCCCcchhHHHHHHHH---HHhhhhhhHHHHHHhhhhhHHHHHHHH
Confidence            2122211             222  4677788777654 55555554433   234567778888999999988876543

>cd01858 NGP_1 NGP-1

Probab=98.16  E-value=4.8e-06  Score=65.22  Aligned_cols=61  Identities=21%  Similarity=0.218  Sum_probs=42.8

Q ss_pred             HHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHHHHHHH
Q 025346          191 SAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLEVT  251 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~~~~~~  251 (254)
                      ..+..+|++++|+|++++.......+...+.....+.|+++|+||+|+.+++++......+
T Consensus         4 ~~l~~aD~il~VvD~~~p~~~~~~~i~~~l~~~~~~~p~ilVlNKiDl~~~~~~~~~~~~~   64 (157)
T cd01858           4 KVIDSSDVVIQVLDARDPMGTRCKHVEEYLKKEKPHKHLIFVLNKCDLVPTWVTARWVKIL   64 (157)
T ss_pred             HhhhhCCEEEEEEECCCCccccCHHHHHHHHhccCCCCEEEEEEchhcCCHHHHHHHHHHH
Confidence            3468899999999998864443344444443334458999999999998877665555544

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.

>smart00010 small_GTPase Small GTPase of the Ras superfamily; ill-defined subfamily

Probab=98.11  E-value=1.2e-05  Score=59.60  Aligned_cols=90  Identities=19%  Similarity=0.158  Sum_probs=54.2

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINA  196 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~  196 (254)
                      +++++|..|+|||+|+.++....+.  ..+...|..            +..+|                    ....+.+
T Consensus         2 kvv~~G~~gvGKt~l~~~~~~~~~~--~~~~~~t~~------------~~~~~--------------------~~~~~s~   47 (124)
T smart00010        2 KVVGIGDSGVGKVGKSARFVQFPFD--YVPTVFTIG------------IDVYD--------------------PTSYESF   47 (124)
T ss_pred             EEEEECCCChhHHHHHHHHhcCCcc--ccCceehhh------------hhhcc--------------------ccccCCC
Confidence            7899999999999999999665543  111101111            11111                    1125667


Q ss_pred             cEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          197 DCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       197 d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      +.++.|++..........|...+......+.|.++++||+|+..
T Consensus        48 ~~~~~v~~~~~~~s~~~~~~~~i~~~~k~dl~~~~~~nk~dl~~   91 (124)
T smart00010       48 DVVLQCWRVDDRDSADNKNVPEVLVGNKSDLPILVGGNRDVLEE   91 (124)
T ss_pred             CEEEEEEEccCHHHHHHHhHHHHHhcCCCCCcEEEEeechhhHh
Confidence            88888787765322111144444433345688999999999844

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

>KOG2485 consensus Conserved ATP/GTP binding protein [General function prediction only]

Probab=98.09  E-value=8.4e-06  Score=69.54  Aligned_cols=73  Identities=33%  Similarity=0.373  Sum_probs=55.4

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcC-----ccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhH
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQ-----KLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDS  183 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~-----~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~  183 (254)
                      .......+.++|.||+|||||+|.+...     +.+.++..|+.|+.......-.....+.++||||+..++....+.
T Consensus       139 t~~~~~~vmVvGvPNVGKSsLINa~r~~~Lrk~k~a~vG~~pGVT~~V~~~iri~~rp~vy~iDTPGil~P~I~~~e~  216 (335)
T KOG2485|consen  139 TLNSEYNVMVVGVPNVGKSSLINALRNVHLRKKKAARVGAEPGVTRRVSERIRISHRPPVYLIDTPGILVPSIVDVED  216 (335)
T ss_pred             ccCCceeEEEEcCCCCChHHHHHHHHHHHhhhccceeccCCCCceeeehhheEeccCCceEEecCCCcCCCCCCCHHH
Confidence            3455678999999999999999977543     456688899999876654444556679999999998776544443

>KOG0465 consensus Mitochondrial elongation factor [Translation, ribosomal structure and biogenesis]

Probab=98.08  E-value=8.6e-06  Score=74.87  Aligned_cols=120  Identities=20%  Similarity=0.256  Sum_probs=82.7

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCc-----cccc------------cCCCCceEEEEEEEEecCCeeEEEEecCCCcc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQK-----LSIV------------TNKPQTTRHRILGICSGPEYQMILYDTPGIIE  175 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~-----~~~~------------~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~  175 (254)
                      .+.++|.+..+-.+||||+-++++...     +..+            ....+.|.......+.|...++.+|||||..+
T Consensus        37 ~k~RNIgi~AhidsgKTT~tEr~Lyy~G~~~~i~ev~~~~a~md~m~~er~rgITiqSAAt~~~w~~~~iNiIDTPGHvD  116 (721)
T KOG0465|consen   37 NKIRNIGISAHIDAGKTTLTERMLYYTGRIKHIGEVRGGGATMDSMELERQRGITIQSAATYFTWRDYRINIIDTPGHVD  116 (721)
T ss_pred             hhhcccceEEEEecCCceeeheeeeecceeeeccccccCceeeehHHHHHhcCceeeeceeeeeeccceeEEecCCCcee
Confidence            355678899999999999999887432     1111            11223344444456678889999999999877


Q ss_pred             cchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          176 KKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       176 ~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      .-++..         ..++-.|+.|+|+|+..+.+...........  .-+.|.+..+||+|.+...-
T Consensus       117 FT~EVe---------RALrVlDGaVlvl~aV~GVqsQt~tV~rQ~~--ry~vP~i~FiNKmDRmGa~~  173 (721)
T KOG0465|consen  117 FTFEVE---------RALRVLDGAVLVLDAVAGVESQTETVWRQMK--RYNVPRICFINKMDRMGASP  173 (721)
T ss_pred             EEEEeh---------hhhhhccCeEEEEEcccceehhhHHHHHHHH--hcCCCeEEEEehhhhcCCCh
Confidence            654443         2356789999999998876554433322222  45799999999999987644

>KOG0082 consensus G-protein alpha subunit (small G protein superfamily) [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=98.06  E-value=3.7e-05  Score=67.40  Aligned_cols=78  Identities=17%  Similarity=0.131  Sum_probs=53.1

Q ss_pred             EEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCch------------hHHHHHHHhhcc
Q 025346          155 LGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPE------------RIDEILEEGVGD  222 (254)
Q Consensus       155 ~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~------------~~~~~~~~~~~~  222 (254)
                      ...+...+.++.++|.+|..         ..+..|.....++++|+||+..++..+            +....+..+...
T Consensus       187 e~~F~~k~~~f~~~DvGGQR---------seRrKWihcFe~v~aviF~vslSeYdq~l~ED~~~NRM~eS~~LF~sI~n~  257 (354)
T KOG0082|consen  187 EVEFTIKGLKFRMFDVGGQR---------SERKKWIHCFEDVTAVIFCVSLSEYDQVLEEDETTNRMHESLKLFESICNN  257 (354)
T ss_pred             EEEEEeCCCceEEEeCCCcH---------HHhhhHHHhhcCCCEEEEEEehhhhhhhcccccchhHHHHHHHHHHHHhcC
Confidence            33455667889999999932         233667778999999999999986211            111223333322


Q ss_pred             -cCCCCCEEEEEecCCCCCh
Q 025346          223 -HKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       223 -~~~~~piivV~nK~Dl~~~  241 (254)
                       ...+.++|+.+||.||..+
T Consensus       258 ~~F~~tsiiLFLNK~DLFeE  277 (354)
T KOG0082|consen  258 KWFANTSIILFLNKKDLFEE  277 (354)
T ss_pred             cccccCcEEEEeecHHHHHH
Confidence             2367899999999999754

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=98.06  E-value=3.3e-05  Score=68.68  Aligned_cols=123  Identities=16%  Similarity=0.213  Sum_probs=67.5

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccc--------cccCCCC----------------ceEEEEEEE-------EecC
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLS--------IVTNKPQ----------------TTRHRILGI-------CSGP  161 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~--------~~~~~~~----------------tt~~~~~~~-------~~~~  161 (254)
                      ..+..++++|++|+||||++..+...-..        .+.....                .........       ....
T Consensus       135 ~~g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~~~~~~~l~~~l~~l~  214 (374)
T PRK14722        135 ERGGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVHAVKDGGDLQLALAELR  214 (374)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCCceEecCCcccHHHHHHHhc
Confidence            45678999999999999999988753211        0110000                000000000       0124


Q ss_pred             CeeEEEEecCCCcccchhhhhHHHHHHHHHH--ccCccEEEEEEeCCCCchhHHHHHHHhhcccC--C-C--CCEEEEEe
Q 025346          162 EYQMILYDTPGIIEKKIHMLDSMMMKNVRSA--GINADCIVVLVDACKAPERIDEILEEGVGDHK--D-K--LPILLVLN  234 (254)
Q Consensus       162 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~--~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~--~-~--~piivV~n  234 (254)
                      +..+.+|||+|......     ...+.....  ...+.-.++|++++.....+.+.+........  . .  ..--+|+|
T Consensus       215 ~~DlVLIDTaG~~~~d~-----~l~e~La~L~~~~~~~~~lLVLsAts~~~~l~evi~~f~~~~~~p~~~~~~~~~~I~T  289 (374)
T PRK14722        215 NKHMVLIDTIGMSQRDR-----TVSDQIAMLHGADTPVQRLLLLNATSHGDTLNEVVQAYRSAAGQPKAALPDLAGCILT  289 (374)
T ss_pred             CCCEEEEcCCCCCcccH-----HHHHHHHHHhccCCCCeEEEEecCccChHHHHHHHHHHHHhhcccccccCCCCEEEEe
Confidence            56899999999654321     111222221  23455678999998877666655444332210  0 0  12357789


Q ss_pred             cCCCCC
Q 025346          235 KKDLIK  240 (254)
Q Consensus       235 K~Dl~~  240 (254)
                      |.|...
T Consensus       290 KlDEt~  295 (374)
T PRK14722        290 KLDEAS  295 (374)
T ss_pred             ccccCC
Confidence            999854

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=98.05  E-value=9.1e-05  Score=64.79  Aligned_cols=121  Identities=16%  Similarity=0.241  Sum_probs=67.1

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcC------ccccccCCCCc-----------eE-E-EEEEEE----------------
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQ------KLSIVTNKPQT-----------TR-H-RILGIC----------------  158 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~------~~~~~~~~~~t-----------t~-~-~~~~~~----------------  158 (254)
                      ++..++++|++|+||||++..+.+.      ++......+..           .+ . ......                
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~~l~~~g~~V~Li~~D~~r~~a~eql~~~a~~~~i~~~~~~~~~dpa~~v~~~l~~~  192 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAHKYKAQGKKVLLAAGDTFRAAAIEQLQVWGERVGVPVIAQKEGADPASVAFDAIQAA  192 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhcCCeEEEEecCccchhhHHHHHHHHHHcCceEEEeCCCCCHHHHHHHHHHHH
Confidence            4568999999999999999988642      11111111100           00 0 000000                


Q ss_pred             ecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH-----ccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEE
Q 025346          159 SGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA-----GINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVL  233 (254)
Q Consensus       159 ~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~-----~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~  233 (254)
                      ...+..+.++||||........++..  ..+...     ...++.+++|+|++.+...+.+. ....+.   -.+.-+|+
T Consensus       193 ~~~~~D~ViIDTaGr~~~~~~l~~eL--~~~~~v~~~~~~~~p~~~~LVl~a~~g~~~~~~a-~~f~~~---~~~~giIl  266 (318)
T PRK10416        193 KARGIDVLIIDTAGRLHNKTNLMEEL--KKIKRVIKKADPDAPHEVLLVLDATTGQNALSQA-KAFHEA---VGLTGIIL  266 (318)
T ss_pred             HhCCCCEEEEeCCCCCcCCHHHHHHH--HHHHHHHhhhcCCCCceEEEEEECCCChHHHHHH-HHHHhh---CCCCEEEE
Confidence            02346799999999755433322221  122221     23578899999999765554433 222211   13457899


Q ss_pred             ecCCCCC
Q 025346          234 NKKDLIK  240 (254)
Q Consensus       234 nK~Dl~~  240 (254)
                      ||.|...
T Consensus       267 TKlD~t~  273 (318)
T PRK10416        267 TKLDGTA  273 (318)
T ss_pred             ECCCCCC
Confidence            9999654

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

Probab=98.04  E-value=5.1e-05  Score=64.65  Aligned_cols=113  Identities=21%  Similarity=0.304  Sum_probs=68.2

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcC------ccccc--cCCCCceEEEEEE-----------------E--------
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQ------KLSIV--TNKPQTTRHRILG-----------------I--------  157 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~------~~~~~--~~~~~tt~~~~~~-----------------~--------  157 (254)
                      ...+...|.+.|.||+|||||+..|...      +++..  .+..+-|...+.+                 .        
T Consensus        47 ~tG~a~viGITG~PGaGKSTli~~L~~~l~~~G~rVaVlAVDPSSp~TGGsiLGDRiRM~~~~~~~~vFiRs~~srG~lG  126 (323)
T COG1703          47 RTGNAHVIGITGVPGAGKSTLIEALGRELRERGHRVAVLAVDPSSPFTGGSILGDRIRMQRLAVDPGVFIRSSPSRGTLG  126 (323)
T ss_pred             cCCCCcEEEecCCCCCchHHHHHHHHHHHHHCCcEEEEEEECCCCCCCCccccccHhhHHhhccCCCeEEeecCCCccch
Confidence            3455668999999999999999988632      22221  1211222111110                 0        


Q ss_pred             ------------EecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCC--chhHHHHHHHhhccc
Q 025346          158 ------------CSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKA--PERIDEILEEGVGDH  223 (254)
Q Consensus       158 ------------~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~  223 (254)
                                  ++..++.+.|+.|.|.++....            ....+|.+++|.-..-+  .+-++.-+.++-   
T Consensus       127 GlS~at~~~i~~ldAaG~DvIIVETVGvGQsev~------------I~~~aDt~~~v~~pg~GD~~Q~iK~GimEia---  191 (323)
T COG1703         127 GLSRATREAIKLLDAAGYDVIIVETVGVGQSEVD------------IANMADTFLVVMIPGAGDDLQGIKAGIMEIA---  191 (323)
T ss_pred             hhhHHHHHHHHHHHhcCCCEEEEEecCCCcchhH------------HhhhcceEEEEecCCCCcHHHHHHhhhhhhh---
Confidence                        1224578999999998776421            24568888888766543  333444444433   


Q ss_pred             CCCCCEEEEEecCCCCChHh
Q 025346          224 KDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       224 ~~~~piivV~nK~Dl~~~~~  243 (254)
                           =++|+||.|....+.
T Consensus       192 -----Di~vINKaD~~~A~~  206 (323)
T COG1703         192 -----DIIVINKADRKGAEK  206 (323)
T ss_pred             -----heeeEeccChhhHHH
Confidence                 289999999665543

>PF06858 NOG1: Nucleolar GTP-binding protein 1 (NOG1); InterPro: IPR010674 This domain represents a conserved region of approximately 60 residues in length within nucleolar GTP-binding protein 1 (NOG1)

Probab=98.04  E-value=2.3e-05  Score=50.07  Aligned_cols=51  Identities=25%  Similarity=0.339  Sum_probs=31.5

Q ss_pred             HHHHHHHccCccEEEEEEeCCCC----chhHHHHHHHhhcccCCCCCEEEEEecCC
Q 025346          186 MKNVRSAGINADCIVVLVDACKA----PERIDEILEEGVGDHKDKLPILLVLNKKD  237 (254)
Q Consensus       186 ~~~~~~~~~~~d~iv~vid~~~~----~~~~~~~~~~~~~~~~~~~piivV~nK~D  237 (254)
                      +....+..+.+++|+|++|.+..    .+.....+.++.. ...+.|+++|+||+|
T Consensus         4 ~qai~AL~hL~~~ilfi~D~Se~CGysie~Q~~L~~~ik~-~F~~~P~i~V~nK~D   58 (58)
T PF06858_consen    4 MQAITALAHLADAILFIIDPSEQCGYSIEEQLSLFKEIKP-LFPNKPVIVVLNKID   58 (58)
T ss_dssp             HHHHHGGGGT-SEEEEEE-TT-TTSS-HHHHHHHHHHHHH-HTTTS-EEEEE--TT
T ss_pred             HHHHHHHHhhcceEEEEEcCCCCCCCCHHHHHHHHHHHHH-HcCCCCEEEEEeccC
Confidence            45666778889999999999872    2344444444443 345899999999998

The NOG1 family includes eukaryotic, bacterial and archaeal proteins. In Saccharomyces cerevisiae, the NOG1 gene has been shown to be essential for cell viability, suggesting that NOG1 may play an important role in nucleolar functions. In particular, NOG1 is believed to be functionally linked to ribosome biogenesis, which occurs in the nucleolus. In eukaryotes, NOG1 mutants were found to disrupt the biogenesis of the 60S ribosomal subunit []. The DRG and OBG proteins as well as the prokaryotic NOG-like proteins are homologous throughout their length to the amino half of eukaryotic NOG1, which contains the GTP binding motifs (IPR006073 from INTERPRO); the N-terminal GTP-binding motif is required for function.; GO: 0005525 GTP binding; PDB: 2E87_A.

>KOG0460 consensus Mitochondrial translation elongation factor Tu [Translation, ribosomal structure and biogenesis]

Probab=98.04  E-value=4.4e-05  Score=65.93  Aligned_cols=125  Identities=18%  Similarity=0.187  Sum_probs=82.0

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcC----------cccccc-----CCCCceEEEEEEEEecCCeeEEEEecCCCccc
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQ----------KLSIVT-----NKPQTTRHRILGICSGPEYQMILYDTPGIIEK  176 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~----------~~~~~~-----~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~  176 (254)
                      ..+..+|.-+|.-..|||||.-.+..-          ++..+.     ...+.|.......+....+.+-=+|+||..+ 
T Consensus        51 ~KPHvNVGTIGHVDHGKTTLTaAITkila~~g~A~~~kydeID~APEEkaRGITIn~aHveYeTa~RhYaH~DCPGHAD-  129 (449)
T KOG0460|consen   51 DKPHVNVGTIGHVDHGKTTLTAAITKILAEKGGAKFKKYDEIDKAPEEKARGITINAAHVEYETAKRHYAHTDCPGHAD-  129 (449)
T ss_pred             CCCcccccccccccCCchhHHHHHHHHHHhccccccccHhhhhcChhhhhccceEeeeeeeeeccccccccCCCCchHH-
Confidence            344568999999999999998766521          122122     2234555544444555667788899999432 


Q ss_pred             chhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHH
Q 025346          177 KIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAK  246 (254)
Q Consensus       177 ~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~  246 (254)
                              +......-...-|+.|+|+.++++.....+....+.++.+- ..+++.+||.|+++..++-+
T Consensus       130 --------YIKNMItGaaqMDGaILVVaatDG~MPQTrEHlLLArQVGV-~~ivvfiNKvD~V~d~e~le  190 (449)
T KOG0460|consen  130 --------YIKNMITGAAQMDGAILVVAATDGPMPQTREHLLLARQVGV-KHIVVFINKVDLVDDPEMLE  190 (449)
T ss_pred             --------HHHHhhcCccccCceEEEEEcCCCCCcchHHHHHHHHHcCC-ceEEEEEecccccCCHHHHH
Confidence                    33444445677899999999999766555544444444432 46889999999996555433

>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=98.04  E-value=3.7e-05  Score=62.59  Aligned_cols=119  Identities=19%  Similarity=0.256  Sum_probs=64.9

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCc------cccccCCCCce-------------EEEEEEEE----------------ec
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQK------LSIVTNKPQTT-------------RHRILGIC----------------SG  160 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~------~~~~~~~~~tt-------------~~~~~~~~----------------~~  160 (254)
                      ..++++|++|+||||.+-++...-      +..++......             .-......                ..
T Consensus         2 ~vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~~~~~~~~~~~~~~l~~~~~   81 (196)
T PF00448_consen    2 KVIALVGPTGVGKTTTIAKLAARLKLKGKKVALISADTYRIGAVEQLKTYAEILGVPFYVARTESDPAEIAREALEKFRK   81 (196)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEESTSSTHHHHHHHHHHHHHTEEEEESSTTSCHHHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCchHhHHHHHHHHHhhccccceeecCCCCCccHHHHHHHHHHHhccccchhhcchhhHHHHHHHHHHHhh
Confidence            468999999999999998876431      11111110000             00101000                11


Q ss_pred             CCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          161 PEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       161 ~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      ++..+.++||||......+.+...  ..+.... ..+-+++|++++...+...... ...+..  + +--+++||.|...
T Consensus        82 ~~~D~vlIDT~Gr~~~d~~~~~el--~~~~~~~-~~~~~~LVlsa~~~~~~~~~~~-~~~~~~--~-~~~lIlTKlDet~  154 (196)
T PF00448_consen   82 KGYDLVLIDTAGRSPRDEELLEEL--KKLLEAL-NPDEVHLVLSATMGQEDLEQAL-AFYEAF--G-IDGLILTKLDETA  154 (196)
T ss_dssp             TTSSEEEEEE-SSSSTHHHHHHHH--HHHHHHH-SSSEEEEEEEGGGGGHHHHHHH-HHHHHS--S-TCEEEEESTTSSS
T ss_pred             cCCCEEEEecCCcchhhHHHHHHH--HHHhhhc-CCccceEEEecccChHHHHHHH-HHhhcc--c-CceEEEEeecCCC
Confidence            346799999999654432222221  2333333 6788999999988666555333 222222  1 2356789999864


Q ss_pred             h
Q 025346          241 P  241 (254)
Q Consensus       241 ~  241 (254)
                      .
T Consensus       155 ~  155 (196)
T PF00448_consen  155 R  155 (196)
T ss_dssp             T
T ss_pred             C
Confidence            3

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 ....

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

Probab=98.03  E-value=3.9e-06  Score=67.23  Aligned_cols=128  Identities=23%  Similarity=0.344  Sum_probs=68.5

Q ss_pred             cEEEEEeCCCCChHHHHHHHhc-----CccccccCCCCce----------EEEEEEEE--------------------ec
Q 025346          116 GYVAVLGKPNVGKSTLANQMIG-----QKLSIVTNKPQTT----------RHRILGIC--------------------SG  160 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~-----~~~~~~~~~~~tt----------~~~~~~~~--------------------~~  160 (254)
                      |.+++.|..|+|||||++.++.     .+.....+..+..          ........                    ..
T Consensus         1 Pv~ii~GfLGsGKTTli~~ll~~~~~~~~~~vI~ne~g~~~iD~~~l~~~~~~v~~l~~gcicc~~~~~~~~~l~~l~~~   80 (178)
T PF02492_consen    1 PVIIITGFLGSGKTTLINHLLKRNRQGERVAVIVNEFGEVNIDAELLQEDGVPVVELNNGCICCTLRDDLVEALRRLLRE   80 (178)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHHTTTS-EEEEECSTTSTHHHHHHHHTTT-EEEEECTTTESS-TTS-HHHHHHHHCCC
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHhcCCceeEEEEccccccccchhhhcccceEEEEecCCCcccccHHHHHHHHHHHHHh
Confidence            3578999999999999999993     2222222221110          00011110                    11


Q ss_pred             C--CeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecC
Q 025346          161 P--EYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKK  236 (254)
Q Consensus       161 ~--~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~  236 (254)
                      .  .....++.+.|..+..  .+  .+........-..+.+|.|+|+.+.  .......+...+..     -=++|+||+
T Consensus        81 ~~~~~d~IiIE~sG~a~p~--~l--~~~~~~~~~~~~~~~iI~vVDa~~~~~~~~~~~~~~~Qi~~-----ADvIvlnK~  151 (178)
T PF02492_consen   81 YEERPDRIIIETSGLADPA--PL--ILQDPPLKEDFRLDSIITVVDATNFDELENIPELLREQIAF-----ADVIVLNKI  151 (178)
T ss_dssp             CHGC-SEEEEEEECSSGGG--GH--HHHSHHHHHHESESEEEEEEEGTTHGGHTTHCHHHHHHHCT------SEEEEE-G
T ss_pred             cCCCcCEEEECCccccccc--hh--hhccccccccccccceeEEeccccccccccchhhhhhcchh-----cCEEEEecc
Confidence            2  3578899999965543  22  1112222234567899999999762  12223333333331     117899999


Q ss_pred             CCCChHh-HHHHHHHHh
Q 025346          237 DLIKPGE-IAKKLEVTT  252 (254)
Q Consensus       237 Dl~~~~~-~~~~~~~~~  252 (254)
                      |+.++++ ++...+.++
T Consensus       152 D~~~~~~~i~~~~~~ir  168 (178)
T PF02492_consen  152 DLVSDEQKIERVREMIR  168 (178)
T ss_dssp             GGHHHH--HHHHHHHHH
T ss_pred             ccCChhhHHHHHHHHHH
Confidence            9998873 355444443

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

>KOG1487 consensus GTP-binding protein DRG1 (ODN superfamily) [Signal transduction mechanisms]

Probab=98.03  E-value=7.7e-06  Score=68.09  Aligned_cols=91  Identities=29%  Similarity=0.329  Sum_probs=71.7

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccC
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGIN  195 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~  195 (254)
                      .++.++|.|++||||++..+.+...+ +..+-++|-..+.+.....+.++++.|.||+.+.........  .+..+.++.
T Consensus        60 a~vg~vgFPSvGksTl~~~l~g~~s~-vasyefttl~~vpG~~~y~gaKiqlldlpgiiegakdgkgrg--~qviavart  136 (358)
T KOG1487|consen   60 ARVGFVGFPSVGKSTLLSKLTGTFSE-VAAYEFTTLTTVPGVIRYKGAKIQLLDLPGIIEGAKDGKGRG--KQVIAVART  136 (358)
T ss_pred             eeeeEEecCccchhhhhhhhcCCCCc-cccccceeEEEecceEeccccceeeecCcchhcccccCCCCc--cEEEEEeec
Confidence            38999999999999999999876544 778889999899999989999999999999986543322110  233345678


Q ss_pred             ccEEEEEEeCCCCc
Q 025346          196 ADCIVVLVDACKAP  209 (254)
Q Consensus       196 ~d~iv~vid~~~~~  209 (254)
                      +++|++|.|+-.+.
T Consensus       137 cnli~~vld~~kp~  150 (358)
T KOG1487|consen  137 CNLIFIVLDVLKPL  150 (358)
T ss_pred             ccEEEEEeeccCcc
Confidence            99999999997643

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=98.02  E-value=5.9e-05  Score=61.88  Aligned_cols=27  Identities=26%  Similarity=0.471  Sum_probs=23.0

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ....+.++++|+.|+|||||+++++..
T Consensus        19 ~~~~~~i~~~G~~gsGKTTli~~l~~~   45 (207)
T TIGR00073        19 KHGLVVLNFMSSPGSGKTTLIEKLIDN   45 (207)
T ss_pred             hcCcEEEEEECCCCCCHHHHHHHHHHH
Confidence            345678999999999999999998754

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

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=98.01  E-value=0.00012  Score=62.63  Aligned_cols=122  Identities=16%  Similarity=0.243  Sum_probs=66.4

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhc------CccccccCCCCc--------------eEEEEEEE---------------E
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIG------QKLSIVTNKPQT--------------TRHRILGI---------------C  158 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~------~~~~~~~~~~~t--------------t~~~~~~~---------------~  158 (254)
                      ++..++++|++|+||||++..+..      .+...+...+..              ........               .
T Consensus        71 ~~~vi~l~G~~G~GKTTt~akLA~~l~~~g~~V~li~~D~~r~~a~~ql~~~~~~~~i~~~~~~~~~dp~~~~~~~l~~~  150 (272)
T TIGR00064        71 KPNVILFVGVNGVGKTTTIAKLANKLKKQGKSVLLAAGDTFRAAAIEQLEEWAKRLGVDVIKQKEGADPAAVAFDAIQKA  150 (272)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEeCCCCCHHHHHHHHHHHHhCCeEEEeCCCCCCHHHHHHHHHHHH
Confidence            456889999999999999887753      122111111100              00000000               0


Q ss_pred             ecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc-----cCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEE
Q 025346          159 SGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG-----INADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVL  233 (254)
Q Consensus       159 ~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~-----~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~  233 (254)
                      ...+..+.++||||........+..  ...+....     ..+|.+++|+|++.+....... ....+..   .+.-+|+
T Consensus       151 ~~~~~D~ViIDT~G~~~~d~~~~~e--l~~~~~~~~~~~~~~~~~~~LVl~a~~~~~~~~~~-~~f~~~~---~~~g~Il  224 (272)
T TIGR00064       151 KARNIDVVLIDTAGRLQNKVNLMDE--LKKIKRVIKKVDKDAPDEVLLVLDATTGQNALEQA-KVFNEAV---GLTGIIL  224 (272)
T ss_pred             HHCCCCEEEEeCCCCCcchHHHHHH--HHHHHHHHhcccCCCCceEEEEEECCCCHHHHHHH-HHHHhhC---CCCEEEE
Confidence            0245689999999965532222111  12222222     2489999999998654444332 3322222   2457899


Q ss_pred             ecCCCCCh
Q 025346          234 NKKDLIKP  241 (254)
Q Consensus       234 nK~Dl~~~  241 (254)
                      ||+|....
T Consensus       225 TKlDe~~~  232 (272)
T TIGR00064       225 TKLDGTAK  232 (272)
T ss_pred             EccCCCCC
Confidence            99998654

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.

>COG5258 GTPBP1 GTPase [General function prediction only]

Probab=97.98  E-value=1.1e-05  Score=70.61  Aligned_cols=135  Identities=18%  Similarity=0.193  Sum_probs=84.8

Q ss_pred             ccCCCCCCCcEEEEEeCCCCChHHHHHHHhcCcccccc--------C-----CCCceEEEEEEEE---------------
Q 025346          107 YASHPNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVT--------N-----KPQTTRHRILGIC---------------  158 (254)
Q Consensus       107 ~~~~~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~--------~-----~~~tt~~~~~~~~---------------  158 (254)
                      +.....+....+...|.-..|||||+-.+...+..-..        .     ..+.+.+.....+               
T Consensus       109 r~~~~~~~hv~Vg~aGhVdhGKSTlvG~LvtG~~DDG~G~tR~~ldv~kHEverGlsa~iS~~v~Gf~dgk~~rlknPld  188 (527)
T COG5258         109 RKTEEAPEHVLVGVAGHVDHGKSTLVGVLVTGRLDDGDGATRSYLDVQKHEVERGLSADISLRVYGFDDGKVVRLKNPLD  188 (527)
T ss_pred             ecccCCCceEEEEEeccccCCcceEEEEEEecCCCCCCcchhhhhhhhhHHHhhccccceeEEEEEecCCceEeecCccc
Confidence            33444566778999999999999999988765432100        0     0011111111111               


Q ss_pred             --------ecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH-ccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCE
Q 025346          159 --------SGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA-GINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPI  229 (254)
Q Consensus       159 --------~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~-~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~pi  229 (254)
                              ...+.-+.|+||.|.+        .+++..+.-. ....|..++++-+.++.+.+......+..  ....|+
T Consensus       189 ~aE~~~vv~~aDklVsfVDtvGHE--------pwLrTtirGL~gqk~dYglLvVaAddG~~~~tkEHLgi~~--a~~lPv  258 (527)
T COG5258         189 EAEKAAVVKRADKLVSFVDTVGHE--------PWLRTTIRGLLGQKVDYGLLVVAADDGVTKMTKEHLGIAL--AMELPV  258 (527)
T ss_pred             HHHHhHhhhhcccEEEEEecCCcc--------HHHHHHHHHHhccccceEEEEEEccCCcchhhhHhhhhhh--hhcCCE
Confidence                    1122457899999942        2222222222 45789999999999987776655544433  357999


Q ss_pred             EEEEecCCCCChHhHHHHHHHH
Q 025346          230 LLVLNKKDLIKPGEIAKKLEVT  251 (254)
Q Consensus       230 ivV~nK~Dl~~~~~~~~~~~~~  251 (254)
                      ++|+||||+.+.+......+.+
T Consensus       259 iVvvTK~D~~~ddr~~~v~~ei  280 (527)
T COG5258         259 IVVVTKIDMVPDDRFQGVVEEI  280 (527)
T ss_pred             EEEEEecccCcHHHHHHHHHHH
Confidence            9999999999988776655544

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

Probab=97.92  E-value=6.6e-05  Score=65.59  Aligned_cols=131  Identities=22%  Similarity=0.340  Sum_probs=74.1

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCcc-----------ccccCCC-----Cce---EEEEEE--EEe---------------
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKL-----------SIVTNKP-----QTT---RHRILG--ICS---------------  159 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~-----------~~~~~~~-----~tt---~~~~~~--~~~---------------  159 (254)
                      +..++-|.-|+||||++|.++...-           ..++-..     .+.   .....+  +|+               
T Consensus         2 pVtvitGFLGsGKTTlL~~lL~~~~g~kiAVIVNEfGEvgID~~~~l~~~~e~~~El~nGCICCT~r~dl~~~~~~L~~~   81 (323)
T COG0523           2 PVTVITGFLGSGKTTLLNHLLANRDGKKIAVIVNEFGEVGIDGGALLSDTGEEVVELTNGCICCTVRDDLLPALERLLRR   81 (323)
T ss_pred             CEEEEeecCCCCHHHHHHHHHhccCCCcEEEEEecCccccccCCCccccCCccEEEeCCceEEEeccchhHHHHHHHHhc
Confidence            3567889999999999999986532           1111110     000   010111  111               


Q ss_pred             cCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHH---HHHHHhhcccCCCCCEEEEEecC
Q 025346          160 GPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERID---EILEEGVGDHKDKLPILLVLNKK  236 (254)
Q Consensus       160 ~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~---~~~~~~~~~~~~~~piivV~nK~  236 (254)
                      .+.....+|.|.|+.++. ..+............-..|.+|-|+|+.+......   +.....+.     .-=+||+||+
T Consensus        82 ~~~~D~ivIEtTGlA~P~-pv~~t~~~~~~l~~~~~ld~vvtvVDa~~~~~~~~~~~~~~~~Qia-----~AD~ivlNK~  155 (323)
T COG0523          82 RDRPDRLVIETTGLADPA-PVIQTFLTDPELADGVRLDGVVTVVDAAHFLEGLDAIAELAEDQLA-----FADVIVLNKT  155 (323)
T ss_pred             cCCCCEEEEeCCCCCCCH-HHHHHhccccccccceeeceEEEEEeHHHhhhhHHHHHHHHHHHHH-----hCcEEEEecc
Confidence            223568899999986652 22222221111112345688999999988544332   33333222     1228899999


Q ss_pred             CCCChHhHHHHHHHHh
Q 025346          237 DLIKPGEIAKKLEVTT  252 (254)
Q Consensus       237 Dl~~~~~~~~~~~~~~  252 (254)
                      |+.++++++.....+.
T Consensus       156 Dlv~~~~l~~l~~~l~  171 (323)
T COG0523         156 DLVDAEELEALEARLR  171 (323)
T ss_pred             cCCCHHHHHHHHHHHH
Confidence            9999987666555443

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.91  E-value=5.1e-05  Score=67.60  Aligned_cols=120  Identities=19%  Similarity=0.230  Sum_probs=65.6

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcC------ccccccCCCCc---e----------EEEEEEEEe-------------cC
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQ------KLSIVTNKPQT---T----------RHRILGICS-------------GP  161 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~------~~~~~~~~~~t---t----------~~~~~~~~~-------------~~  161 (254)
                      .+..++++|++|+||||++..+...      ++..+...+..   .          ........+             ..
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~~L~~~GkkVglI~aDt~RiaAvEQLk~yae~lgipv~v~~d~~~L~~aL~~lk~~~  319 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEA  319 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEEecCCcchHHHHHHHHHhhhcCCcEEecCCHHHHHHHHHHHHhcc
Confidence            3468999999999999999988632      11111111110   0          000000000             11


Q ss_pred             CeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          162 EYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       162 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      +..+.|+||||........+...  ..+.. ....+.+++|+|++............+..    -..--+++||.|-..
T Consensus       320 ~~DvVLIDTaGRs~kd~~lm~EL--~~~lk-~~~PdevlLVLsATtk~~d~~~i~~~F~~----~~idglI~TKLDET~  391 (436)
T PRK11889        320 RVDYILIDTAGKNYRASETVEEM--IETMG-QVEPDYICLTLSASMKSKDMIEIITNFKD----IHIDGIVFTKFDETA  391 (436)
T ss_pred             CCCEEEEeCccccCcCHHHHHHH--HHHHh-hcCCCeEEEEECCccChHHHHHHHHHhcC----CCCCEEEEEcccCCC
Confidence            35799999999654333333222  11111 23467889999987655554444443322    123467889999754

>KOG2423 consensus Nucleolar GTPase [General function prediction only]

Probab=97.90  E-value=1.1e-05  Score=70.78  Aligned_cols=65  Identities=29%  Similarity=0.420  Sum_probs=51.2

Q ss_pred             CCCCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccc
Q 025346          110 HPNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK  177 (254)
Q Consensus       110 ~~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~  177 (254)
                      .++.+...|.++|.+++||||+||.+-.++++.+.+.|+.|.......+   -.++.+||+||+.-..
T Consensus       302 h~dkkqISVGfiGYPNvGKSSiINTLR~KkVCkvAPIpGETKVWQYItL---mkrIfLIDcPGvVyps  366 (572)
T KOG2423|consen  302 HSDKKQISVGFIGYPNVGKSSIINTLRKKKVCKVAPIPGETKVWQYITL---MKRIFLIDCPGVVYPS  366 (572)
T ss_pred             ccCccceeeeeecCCCCchHHHHHHHhhcccccccCCCCcchHHHHHHH---HhceeEecCCCccCCC
Confidence            3566677899999999999999999999999999999998864222111   2468899999976543

>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=97.85  E-value=0.00019  Score=57.00  Aligned_cols=73  Identities=15%  Similarity=0.272  Sum_probs=41.2

Q ss_pred             CeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          162 EYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       162 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      +..+.++||||........+...  ..+.. ....+.+++|+|+....+.. +......+..  + ..-+|+||+|....
T Consensus        82 ~~d~viiDt~g~~~~~~~~l~~l--~~l~~-~~~~~~~~lVv~~~~~~~~~-~~~~~~~~~~--~-~~~viltk~D~~~~  154 (173)
T cd03115          82 NFDVVIVDTAGRLQIDENLMEEL--KKIKR-VVKPDEVLLVVDAMTGQDAV-NQAKAFNEAL--G-ITGVILTKLDGDAR  154 (173)
T ss_pred             CCCEEEEECcccchhhHHHHHHH--HHHHh-hcCCCeEEEEEECCCChHHH-HHHHHHHhhC--C-CCEEEEECCcCCCC
Confidence            45689999999543211111111  11111 23589999999996543333 3333333322  2 35678899998654

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.

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.83  E-value=0.00013  Score=65.90  Aligned_cols=119  Identities=17%  Similarity=0.218  Sum_probs=66.1

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccc--------cccCCCCce------------EE-EEEEE----------EecC
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLS--------IVTNKPQTT------------RH-RILGI----------CSGP  161 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~--------~~~~~~~tt------------~~-~~~~~----------~~~~  161 (254)
                      ..+..++++|++|+||||++..+.+....        .+.......            .. .....          ....
T Consensus       189 ~~g~vi~lvGpnG~GKTTtlakLA~~~~~~~~~~~v~~i~~d~~rigalEQL~~~a~ilGvp~~~v~~~~dl~~al~~l~  268 (420)
T PRK14721        189 EQGGVYALIGPTGVGKTTTTAKLAARAVIRHGADKVALLTTDSYRIGGHEQLRIYGKLLGVSVRSIKDIADLQLMLHELR  268 (420)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecCCcchhHHHHHHHHHHHcCCceecCCCHHHHHHHHHHhc
Confidence            45678999999999999999988753210        000000000            00 00000          0123


Q ss_pred             CeeEEEEecCCCcccchhhhhHHHHHHHHHH--ccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCC
Q 025346          162 EYQMILYDTPGIIEKKIHMLDSMMMKNVRSA--GINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLI  239 (254)
Q Consensus       162 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~--~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~  239 (254)
                      +..+.++||+|.......     .++.+...  .....-.++|++++.....+.+......    .--.--+++||.|-.
T Consensus       269 ~~d~VLIDTaGrsqrd~~-----~~~~l~~l~~~~~~~~~~LVl~at~~~~~~~~~~~~f~----~~~~~~~I~TKlDEt  339 (420)
T PRK14721        269 GKHMVLIDTVGMSQRDQM-----LAEQIAMLSQCGTQVKHLLLLNATSSGDTLDEVISAYQ----GHGIHGCIITKVDEA  339 (420)
T ss_pred             CCCEEEecCCCCCcchHH-----HHHHHHHHhccCCCceEEEEEcCCCCHHHHHHHHHHhc----CCCCCEEEEEeeeCC
Confidence            467899999996543221     12222222  2335568899999876666665554432    112345778999975


Q ss_pred             C
Q 025346          240 K  240 (254)
Q Consensus       240 ~  240 (254)
                      .
T Consensus       340 ~  340 (420)
T PRK14721        340 A  340 (420)
T ss_pred             C
Confidence            4

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.82  E-value=8.3e-05  Score=66.86  Aligned_cols=120  Identities=16%  Similarity=0.156  Sum_probs=65.7

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCc-------cccccCCCCce-----------E-E-EEEEE---------EecCCeeE
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQK-------LSIVTNKPQTT-----------R-H-RILGI---------CSGPEYQM  165 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~-------~~~~~~~~~tt-----------~-~-~~~~~---------~~~~~~~~  165 (254)
                      +..++++|++|+||||++..+....       ...+...+..+           . . .....         ....+..+
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit~Dt~R~aA~eQLk~yAe~lgvp~~~~~~~~~l~~~l~~~~~D~  302 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTTDNYRIAAIEQLKRYADTMGMPFYPVKDIKKFKETLARDGSEL  302 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEecccchhhhHHHHHHHHHHhcCCCeeehHHHHHHHHHHHhCCCCE
Confidence            4568899999999999999887421       11111111000           0 0 00000         01135678


Q ss_pred             EEEecCCCcccchhhhhHHHHHHHHHHcc--CccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          166 ILYDTPGIIEKKIHMLDSMMMKNVRSAGI--NADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       166 ~liDtpG~~~~~~~~~~~~~~~~~~~~~~--~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      .++||||........+...  ..+.....  ...-+++|+|++............. +..   -+--+|+||.|-..
T Consensus       303 VLIDTaGr~~rd~~~l~eL--~~~~~~~~~~~~~e~~LVLsAt~~~~~~~~~~~~f-~~~---~~~glIlTKLDEt~  373 (432)
T PRK12724        303 ILIDTAGYSHRNLEQLERM--QSFYSCFGEKDSVENLLVLSSTSSYHHTLTVLKAY-ESL---NYRRILLTKLDEAD  373 (432)
T ss_pred             EEEeCCCCCccCHHHHHHH--HHHHHhhcCCCCCeEEEEEeCCCCHHHHHHHHHHh-cCC---CCCEEEEEcccCCC
Confidence            9999999754433333222  12222221  2446889999988766665555443 211   23467789999754

>COG3523 IcmF Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.79  E-value=5.9e-05  Score=75.33  Aligned_cols=126  Identities=20%  Similarity=0.263  Sum_probs=73.9

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccC--CCCceEEEEEEEEe-cCCeeEEEEecCCCcccc--hhhhhHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTN--KPQTTRHRILGICS-GPEYQMILYDTPGIIEKK--IHMLDSMMMK  187 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~--~~~tt~~~~~~~~~-~~~~~~~liDtpG~~~~~--~~~~~~~~~~  187 (254)
                      ..-+..+++|++|+||||++.. .+.+++....  ..+..... +.+|+ +-+....+|||.|-.-..  ....+.....
T Consensus       123 yeLPWy~viG~pgsGKTtal~~-sgl~Fpl~~~~~~~~~~~~g-T~~cdwwf~deaVlIDtaGry~~q~s~~~~~~~~W~  200 (1188)
T COG3523         123 YELPWYMVIGPPGSGKTTALLN-SGLQFPLAEQMGALGLAGPG-TRNCDWWFTDEAVLIDTAGRYITQDSADEVDRAEWL  200 (1188)
T ss_pred             hcCCceEEecCCCCCcchHHhc-ccccCcchhhhccccccCCC-CcccCcccccceEEEcCCcceecccCcchhhHHHHH
Confidence            3456789999999999999875 3333332111  11111110 22333 335568899999943221  1112222112


Q ss_pred             H----HHHH--ccCccEEEEEEeCCCC----c-------hhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          188 N----VRSA--GINADCIVVLVDACKA----P-------ERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       188 ~----~~~~--~~~~d~iv~vid~~~~----~-------~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      .    +..+  .+..++||+.+++.+.    .       ..++..+.++........|+++++||.|+++
T Consensus       201 ~fL~lLkk~R~~~piNGiiltlsv~~L~~~~~~~~~~~~~~LR~RL~El~~tL~~~~PVYl~lTk~Dll~  270 (1188)
T COG3523         201 GFLGLLKKYRRRRPLNGIILTLSVSDLLTADPAEREALARTLRARLQELRETLHARLPVYLVLTKADLLP  270 (1188)
T ss_pred             HHHHHHHHhccCCCCceEEEEEEHHHHcCCCHHHHHHHHHHHHHHHHHHHHhhccCCceEEEEecccccc
Confidence            1    1222  4568999999998651    1       1233445666666677899999999999987

>PRK11537 putative GTP-binding protein YjiA; Provisional

Probab=97.79  E-value=0.0001  Score=64.44  Aligned_cols=25  Identities=20%  Similarity=0.312  Sum_probs=21.4

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      +.+..++.|.-|+|||||+|+++..
T Consensus         3 ~ipv~iltGFLGaGKTTll~~ll~~   27 (318)
T PRK11537          3 PIAVTLLTGFLGAGKTTLLRHILNE   27 (318)
T ss_pred             ccCEEEEEECCCCCHHHHHHHHHhc
Confidence            3467889999999999999999854

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.78  E-value=9e-05  Score=65.77  Aligned_cols=119  Identities=15%  Similarity=0.134  Sum_probs=63.9

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcC------ccccccCCCCce------------EE-EEEEEEe-------------c
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQ------KLSIVTNKPQTT------------RH-RILGICS-------------G  160 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~------~~~~~~~~~~tt------------~~-~~~~~~~-------------~  160 (254)
                      .++..++++|++|+||||++..+...      +...+...+...            .. ......+             .
T Consensus       204 ~~~~ii~lvGptGvGKTTt~akLA~~l~~~g~~V~lItaDtyR~gAveQLk~yae~lgvpv~~~~dp~dL~~al~~l~~~  283 (407)
T PRK12726        204 SNHRIISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFITTDTFRSGAVEQFQGYADKLDVELIVATSPAELEEAVQYMTYV  283 (407)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCccCccHHHHHHHHhhcCCCCEEecCCHHHHHHHHHHHHhc
Confidence            34668999999999999999988642      121111111110            00 0110001             1


Q ss_pred             CCeeEEEEecCCCcccchhhhhHHHHHHHHHHc--cCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCC
Q 025346          161 PEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG--INADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDL  238 (254)
Q Consensus       161 ~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~--~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl  238 (254)
                      .+..+.++||||........+     ..+....  ...+.+++|++++.........+..    +..-.+--+|+||.|.
T Consensus       284 ~~~D~VLIDTAGr~~~d~~~l-----~EL~~l~~~~~p~~~~LVLsag~~~~d~~~i~~~----f~~l~i~glI~TKLDE  354 (407)
T PRK12726        284 NCVDHILIDTVGRNYLAEESV-----SEISAYTDVVHPDLTCFTFSSGMKSADVMTILPK----LAEIPIDGFIITKMDE  354 (407)
T ss_pred             CCCCEEEEECCCCCccCHHHH-----HHHHHHhhccCCceEEEECCCcccHHHHHHHHHh----cCcCCCCEEEEEcccC
Confidence            246899999999644322222     2222222  2457777888775544444443332    1221234678899997


Q ss_pred             CC
Q 025346          239 IK  240 (254)
Q Consensus       239 ~~  240 (254)
                      ..
T Consensus       355 T~  356 (407)
T PRK12726        355 TT  356 (407)
T ss_pred             CC
Confidence            54

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=97.78  E-value=0.00013  Score=64.87  Aligned_cols=117  Identities=17%  Similarity=0.189  Sum_probs=64.9

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCcc--ccccCCCCceEEEEE-------------------EEE----------ecCC
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKL--SIVTNKPQTTRHRIL-------------------GIC----------SGPE  162 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~--~~~~~~~~tt~~~~~-------------------~~~----------~~~~  162 (254)
                      ++..++++||+|+||||.+-.+...-.  .........|.+.+.                   ...          ....
T Consensus       202 ~~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~vv~~~~el~~ai~~l~~  281 (407)
T COG1419         202 QKRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTYADIMGVPLEVVYSPKELAEAIEALRD  281 (407)
T ss_pred             cCcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHHHHHHhCCceEEecCHHHHHHHHHHhhc
Confidence            377899999999999999887765432  000011111111110                   000          1245


Q ss_pred             eeEEEEecCCCcccchhhhhHHHHHHHHHHcc--CccEEEEEEeCCCCchhHHHHHHHhhcccCCCCC-EEEEEecCCCC
Q 025346          163 YQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI--NADCIVVLVDACKAPERIDEILEEGVGDHKDKLP-ILLVLNKKDLI  239 (254)
Q Consensus       163 ~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~--~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~p-iivV~nK~Dl~  239 (254)
                      +.+.++||.|.....     .....++..+..  ...-+.+|++++.-...+...+.....     .| --+++||.|-.
T Consensus       282 ~d~ILVDTaGrs~~D-----~~~i~el~~~~~~~~~i~~~Lvlsat~K~~dlkei~~~f~~-----~~i~~~I~TKlDET  351 (407)
T COG1419         282 CDVILVDTAGRSQYD-----KEKIEELKELIDVSHSIEVYLVLSATTKYEDLKEIIKQFSL-----FPIDGLIFTKLDET  351 (407)
T ss_pred             CCEEEEeCCCCCccC-----HHHHHHHHHHHhccccceEEEEEecCcchHHHHHHHHHhcc-----CCcceeEEEccccc
Confidence            789999999954433     222233334333  334456777777655666555554321     22 24567999975


Q ss_pred             C
Q 025346          240 K  240 (254)
Q Consensus       240 ~  240 (254)
                      .
T Consensus       352 ~  352 (407)
T COG1419         352 T  352 (407)
T ss_pred             C
Confidence            3

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.77  E-value=0.00039  Score=62.31  Aligned_cols=121  Identities=19%  Similarity=0.207  Sum_probs=65.5

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcC----------ccccccCCCCce-------------EEEEEEEE----------ec
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQ----------KLSIVTNKPQTT-------------RHRILGIC----------SG  160 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~----------~~~~~~~~~~tt-------------~~~~~~~~----------~~  160 (254)
                      .+..++++|++|+||||.+..+...          ++..++..+...             ........          ..
T Consensus       173 ~~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~~~~~~~~l~~~L~~~  252 (388)
T PRK12723        173 KKRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIPVKAIESFKDLKEEITQS  252 (388)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCCcceEeeCcHHHHHHHHHHh
Confidence            3568999999999999999877632          111111111000             00001000          12


Q ss_pred             CCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          161 PEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       161 ~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      .+..+.++||+|........+..  ...+........-+++|+|++.....+.+.+.....    --+--+++||.|-..
T Consensus       253 ~~~DlVLIDTaGr~~~~~~~l~e--l~~~l~~~~~~~e~~LVlsat~~~~~~~~~~~~~~~----~~~~~~I~TKlDet~  326 (388)
T PRK12723        253 KDFDLVLVDTIGKSPKDFMKLAE--MKELLNACGRDAEFHLAVSSTTKTSDVKEIFHQFSP----FSYKTVIFTKLDETT  326 (388)
T ss_pred             CCCCEEEEcCCCCCccCHHHHHH--HHHHHHhcCCCCeEEEEEcCCCCHHHHHHHHHHhcC----CCCCEEEEEeccCCC
Confidence            45789999999965432111111  122222222233688999998876666655544321    123467789998754

>KOG2484 consensus GTPase [General function prediction only]

Probab=97.75  E-value=2.3e-05  Score=68.92  Aligned_cols=63  Identities=33%  Similarity=0.420  Sum_probs=53.0

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccc
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK  177 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~  177 (254)
                      .....++.|+|-+++||||+||.+...+.+.+++.|+.|+......+   +..+.|+|.||+.-.+
T Consensus       249 lk~sIrvGViG~PNVGKSSvINsL~~~k~C~vg~~pGvT~smqeV~L---dk~i~llDsPgiv~~~  311 (435)
T KOG2484|consen  249 LKTSIRVGIIGYPNVGKSSVINSLKRRKACNVGNVPGVTRSMQEVKL---DKKIRLLDSPGIVPPS  311 (435)
T ss_pred             cCcceEeeeecCCCCChhHHHHHHHHhccccCCCCccchhhhhheec---cCCceeccCCceeecC
Confidence            45567899999999999999999999998889999999987666555   3468999999986443

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=97.74  E-value=5.9e-05  Score=60.11  Aligned_cols=56  Identities=29%  Similarity=0.283  Sum_probs=39.4

Q ss_pred             cEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHHHHHHHh
Q 025346          197 DCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLEVTT  252 (254)
Q Consensus       197 d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~~~~~~~  252 (254)
                      |+|++|+|+..+.......+.........+.|+++|+||+|+.+++.+.++.+.++
T Consensus         1 DvVl~VvDar~p~~~~~~~i~~~~~l~~~~kp~IlVlNK~DL~~~~~l~~~~~~~~   56 (172)
T cd04178           1 DVILEVLDARDPLGCRCPQVEEAVLQAGGNKKLVLVLNKIDLVPKENVEKWLKYLR   56 (172)
T ss_pred             CEEEEEEECCCCCCCCCHHHHHHHHhccCCCCEEEEEehhhcCCHHHHHHHHHHHH
Confidence            78999999988654433334333211134689999999999999888777766654

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

>TIGR02475 CobW cobalamin biosynthesis protein CobW

Probab=97.74  E-value=0.00033  Score=61.94  Aligned_cols=24  Identities=25%  Similarity=0.308  Sum_probs=20.8

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcC
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      .+..++.|.-|+|||||+|+++..
T Consensus         4 ipv~iltGFLGaGKTTll~~ll~~   27 (341)
T TIGR02475         4 IPVTIVTGFLGAGKTTLIRHLLQN   27 (341)
T ss_pred             cCEEEEEECCCCCHHHHHHHHHhc
Confidence            456888999999999999999854

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

>KOG1533 consensus Predicted GTPase [General function prediction only]

Probab=97.73  E-value=3.4e-05  Score=63.44  Aligned_cols=78  Identities=24%  Similarity=0.289  Sum_probs=43.8

Q ss_pred             eeEEEEecCCCcccc--hhhhhHHHHHHHHHHccCccEEEEEEeC---CCCchhHHHHHHHhhcccCCCCCEEEEEecCC
Q 025346          163 YQMILYDTPGIIEKK--IHMLDSMMMKNVRSAGINADCIVVLVDA---CKAPERIDEILEEGVGDHKDKLPILLVLNKKD  237 (254)
Q Consensus       163 ~~~~liDtpG~~~~~--~~~~~~~~~~~~~~~~~~~d~iv~vid~---~~~~~~~~~~~~~~~~~~~~~~piivV~nK~D  237 (254)
                      ....++|.||..+--  ...+...+ +.... ..-.-++|-++|+   +++...+...+..+.....-..|=+=|+.|+|
T Consensus        97 ~~Y~lFDcPGQVELft~h~~l~~I~-~~Lek-~~~rl~~V~LiDs~ycs~p~~~iS~lL~sl~tMl~melphVNvlSK~D  174 (290)
T KOG1533|consen   97 DHYVLFDCPGQVELFTHHDSLNKIF-RKLEK-LDYRLVAVNLIDSHYCSDPSKFISSLLVSLATMLHMELPHVNVLSKAD  174 (290)
T ss_pred             CcEEEEeCCCcEEEEeccchHHHHH-HHHHH-cCceEEEEEeeeceeeCChHHHHHHHHHHHHHHHhhcccchhhhhHhH
Confidence            468899999954321  12233332 22222 2333445566665   44444455554444444445678888999999


Q ss_pred             CCChH
Q 025346          238 LIKPG  242 (254)
Q Consensus       238 l~~~~  242 (254)
                      +....
T Consensus       175 l~~~y  179 (290)
T KOG1533|consen  175 LLKKY  179 (290)
T ss_pred             HHHhh
Confidence            97653

>PRK14974 cell division protein FtsY; Provisional

Probab=97.73  E-value=0.00047  Score=60.67  Aligned_cols=121  Identities=17%  Similarity=0.179  Sum_probs=64.4

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcC------ccccccCCCCce--------------EEEEEEEE---------------
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQ------KLSIVTNKPQTT--------------RHRILGIC---------------  158 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~------~~~~~~~~~~tt--------------~~~~~~~~---------------  158 (254)
                      ++..++++|++|+||||++..+...      ++..+...+...              ........               
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~~l~~~g~~V~li~~Dt~R~~a~eqL~~~a~~lgv~v~~~~~g~dp~~v~~~ai~~~  218 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAYYLKKNGFSVVIAAGDTFRAGAIEQLEEHAERLGVKVIKHKYGADPAAVAYDAIEHA  218 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEecCCcCcHHHHHHHHHHHHHcCCceecccCCCCHHHHHHHHHHHH
Confidence            3568999999999999977776531      121111111000              00000000               


Q ss_pred             ecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCC
Q 025346          159 SGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDL  238 (254)
Q Consensus       159 ~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl  238 (254)
                      ...+..+.++||+|........+...  ..+.. ....|.+++|+|+..+.....+. .......   ..--+++||.|.
T Consensus       219 ~~~~~DvVLIDTaGr~~~~~~lm~eL--~~i~~-~~~pd~~iLVl~a~~g~d~~~~a-~~f~~~~---~~~giIlTKlD~  291 (336)
T PRK14974        219 KARGIDVVLIDTAGRMHTDANLMDEL--KKIVR-VTKPDLVIFVGDALAGNDAVEQA-REFNEAV---GIDGVILTKVDA  291 (336)
T ss_pred             HhCCCCEEEEECCCccCCcHHHHHHH--HHHHH-hhCCceEEEeeccccchhHHHHH-HHHHhcC---CCCEEEEeeecC
Confidence            11245699999999765433322221  12211 23678999999997653333222 2222111   234678899998


Q ss_pred             CCh
Q 025346          239 IKP  241 (254)
Q Consensus       239 ~~~  241 (254)
                      ...
T Consensus       292 ~~~  294 (336)
T PRK14974        292 DAK  294 (336)
T ss_pred             CCC
Confidence            643

>TIGR00101 ureG urease accessory protein UreG

Probab=97.72  E-value=0.0003  Score=57.41  Aligned_cols=23  Identities=22%  Similarity=0.287  Sum_probs=20.3

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcC
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      .+++++|+.|+||||+++++++.
T Consensus         2 ~~i~i~G~~GsGKTTll~~l~~~   24 (199)
T TIGR00101         2 LKIGVAGPVGSGKTALIEALTRA   24 (199)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            47999999999999999988754

This model represents UreG, a GTP hydrolase that acts in the assembly of the nickel metallocenter of urease. It is found only in urease-positive species, although some urease-positive species (e.g. Bacillus subtilis) lack this protein. A similar protein, hypB, is an accessory protein for expression of hydrogenase, which also uses nickel.

>KOG1707 consensus Predicted Ras related/Rac-GTP binding protein [Defense mechanisms]

Probab=97.72  E-value=0.00037  Score=64.12  Aligned_cols=116  Identities=24%  Similarity=0.268  Sum_probs=70.6

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEE---EEEecCCeeEEEEecCCCcccchhhhhHHHHHH
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRIL---GICSGPEYQMILYDTPGIIEKKIHMLDSMMMKN  188 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~---~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~  188 (254)
                      ..+-..+.++|+.++|||.+++.++++.+..  ...+++...+.   ....+....+.+-|.+-.......+        
T Consensus       422 ~R~Vf~C~V~G~k~~GKs~lL~sflgr~~~~--~~~~~~~~~~avn~v~~~g~~k~LiL~ei~~~~~~~l~~--------  491 (625)
T KOG1707|consen  422 DRKVFQCFVVGPKNCGKSALLQSFLGRSMSD--NNTGTTKPRYAVNSVEVKGQQKYLILREIGEDDQDFLTS--------  491 (625)
T ss_pred             cceeeeEEEEcCCcCchHHHHHHHhcccccc--ccccCCCCceeeeeeeeccccceEEEeecCccccccccC--------
Confidence            3445679999999999999999999988764  22222211111   1122344456666655321111111        


Q ss_pred             HHHHccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          189 VRSAGINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       189 ~~~~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                         .-..+|++++++|.+++  +............  ....|+++|++|+|+-...
T Consensus       492 ---ke~~cDv~~~~YDsS~p~sf~~~a~v~~~~~~--~~~~Pc~~va~K~dlDe~~  542 (625)
T KOG1707|consen  492 ---KEAACDVACLVYDSSNPRSFEYLAEVYNKYFD--LYKIPCLMVATKADLDEVP  542 (625)
T ss_pred             ---ccceeeeEEEecccCCchHHHHHHHHHHHhhh--ccCCceEEEeeccccchhh
Confidence               01579999999999963  3333333322222  2679999999999997654

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

Probab=97.71  E-value=0.00023  Score=55.32  Aligned_cols=20  Identities=40%  Similarity=0.730  Sum_probs=17.7

Q ss_pred             EEEEeCCCCChHHHHHHHhc
Q 025346          118 VAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       118 ~~~~G~~~~gKssl~~~~~~  137 (254)
                      +.++|.+|+||||++..+..
T Consensus         2 i~~~G~~GsGKTt~~~~l~~   21 (148)
T cd03114           2 IGITGVPGAGKSTLIDALIT   21 (148)
T ss_pred             EEEECCCCCcHHHHHHHHHH
Confidence            68899999999999998764

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.

>KOG1534 consensus Putative transcription factor FET5 [Transcription]

Probab=97.70  E-value=3e-05  Score=62.75  Aligned_cols=78  Identities=24%  Similarity=0.321  Sum_probs=43.6

Q ss_pred             eeEEEEecCCCcccchh-hhhHHHHHHHHHHccCccEEEEEEeCCC---CchhHHHHHHHhhcccCCCCCEEEEEecCCC
Q 025346          163 YQMILYDTPGIIEKKIH-MLDSMMMKNVRSAGINADCIVVLVDACK---APERIDEILEEGVGDHKDKLPILLVLNKKDL  238 (254)
Q Consensus       163 ~~~~liDtpG~~~~~~~-~~~~~~~~~~~~~~~~~d~iv~vid~~~---~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl  238 (254)
                      ..+.++|+||..+--.+ .+-+.+.+.+.. ..---+++|++|+.=   ..+.+.-.+..+.....-.+|-|-|++|+||
T Consensus        98 ddylifDcPGQIELytH~pVm~~iv~hl~~-~~F~~c~Vylldsqf~vD~~KfiSG~lsAlsAMi~lE~P~INvlsKMDL  176 (273)
T KOG1534|consen   98 DDYLIFDCPGQIELYTHLPVMPQIVEHLKQ-WNFNVCVVYLLDSQFLVDSTKFISGCLSALSAMISLEVPHINVLSKMDL  176 (273)
T ss_pred             CCEEEEeCCCeeEEeecChhHHHHHHHHhc-ccCceeEEEEeccchhhhHHHHHHHHHHHHHHHHHhcCcchhhhhHHHH
Confidence            46889999996543211 111222233333 233446788887642   2222333333333333456899999999999


Q ss_pred             CCh
Q 025346          239 IKP  241 (254)
Q Consensus       239 ~~~  241 (254)
                      +..
T Consensus       177 lk~  179 (273)
T KOG1534|consen  177 LKD  179 (273)
T ss_pred             hhh
Confidence            876

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

Probab=97.67  E-value=0.00043  Score=58.99  Aligned_cols=136  Identities=21%  Similarity=0.265  Sum_probs=76.4

Q ss_pred             CCCCCCCcEEEEEeCCCCChHHHHHHHhcCc----cccccCCCCce------------------------EEEEEEEEe-
Q 025346          109 SHPNHKSGYVAVLGKPNVGKSTLANQMIGQK----LSIVTNKPQTT------------------------RHRILGICS-  159 (254)
Q Consensus       109 ~~~~~~~~~~~~~G~~~~gKssl~~~~~~~~----~~~~~~~~~tt------------------------~~~~~~~~~-  159 (254)
                      .++..+.+.-++.|.-|+|||||+|.++.+.    ++..-+..+..                        ..+....+. 
T Consensus        51 ~~~~~rIPvtIITGyLGaGKtTLLn~Il~~~hgKRIAVIlNEfGes~die~sl~~~~~gg~lyEewv~L~NGClCCtVk~  130 (391)
T KOG2743|consen   51 SSLGARIPVTIITGYLGAGKTTLLNYILTGQHGKRIAVILNEFGESSDIEKSLAVSQEGGELYEEWVELRNGCLCCTVKD  130 (391)
T ss_pred             cCCCCccceEEEEecccCChHHHHHHHHccCCCceEEEEhhhcccchhhhHHHHhccccchHHHHHHHhcCCeEEEEecc
Confidence            4455666778889999999999999998652    22111111110                        001111111 


Q ss_pred             ------------cCCeeEEEEecCCCcccchhhhhHHHH-HHHHHHccCccEEEEEEeCCCCch---------hHHHHHH
Q 025346          160 ------------GPEYQMILYDTPGIIEKKIHMLDSMMM-KNVRSAGINADCIVVLVDACKAPE---------RIDEILE  217 (254)
Q Consensus       160 ------------~~~~~~~liDtpG~~~~~~~~~~~~~~-~~~~~~~~~~d~iv~vid~~~~~~---------~~~~~~~  217 (254)
                                  .+.....++.|.|+.++.+  +.+.+. ..-...--..|+||-|+|+.+...         .+.+...
T Consensus       131 ~gvraie~lvqkkGkfD~IllETTGlAnPaP--ia~~Fw~dd~l~sdVkLDGIVTvvD~K~~~~~Lde~k~~g~i~EA~~  208 (391)
T KOG2743|consen  131 NGVRAIENLVQKKGKFDHILLETTGLANPAP--IASMFWLDDELGSDVKLDGIVTVVDAKHILKHLDEEKPDGLINEATR  208 (391)
T ss_pred             hHHHHHHHHHhcCCCcceEEEeccCCCCcHH--HHHHHhhhhhhcCceeeeeEEEEEehhhHHhhhcccCcccchHHHHH
Confidence                        1224578899999866542  222221 111111235799999999965211         1112222


Q ss_pred             HhhcccCCCCCEEEEEecCCCCChHhHHHHHHHHh
Q 025346          218 EGVGDHKDKLPILLVLNKKDLIKPGEIAKKLEVTT  252 (254)
Q Consensus       218 ~~~~~~~~~~piivV~nK~Dl~~~~~~~~~~~~~~  252 (254)
                      ++.-      -=.++.||.|+...+++....+.++
T Consensus       209 QiA~------AD~II~NKtDli~~e~~~~l~q~I~  237 (391)
T KOG2743|consen  209 QIAL------ADRIIMNKTDLVSEEEVKKLRQRIR  237 (391)
T ss_pred             HHhh------hheeeeccccccCHHHHHHHHHHHH
Confidence            2111      1146789999999988877666554

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.67  E-value=0.00014  Score=66.06  Aligned_cols=121  Identities=18%  Similarity=0.224  Sum_probs=65.1

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcC--------ccccccCCCCce-------------EEEEEEEE----------ecCCe
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQ--------KLSIVTNKPQTT-------------RHRILGIC----------SGPEY  163 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~--------~~~~~~~~~~tt-------------~~~~~~~~----------~~~~~  163 (254)
                      +..++++|++|+||||++..+...        ++..+...+...             ........          ...+.
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~~r~~a~eqL~~~a~~~~vp~~~~~~~~~l~~~l~~~~~~  300 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDTYRIGAVEQLKTYAKIMGIPVEVVYDPKELAKALEQLRDC  300 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCccHHHHHHHHHHHHHHhCCceEccCCHHhHHHHHHHhCCC
Confidence            458999999999999988876532        121111111100             00000000          12346


Q ss_pred             eEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          164 QMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       164 ~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      .+.++||||........+...  ..+........-+++|++++.....+.+.+..+.. .   .+--+++||.|....
T Consensus       301 DlVlIDt~G~~~~d~~~~~~L--~~ll~~~~~~~~~~LVl~a~~~~~~l~~~~~~f~~-~---~~~~vI~TKlDet~~  372 (424)
T PRK05703        301 DVILIDTAGRSQRDKRLIEEL--KALIEFSGEPIDVYLVLSATTKYEDLKDIYKHFSR-L---PLDGLIFTKLDETSS  372 (424)
T ss_pred             CEEEEeCCCCCCCCHHHHHHH--HHHHhccCCCCeEEEEEECCCCHHHHHHHHHHhCC-C---CCCEEEEeccccccc
Confidence            799999999654332222211  12222122345678889988766666665544321 1   123688999998543

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.62  E-value=0.00049  Score=66.28  Aligned_cols=121  Identities=14%  Similarity=0.199  Sum_probs=65.5

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCcc--------ccccCCCCc--e----------EE-EEEEEE----------ecCC
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKL--------SIVTNKPQT--T----------RH-RILGIC----------SGPE  162 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~--------~~~~~~~~t--t----------~~-~~~~~~----------~~~~  162 (254)
                      .+..++++|++|+||||++..+.+.-.        ..+......  .          .. ......          ...+
T Consensus       184 ~g~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~Dt~RigA~eQL~~~a~~~gvpv~~~~~~~~l~~al~~~~~  263 (767)
T PRK14723        184 QGGVLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTTDSFRIGALEQLRIYGRILGVPVHAVKDAADLRFALAALGD  263 (767)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecCcccchHHHHHHHHHHHhCCCCccccCCHHHHHHHHHHhcC
Confidence            356889999999999999998875321        111100000  0          00 000000          1234


Q ss_pred             eeEEEEecCCCcccchhhhhHHHHHHHHHH--ccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          163 YQMILYDTPGIIEKKIHMLDSMMMKNVRSA--GINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       163 ~~~~liDtpG~~~~~~~~~~~~~~~~~~~~--~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      ..+.||||||........+     +.....  ....+-+++|+|++...+.+.+....+...... -+-=+|+||.|-..
T Consensus       264 ~D~VLIDTAGRs~~d~~l~-----eel~~l~~~~~p~e~~LVLsAt~~~~~l~~i~~~f~~~~~~-~i~glIlTKLDEt~  337 (767)
T PRK14723        264 KHLVLIDTVGMSQRDRNVS-----EQIAMLCGVGRPVRRLLLLNAASHGDTLNEVVHAYRHGAGE-DVDGCIITKLDEAT  337 (767)
T ss_pred             CCEEEEeCCCCCccCHHHH-----HHHHHHhccCCCCeEEEEECCCCcHHHHHHHHHHHhhcccC-CCCEEEEeccCCCC
Confidence            5799999999654432211     222221  345677899999987555555444332211001 13457789999754

>cd01859 MJ1464 MJ1464

Probab=97.62  E-value=0.00019  Score=55.94  Aligned_cols=55  Identities=27%  Similarity=0.263  Sum_probs=36.5

Q ss_pred             HHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHH
Q 025346          189 VRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIA  245 (254)
Q Consensus       189 ~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~  245 (254)
                      +......+|++++|+|++++.......+.....  ..+.|+++|+||+|+.+.....
T Consensus         6 ~~~i~~~aD~vl~V~D~~~~~~~~~~~l~~~~~--~~~~p~iiv~NK~Dl~~~~~~~   60 (156)
T cd01859           6 VRRIIKESDVVLEVLDARDPELTRSRKLERYVL--ELGKKLLIVLNKADLVPKEVLE   60 (156)
T ss_pred             HHHHHhhCCEEEEEeeCCCCcccCCHHHHHHHH--hCCCcEEEEEEhHHhCCHHHHH
Confidence            444566799999999998754332222322222  2368999999999998654443

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.

>cd01856 YlqF YlqF

Probab=97.61  E-value=0.00019  Score=56.94  Aligned_cols=58  Identities=24%  Similarity=0.330  Sum_probs=39.8

Q ss_pred             HHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHHH
Q 025346          186 MKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKK  247 (254)
Q Consensus       186 ~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~~  247 (254)
                      +++....+..+|++++|+|++.+.......+....    .+.|+++|+||+|+.+++.+...
T Consensus        10 ~~~~~~~i~~aD~il~v~D~~~~~~~~~~~i~~~~----~~k~~ilVlNK~Dl~~~~~~~~~   67 (171)
T cd01856          10 LRQIKEKLKLVDLVIEVRDARIPLSSRNPLLEKIL----GNKPRIIVLNKADLADPKKTKKW   67 (171)
T ss_pred             HHHHHHHHhhCCEEEEEeeccCccCcCChhhHhHh----cCCCEEEEEehhhcCChHHHHHH
Confidence            35566778999999999999875433222222221    35799999999999876555433

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.

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=97.58  E-value=0.00015  Score=56.54  Aligned_cols=50  Identities=28%  Similarity=0.307  Sum_probs=34.6

Q ss_pred             cEEEEEEeCCCCchhHHHHHH-HhhcccCCCCCEEEEEecCCCCChHhHHHHH
Q 025346          197 DCIVVLVDACKAPERIDEILE-EGVGDHKDKLPILLVLNKKDLIKPGEIAKKL  248 (254)
Q Consensus       197 d~iv~vid~~~~~~~~~~~~~-~~~~~~~~~~piivV~nK~Dl~~~~~~~~~~  248 (254)
                      |++++|+|+.++......++. ....  ..+.|+++|+||+|+.+++++.+..
T Consensus         1 Dvvl~VvD~~~p~~~~~~~i~~~~~~--~~~~p~IiVlNK~Dl~~~~~~~~~~   51 (155)
T cd01849           1 DVILEVLDARDPLGTRSPDIERVLIK--EKGKKLILVLNKADLVPKEVLRKWL   51 (155)
T ss_pred             CEEEEEEeccCCccccCHHHHHHHHh--cCCCCEEEEEechhcCCHHHHHHHH
Confidence            789999999875444333443 2222  3468999999999998876655443

These proteins are found in bacteria, eukaryotes, and archaea. They all exhibit a circular permutation of the GTPase signature motifs so that the order of the conserved G box motifs is G4-G5-G1-G2-G3, with G4 and G5 being permuted from the C-terminal region of proteins in the Ras superfamily to the N-terminus of YlqF-related GTPases.

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=97.56  E-value=0.00023  Score=61.03  Aligned_cols=60  Identities=23%  Similarity=0.324  Sum_probs=42.2

Q ss_pred             HHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHHHHHH
Q 025346          187 KNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLEV  250 (254)
Q Consensus       187 ~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~~~~~  250 (254)
                      .++...+..+|+|++|+|+..+.......+...+    .+.|+++|+||+|+.++.+.....+.
T Consensus        13 ~~~~~~l~~aDvVl~V~Dar~p~~~~~~~i~~~l----~~kp~IiVlNK~DL~~~~~~~~~~~~   72 (276)
T TIGR03596        13 REIKEKLKLVDVVIEVLDARIPLSSRNPMIDEIR----GNKPRLIVLNKADLADPAVTKQWLKY   72 (276)
T ss_pred             HHHHHHHhhCCEEEEEEeCCCCCCCCChhHHHHH----CCCCEEEEEEccccCCHHHHHHHHHH
Confidence            5566778999999999999875444333343433    25799999999999876555544333

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.

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

Probab=97.54  E-value=0.00013  Score=58.45  Aligned_cols=23  Identities=26%  Similarity=0.388  Sum_probs=20.3

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ...+.+.|++|+|||+|+.+++.
T Consensus        13 ~~~i~v~Gp~GSGKTaLie~~~~   35 (202)
T COG0378          13 MLRIGVGGPPGSGKTALIEKTLR   35 (202)
T ss_pred             eEEEEecCCCCcCHHHHHHHHHH
Confidence            36899999999999999998764

>KOG2484 consensus GTPase [General function prediction only]

Probab=97.51  E-value=0.00029  Score=62.09  Aligned_cols=71  Identities=24%  Similarity=0.199  Sum_probs=51.8

Q ss_pred             HHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHHHHHHHhc
Q 025346          183 SMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLEVTTC  253 (254)
Q Consensus       183 ~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~~~~~~~~  253 (254)
                      ..+...+...+..+|+|+.|+|+.++...-....++.......+...|+|+||+|+++.+.+.+++.++..
T Consensus       134 kaY~ke~rkvve~sDVVleVlDARDPlgtR~~~vE~~V~~~~gnKkLILVLNK~DLVPrEv~e~Wl~YLr~  204 (435)
T KOG2484|consen  134 KAYDKEFRKVVEASDVVLEVLDARDPLGTRCPEVEEAVLQAHGNKKLILVLNKIDLVPREVVEKWLVYLRR  204 (435)
T ss_pred             HHHHHHHHHHHhhhheEEEeeeccCCCCCCChhHHHHHHhccCCceEEEEeehhccCCHHHHHHHHHHHHh
Confidence            33446677778899999999999986533222233333222345889999999999999999999988754

>cd02038 FleN-like FleN is a member of the Fer4_NifH superfamily

Probab=97.47  E-value=0.0022  Score=49.08  Aligned_cols=104  Identities=16%  Similarity=0.143  Sum_probs=58.0

Q ss_pred             EEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEE--ecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCc
Q 025346          119 AVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGIC--SGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINA  196 (254)
Q Consensus       119 ~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~--~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~  196 (254)
                      +.-|.+|+|||++...+...-..     .+...-......  ..-...+.++|||+..+..           ....+..+
T Consensus         4 ~~~~kgg~gkt~~~~~~a~~~~~-----~~~~~~~vd~D~~~~~~~yd~VIiD~p~~~~~~-----------~~~~l~~a   67 (139)
T cd02038           4 VTSGKGGVGKTNISANLALALAK-----LGKRVLLLDADLGLANLDYDYIIIDTGAGISDN-----------VLDFFLAA   67 (139)
T ss_pred             EEcCCCCCcHHHHHHHHHHHHHH-----CCCcEEEEECCCCCCCCCCCEEEEECCCCCCHH-----------HHHHHHhC
Confidence            45578899999998766532110     010000000000  0111678999999843221           12346789


Q ss_pred             cEEEEEEeCCCC-chhHHHHHHHhhcccCCCCCEEEEEecCCCC
Q 025346          197 DCIVVLVDACKA-PERIDEILEEGVGDHKDKLPILLVLNKKDLI  239 (254)
Q Consensus       197 d~iv~vid~~~~-~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~  239 (254)
                      |.++++++.+.. .......+..+.. .....++.+|+|+++-.
T Consensus        68 D~vviv~~~~~~s~~~~~~~l~~l~~-~~~~~~~~lVvN~~~~~  110 (139)
T cd02038          68 DEVIVVTTPEPTSITDAYALIKKLAK-QLRVLNFRVVVNRAESP  110 (139)
T ss_pred             CeEEEEcCCChhHHHHHHHHHHHHHH-hcCCCCEEEEEeCCCCH
Confidence            999999998763 2333333333322 22456788999999754

It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by influencing FleQ activity.

>cd01855 YqeH YqeH

Probab=97.47  E-value=0.00021  Score=57.69  Aligned_cols=54  Identities=24%  Similarity=0.287  Sum_probs=37.9

Q ss_pred             HHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          185 MMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       185 ~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      +...+..++..+|++++|+|+++........+..    ...+.|+++|+||+|+.+++
T Consensus        24 ~~~~l~~~~~~ad~il~VvD~~~~~~~~~~~l~~----~~~~~~~ilV~NK~Dl~~~~   77 (190)
T cd01855          24 ILNLLSSISPKKALVVHVVDIFDFPGSLIPRLRL----FGGNNPVILVGNKIDLLPKD   77 (190)
T ss_pred             HHHHHHhcccCCcEEEEEEECccCCCccchhHHH----hcCCCcEEEEEEchhcCCCC
Confidence            3455667789999999999998754333222211    12468999999999997543

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.

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=97.46  E-value=0.0002  Score=65.13  Aligned_cols=117  Identities=15%  Similarity=0.220  Sum_probs=62.4

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcC------ccccccCCCCce-------------EEEEEEEE--------------ec
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQ------KLSIVTNKPQTT-------------RHRILGIC--------------SG  160 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~------~~~~~~~~~~tt-------------~~~~~~~~--------------~~  160 (254)
                      ++..++++|.+|+||||++..+...      ++..+...+...             ........              ..
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L~~~g~kV~lV~~D~~R~aa~eQL~~la~~~gvp~~~~~~~~d~~~i~~~al~~~  173 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYFKKKGLKVGLVAADTYRPAAYDQLKQLAEKIGVPFYGDPDNKDAVEIAKEGLEKF  173 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEecCCCCCHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHHHHHh
Confidence            4568999999999999999877531      111111111000             00001000              01


Q ss_pred             CCeeEEEEecCCCcccchhhhhHHHHHHHHHH--ccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCC-EEEEEecCC
Q 025346          161 PEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA--GINADCIVVLVDACKAPERIDEILEEGVGDHKDKLP-ILLVLNKKD  237 (254)
Q Consensus       161 ~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~--~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~p-iivV~nK~D  237 (254)
                      ....+.++||||.......     .++.+...  ...+|.+++|+|++.+.... .....    +....+ .-+|+||+|
T Consensus       174 ~~~DvVIIDTAGr~~~d~~-----lm~El~~l~~~~~pdevlLVvda~~gq~av-~~a~~----F~~~l~i~gvIlTKlD  243 (437)
T PRK00771        174 KKADVIIVDTAGRHALEED-----LIEEMKEIKEAVKPDEVLLVIDATIGQQAK-NQAKA----FHEAVGIGGIIITKLD  243 (437)
T ss_pred             hcCCEEEEECCCcccchHH-----HHHHHHHHHHHhcccceeEEEeccccHHHH-HHHHH----HHhcCCCCEEEEeccc
Confidence            2247899999996443222     22222222  44688999999997753222 22222    222233 357889999


Q ss_pred             CCC
Q 025346          238 LIK  240 (254)
Q Consensus       238 l~~  240 (254)
                      ...
T Consensus       244 ~~a  246 (437)
T PRK00771        244 GTA  246 (437)
T ss_pred             CCC
Confidence            743

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=97.45  E-value=0.00035  Score=60.32  Aligned_cols=60  Identities=25%  Similarity=0.391  Sum_probs=42.3

Q ss_pred             HHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHHHHHH
Q 025346          187 KNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLEV  250 (254)
Q Consensus       187 ~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~~~~~  250 (254)
                      .++...+..+|+|++|+|+..+.......+.....    +.|+++|+||+|+.+........+.
T Consensus        16 ~~l~~~l~~aDvIL~VvDar~p~~~~~~~l~~~~~----~kp~iiVlNK~DL~~~~~~~~~~~~   75 (287)
T PRK09563         16 REIKENLKLVDVVIEVLDARIPLSSENPMIDKIIG----NKPRLLILNKSDLADPEVTKKWIEY   75 (287)
T ss_pred             HHHHHHhhhCCEEEEEEECCCCCCCCChhHHHHhC----CCCEEEEEEchhcCCHHHHHHHHHH
Confidence            55667789999999999998765443344444332    5899999999999876545444433

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.44  E-value=0.0009  Score=61.55  Aligned_cols=120  Identities=16%  Similarity=0.231  Sum_probs=62.9

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCc--------cccccCCCC-ce-----------EE-EEEEE----------EecCC
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQK--------LSIVTNKPQ-TT-----------RH-RILGI----------CSGPE  162 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~--------~~~~~~~~~-tt-----------~~-~~~~~----------~~~~~  162 (254)
                      .+..++++|++|+||||++..+.+.-        +..+...+. .+           .. .....          ....+
T Consensus       255 ~g~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~~Dt~RigA~EQLr~~AeilGVpv~~~~~~~Dl~~aL~~L~d  334 (484)
T PRK06995        255 RGGVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLTTDSYRIGGHEQLRIYGKILGVPVHAVKDAADLRLALSELRN  334 (484)
T ss_pred             CCcEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEeCCccchhHHHHHHHHHHHhCCCeeccCCchhHHHHHHhccC
Confidence            45689999999999999999887532        111111111 00           00 00000          01134


Q ss_pred             eeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          163 YQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       163 ~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      ....++||+|...... .+.. ....+.. .....-.++|+|++.....+.+......    .....-+|+||+|-..
T Consensus       335 ~d~VLIDTaGr~~~d~-~~~e-~~~~l~~-~~~p~e~~LVLdAt~~~~~l~~i~~~f~----~~~~~g~IlTKlDet~  405 (484)
T PRK06995        335 KHIVLIDTIGMSQRDR-MVSE-QIAMLHG-AGAPVKRLLLLNATSHGDTLNEVVQAYR----GPGLAGCILTKLDEAA  405 (484)
T ss_pred             CCeEEeCCCCcChhhH-HHHH-HHHHHhc-cCCCCeeEEEEeCCCcHHHHHHHHHHhc----cCCCCEEEEeCCCCcc
Confidence            5689999999654321 1111 1111111 1113347899999876655554443322    2234467789999754

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.43  E-value=0.00047  Score=58.87  Aligned_cols=120  Identities=19%  Similarity=0.222  Sum_probs=66.8

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcC------ccccccCCCCc--------e----EE-EEEEEEe-------------cC
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQ------KLSIVTNKPQT--------T----RH-RILGICS-------------GP  161 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~------~~~~~~~~~~t--------t----~~-~~~~~~~-------------~~  161 (254)
                      +..+++++|++|+||||++..+...      ....+...+..        +    .. ......+             ..
T Consensus        74 ~~~~i~~~G~~g~GKTtl~~~l~~~l~~~~~~v~~i~~D~~ri~~~~ql~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~  153 (270)
T PRK06731         74 EVQTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEA  153 (270)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEecCCCCHHHHHHHHHHhhhcCceEEecCCHHHHHHHHHHHHhcC
Confidence            4579999999999999998877543      11111111100        0    00 0000000             12


Q ss_pred             CeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          162 EYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       162 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      +..+.++||||........+...  ..+.. ....+-+++|++++...............    -.+--+++||.|...
T Consensus       154 ~~D~ViIDt~Gr~~~~~~~l~el--~~~~~-~~~~~~~~LVl~a~~~~~d~~~~~~~f~~----~~~~~~I~TKlDet~  225 (270)
T PRK06731        154 RVDYILIDTAGKNYRASETVEEM--IETMG-QVEPDYICLTLSASMKSKDMIEIITNFKD----IHIDGIVFTKFDETA  225 (270)
T ss_pred             CCCEEEEECCCCCcCCHHHHHHH--HHHHh-hhCCCeEEEEEcCccCHHHHHHHHHHhCC----CCCCEEEEEeecCCC
Confidence            46899999999654332333222  11111 23567789999998755555555544322    233467889999764

>KOG1143 consensus Predicted translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=97.42  E-value=0.00017  Score=63.10  Aligned_cols=127  Identities=17%  Similarity=0.169  Sum_probs=72.4

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCcccccc-------------CCCCceEEEEEE---------EE------------ecC
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVT-------------NKPQTTRHRILG---------IC------------SGP  161 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~-------------~~~~tt~~~~~~---------~~------------~~~  161 (254)
                      .+++++|...+|||||+-.+...+.....             -..+.|......         .+            +..
T Consensus       168 vRvAVlGg~D~GKSTLlGVLTQgeLDnG~GrARln~FRh~HEiqsGrTSsis~evlGFd~~g~vVNY~~~~taEEi~e~S  247 (591)
T KOG1143|consen  168 VRVAVLGGCDVGKSTLLGVLTQGELDNGNGRARLNIFRHPHEIQSGRTSSISNEVLGFDNRGKVVNYAQNMTAEEIVEKS  247 (591)
T ss_pred             EEEEEecCcccCcceeeeeeecccccCCCCeeeeehhcchhhhccCcccccchhcccccccccccchhhcccHHHHHhhh
Confidence            58999999999999999887755332100             011111110000         01            112


Q ss_pred             CeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          162 EYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       162 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      ..-++++|.+|....-...+     ..+..  -..|..++|+.+..+.....+....+..  .-++|++++++|+|+.++
T Consensus       248 SKlvTfiDLAGh~kY~~TTi-----~gLtg--Y~Ph~A~LvVsA~~Gi~~tTrEHLgl~~--AL~iPfFvlvtK~Dl~~~  318 (591)
T KOG1143|consen  248 SKLVTFIDLAGHAKYQKTTI-----HGLTG--YTPHFACLVVSADRGITWTTREHLGLIA--ALNIPFFVLVTKMDLVDR  318 (591)
T ss_pred             cceEEEeecccchhhheeee-----eeccc--CCCceEEEEEEcCCCCccccHHHHHHHH--HhCCCeEEEEEeeccccc
Confidence            23488999999321100011     11111  1467888999888765443333333333  347999999999999999


Q ss_pred             HhHHHHHHHH
Q 025346          242 GEIAKKLEVT  251 (254)
Q Consensus       242 ~~~~~~~~~~  251 (254)
                      ..+++.++.+
T Consensus       319 ~~~~~tv~~l  328 (591)
T KOG1143|consen  319 QGLKKTVKDL  328 (591)
T ss_pred             hhHHHHHHHH
Confidence            7766655544

>PRK10867 signal recognition particle protein; Provisional

Probab=97.42  E-value=0.0021  Score=58.45  Aligned_cols=71  Identities=21%  Similarity=0.285  Sum_probs=37.8

Q ss_pred             CeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCC
Q 025346          162 EYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLI  239 (254)
Q Consensus       162 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~  239 (254)
                      +..+.++||||........+...  ..+.. ...++.+++|+|+..+ +........+....   ...-+|+||.|..
T Consensus       183 ~~DvVIIDTaGrl~~d~~lm~eL--~~i~~-~v~p~evllVlda~~g-q~av~~a~~F~~~~---~i~giIlTKlD~~  253 (433)
T PRK10867        183 GYDVVIVDTAGRLHIDEELMDEL--KAIKA-AVNPDEILLVVDAMTG-QDAVNTAKAFNEAL---GLTGVILTKLDGD  253 (433)
T ss_pred             CCCEEEEeCCCCcccCHHHHHHH--HHHHH-hhCCCeEEEEEecccH-HHHHHHHHHHHhhC---CCCEEEEeCccCc
Confidence            46799999999644322222111  22222 2367788999998653 22222222222211   1235777999964

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=97.39  E-value=0.00038  Score=59.73  Aligned_cols=27  Identities=22%  Similarity=0.369  Sum_probs=22.6

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ......+.++|.+|+|||||++++++.
T Consensus       101 ~~~~~~v~l~G~pGsGKTTLl~~l~~~  127 (290)
T PRK10463        101 ARKQLVLNLVSSPGSGKTTLLTETLMR  127 (290)
T ss_pred             hcCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            345678999999999999999887753

>KOG0466 consensus Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=97.30  E-value=0.0003  Score=60.06  Aligned_cols=79  Identities=24%  Similarity=0.361  Sum_probs=52.3

Q ss_pred             eeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCC-chh-HHHHH--HHhhcccCCCCCEEEEEecCCC
Q 025346          163 YQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKA-PER-IDEIL--EEGVGDHKDKLPILLVLNKKDL  238 (254)
Q Consensus       163 ~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~-~~~-~~~~~--~~~~~~~~~~~piivV~nK~Dl  238 (254)
                      +.+.|+|+||         +..+|.....-..-.|+.++++....+ .+. ..+.+  .++.+    -..++++-||+||
T Consensus       125 RHVSfVDCPG---------HDiLMaTMLnGaAvmDaalLlIA~NEsCPQPQTsEHLaaveiM~----LkhiiilQNKiDl  191 (466)
T KOG0466|consen  125 RHVSFVDCPG---------HDILMATMLNGAAVMDAALLLIAGNESCPQPQTSEHLAAVEIMK----LKHIIILQNKIDL  191 (466)
T ss_pred             EEEEeccCCc---------hHHHHHHHhcchHHhhhhhhhhhcCCCCCCCchhhHHHHHHHhh----hceEEEEechhhh
Confidence            4578999999         344555555555566888888877653 111 11222  22222    2578999999999


Q ss_pred             CChHhHHHHHHHHhcC
Q 025346          239 IKPGEIAKKLEVTTCF  254 (254)
Q Consensus       239 ~~~~~~~~~~~~~~~~  254 (254)
                      ..+++..+..+++++|
T Consensus       192 i~e~~A~eq~e~I~kF  207 (466)
T KOG0466|consen  192 IKESQALEQHEQIQKF  207 (466)
T ss_pred             hhHHHHHHHHHHHHHH
Confidence            9998888887777665

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=97.25  E-value=0.00084  Score=56.58  Aligned_cols=51  Identities=25%  Similarity=0.367  Sum_probs=38.3

Q ss_pred             HccCccEEEEEEeCCC---CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHH
Q 025346          192 AGINADCIVVLVDACK---APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIA  245 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~---~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~  245 (254)
                      ++.++|.+++|+|+.+   ++..+..|+....   ..++|+++|+||+||.+.+++.
T Consensus        33 ~~~n~D~viiV~d~~~p~~s~~~l~r~l~~~~---~~~i~~vIV~NK~DL~~~~~~~   86 (245)
T TIGR00157        33 IVANIDQIVIVSSAVLPELSLNQLDRFLVVAE---AQNIEPIIVLNKIDLLDDEDME   86 (245)
T ss_pred             ccccCCEEEEEEECCCCCCCHHHHHHHHHHHH---HCCCCEEEEEECcccCCCHHHH
Confidence            5789999999999986   3455666665432   2579999999999998765554

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

>PRK12289 GTPase RsgA; Reviewed

Probab=97.23  E-value=0.00081  Score=59.63  Aligned_cols=56  Identities=29%  Similarity=0.440  Sum_probs=39.1

Q ss_pred             ccCccEEEEEEeCCCCc-h--hHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHHHHHHH
Q 025346          193 GINADCIVVLVDACKAP-E--RIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLEVT  251 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~~-~--~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~~~~~~  251 (254)
                      +.++|.+++|+|+.++. .  .+..++...   ...++|+++|+||+||.++++.....+.+
T Consensus        87 ~aNvD~vLlV~d~~~p~~~~~~LdR~L~~a---~~~~ip~ILVlNK~DLv~~~~~~~~~~~~  145 (352)
T PRK12289         87 VANADQILLVFALAEPPLDPWQLSRFLVKA---ESTGLEIVLCLNKADLVSPTEQQQWQDRL  145 (352)
T ss_pred             hhcCCEEEEEEECCCCCCCHHHHHHHHHHH---HHCCCCEEEEEEchhcCChHHHHHHHHHH
Confidence            68899999999997632 2  234444432   13579999999999999776655444433

>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=97.22  E-value=0.00056  Score=59.29  Aligned_cols=118  Identities=23%  Similarity=0.322  Sum_probs=65.4

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcC------ccccccCCCCc--------------eEEEEEEE---------E-----
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQ------KLSIVTNKPQT--------------TRHRILGI---------C-----  158 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~------~~~~~~~~~~t--------------t~~~~~~~---------~-----  158 (254)
                      .++..++++|-.|+||||.|-.+...      ++-......+.              ....+...         +     
T Consensus       137 ~~p~Vil~vGVNG~GKTTTIaKLA~~l~~~g~~VllaA~DTFRAaAiEQL~~w~er~gv~vI~~~~G~DpAaVafDAi~~  216 (340)
T COG0552         137 KKPFVILFVGVNGVGKTTTIAKLAKYLKQQGKSVLLAAGDTFRAAAIEQLEVWGERLGVPVISGKEGADPAAVAFDAIQA  216 (340)
T ss_pred             CCcEEEEEEecCCCchHhHHHHHHHHHHHCCCeEEEEecchHHHHHHHHHHHHHHHhCCeEEccCCCCCcHHHHHHHHHH
Confidence            45678999999999999999877632      11000000000              00111111         0     


Q ss_pred             -ecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCcc-----EEEEEEeCCCCchhHHH--HHHHhhcccCCCCCEE
Q 025346          159 -SGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINAD-----CIVVLVDACKAPERIDE--ILEEGVGDHKDKLPIL  230 (254)
Q Consensus       159 -~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d-----~iv~vid~~~~~~~~~~--~~~~~~~~~~~~~pii  230 (254)
                       ...+..+.++||+|-.+...+-|+..  +.+.+.....+     -+++++|++.+-..+.+  .+.+...     + --
T Consensus       217 Akar~~DvvliDTAGRLhnk~nLM~EL--~KI~rV~~k~~~~ap~e~llvlDAttGqnal~QAk~F~eav~-----l-~G  288 (340)
T COG0552         217 AKARGIDVVLIDTAGRLHNKKNLMDEL--KKIVRVIKKDDPDAPHEILLVLDATTGQNALSQAKIFNEAVG-----L-DG  288 (340)
T ss_pred             HHHcCCCEEEEeCcccccCchhHHHHH--HHHHHHhccccCCCCceEEEEEEcccChhHHHHHHHHHHhcC-----C-ce
Confidence             12457799999999877765555443  33334344333     38888899876544333  2333221     1 24


Q ss_pred             EEEecCCC
Q 025346          231 LVLNKKDL  238 (254)
Q Consensus       231 vV~nK~Dl  238 (254)
                      +++||+|-
T Consensus       289 iIlTKlDg  296 (340)
T COG0552         289 IILTKLDG  296 (340)
T ss_pred             EEEEeccc
Confidence            56788884

>PRK01889 GTPase RsgA; Reviewed

Probab=97.19  E-value=0.00055  Score=60.89  Aligned_cols=60  Identities=38%  Similarity=0.500  Sum_probs=37.2

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccC-------CCCceEEEEEEEEecCCeeEEEEecCCCccc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTN-------KPQTTRHRILGICSGPEYQMILYDTPGIIEK  176 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~-------~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~  176 (254)
                      .+.+++++|.+|+|||||+|.+++......+.       ...+|.......+...   ..++||||+...
T Consensus       194 ~g~~~~lvG~sgvGKStLin~L~g~~~~~~G~i~~~~~~g~~tt~~~~l~~l~~~---~~l~DtpG~~~~  260 (356)
T PRK01889        194 GGKTVALLGSSGVGKSTLVNALLGEEVQKTGAVREDDSKGRHTTTHRELHPLPSG---GLLIDTPGMREL  260 (356)
T ss_pred             cCCEEEEECCCCccHHHHHHHHHHhcccceeeEEECCCCCcchhhhccEEEecCC---CeecCCCchhhh
Confidence            35689999999999999999999754322211       1123332222233222   358899998543

>KOG3905 consensus Dynein light intermediate chain [Cell motility]

Probab=97.19  E-value=0.0062  Score=52.69  Aligned_cols=27  Identities=30%  Similarity=0.487  Sum_probs=23.6

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      +.+..|+++|..++||||||.++-+.+
T Consensus        50 psgk~VlvlGdn~sGKtsLi~klqg~e   76 (473)
T KOG3905|consen   50 PSGKNVLVLGDNGSGKTSLISKLQGSE   76 (473)
T ss_pred             CCCCeEEEEccCCCchhHHHHHhhccc
Confidence            455689999999999999999998765

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.12  E-value=0.013  Score=45.77  Aligned_cols=115  Identities=21%  Similarity=0.292  Sum_probs=59.4

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEec--CCeeEEEEecC-CC---------cc-------
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSG--PEYQMILYDTP-GI---------IE-------  175 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~--~~~~~~liDtp-G~---------~~-------  175 (254)
                      ..++.+.|+||+||||++.++...=-    .........+...+..  .-..+.++|+. |=         ..       
T Consensus         5 ~mki~ITG~PGvGKtTl~~ki~e~L~----~~g~kvgGf~t~EVR~gGkR~GF~Ivdl~tg~~~~la~~~~~~~rvGkY~   80 (179)
T COG1618           5 AMKIFITGRPGVGKTTLVLKIAEKLR----EKGYKVGGFITPEVREGGKRIGFKIVDLATGEEGILARVGFSRPRVGKYG   80 (179)
T ss_pred             ceEEEEeCCCCccHHHHHHHHHHHHH----hcCceeeeEEeeeeecCCeEeeeEEEEccCCceEEEEEcCCCCcccceEE
Confidence            45899999999999999998874211    0101111111111111  12235555555 20         00       


Q ss_pred             cchhhhhHHHHHHHHHHccCccEEEEEEeCCCC----chhHHHHHHHhhcccCCCCCEEEEEecCCC
Q 025346          176 KKIHMLDSMMMKNVRSAGINADCIVVLVDACKA----PERIDEILEEGVGDHKDKLPILLVLNKKDL  238 (254)
Q Consensus       176 ~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~----~~~~~~~~~~~~~~~~~~~piivV~nK~Dl  238 (254)
                      ...+.++......+...+..||+|+  +|--.+    .......+.+.+   ....|++.++.+-+.
T Consensus        81 V~v~~le~i~~~al~rA~~~aDvII--IDEIGpMElks~~f~~~ve~vl---~~~kpliatlHrrsr  142 (179)
T COG1618          81 VNVEGLEEIAIPALRRALEEADVII--IDEIGPMELKSKKFREAVEEVL---KSGKPLIATLHRRSR  142 (179)
T ss_pred             eeHHHHHHHhHHHHHHHhhcCCEEE--EecccchhhccHHHHHHHHHHh---cCCCcEEEEEecccC
Confidence            1123344445556666677788654  554322    223334444444   356788888886643

>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.09  E-value=0.0028  Score=55.96  Aligned_cols=91  Identities=20%  Similarity=0.361  Sum_probs=52.6

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcC------ccccccCCCC-------------ceEEEEEEEE---------------
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQ------KLSIVTNKPQ-------------TTRHRILGIC---------------  158 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~------~~~~~~~~~~-------------tt~~~~~~~~---------------  158 (254)
                      .++..|.++|-.|+||||.+..+...      +...+....+             .++.++.+.+               
T Consensus        99 ~kpsVimfVGLqG~GKTTtc~KlA~y~kkkG~K~~LvcaDTFRagAfDQLkqnA~k~~iP~ygsyte~dpv~ia~egv~~  178 (483)
T KOG0780|consen   99 GKPSVIMFVGLQGSGKTTTCTKLAYYYKKKGYKVALVCADTFRAGAFDQLKQNATKARVPFYGSYTEADPVKIASEGVDR  178 (483)
T ss_pred             CCCcEEEEEeccCCCcceeHHHHHHHHHhcCCceeEEeecccccchHHHHHHHhHhhCCeeEecccccchHHHHHHHHHH
Confidence            34457999999999999999877632      1111111110             0112222221               


Q ss_pred             -ecCCeeEEEEecCCCcccchhhhhHHHHHHHHH--HccCccEEEEEEeCCCC
Q 025346          159 -SGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRS--AGINADCIVVLVDACKA  208 (254)
Q Consensus       159 -~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~--~~~~~d~iv~vid~~~~  208 (254)
                       ..+++.+.|+||.|-....     ..+.+....  ..-.+|-||||+|++-+
T Consensus       179 fKke~fdvIIvDTSGRh~qe-----~sLfeEM~~v~~ai~Pd~vi~VmDasiG  226 (483)
T KOG0780|consen  179 FKKENFDVIIVDTSGRHKQE-----ASLFEEMKQVSKAIKPDEIIFVMDASIG  226 (483)
T ss_pred             HHhcCCcEEEEeCCCchhhh-----HHHHHHHHHHHhhcCCCeEEEEEecccc
Confidence             1245789999999943332     222222222  24569999999999864

>TIGR00959 ffh signal recognition particle protein

Probab=97.08  E-value=0.0034  Score=57.08  Aligned_cols=71  Identities=18%  Similarity=0.215  Sum_probs=38.6

Q ss_pred             CeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCC
Q 025346          162 EYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLI  239 (254)
Q Consensus       162 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~  239 (254)
                      +..+.++||||........+...  ..+.. ...++.+++|+|+..+. .............   ...-+|+||+|..
T Consensus       182 ~~DvVIIDTaGr~~~d~~l~~eL--~~i~~-~~~p~e~lLVvda~tgq-~~~~~a~~f~~~v---~i~giIlTKlD~~  252 (428)
T TIGR00959       182 GFDVVIVDTAGRLQIDEELMEEL--AAIKE-ILNPDEILLVVDAMTGQ-DAVNTAKTFNERL---GLTGVVLTKLDGD  252 (428)
T ss_pred             CCCEEEEeCCCccccCHHHHHHH--HHHHH-hhCCceEEEEEeccchH-HHHHHHHHHHhhC---CCCEEEEeCccCc
Confidence            45699999999644322222111  22222 34578899999987542 3222222222211   1246778999953

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.

>KOG0469 consensus Elongation factor 2 [Translation, ribosomal structure and biogenesis]

Probab=97.06  E-value=0.0021  Score=58.49  Aligned_cols=116  Identities=23%  Similarity=0.345  Sum_probs=68.8

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceE---------------EEE--EEE--------------Ee
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTR---------------HRI--LGI--------------CS  159 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~---------------~~~--~~~--------------~~  159 (254)
                      .....+++.++.....|||||...+..+.--+.....+.++               ...  .-+              .+
T Consensus        15 k~~NiRNmSVIAHVDHGKSTLTDsLV~kAgIis~akaGe~Rf~DtRkDEQeR~iTIKStAISl~~e~~~~dl~~~k~~~d   94 (842)
T KOG0469|consen   15 KKKNIRNMSVIAHVDHGKSTLTDSLVQKAGIISAAKAGETRFTDTRKDEQERGITIKSTAISLFFEMSDDDLKFIKQEGD   94 (842)
T ss_pred             cccccccceEEEEecCCcchhhHHHHHhhceeeecccCCccccccccchhhcceEeeeeeeeehhhhhHhHHHHhcCCCC
Confidence            33445567888888999999999987653221112222211               000  000              12


Q ss_pred             cCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCch-hHHHHHHHhhcccCCCCCEEEEEecCCC
Q 025346          160 GPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPE-RIDEILEEGVGDHKDKLPILLVLNKKDL  238 (254)
Q Consensus       160 ~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~-~~~~~~~~~~~~~~~~~piivV~nK~Dl  238 (254)
                      ..+.-+.+||.||..+.+         ....+.++-.|+.+.|+|.-++.- ..+..+.+.+.   ..+.=++|.||+|.
T Consensus        95 ~~~FLiNLIDSPGHVDFS---------SEVTAALRVTDGALVVVDcv~GvCVQTETVLrQA~~---ERIkPvlv~NK~DR  162 (842)
T KOG0469|consen   95 GNGFLINLIDSPGHVDFS---------SEVTAALRVTDGALVVVDCVSGVCVQTETVLRQAIA---ERIKPVLVMNKMDR  162 (842)
T ss_pred             CcceeEEeccCCCcccch---------hhhhheeEeccCcEEEEEccCceEechHHHHHHHHH---hhccceEEeehhhH
Confidence            345668999999976654         445566888999999999977531 11222222221   22333678899997

>KOG0463 consensus GTP-binding protein GP-1 [General function prediction only]

Probab=97.04  E-value=0.0016  Score=57.19  Aligned_cols=130  Identities=18%  Similarity=0.244  Sum_probs=73.3

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCccccc-------------cCCCCceEE-------------------------E
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQKLSIV-------------TNKPQTTRH-------------------------R  153 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~-------------~~~~~tt~~-------------------------~  153 (254)
                      +.-..+++++|...+|||||+-.+...+....             .-..+.|..                         .
T Consensus       130 DF~E~RVAVVGNVDAGKSTLLGVLTHgeLDnGRG~ARqkLFRHKHEiESGRTSSVGNDILGFD~~GNvVNKPD~Hg~~Ld  209 (641)
T KOG0463|consen  130 DFIEARVAVVGNVDAGKSTLLGVLTHGELDNGRGAARQKLFRHKHEIESGRTSSVGNDILGFDVHGNVVNKPDPHGHNLD  209 (641)
T ss_pred             cceeEEEEEEecccCCcceeEeeeeecccccCccHHHHHHhhhhhhcccCccccccccceeeccccccccCCCCCCCccc
Confidence            33456899999999999999876654322100             000011100                         0


Q ss_pred             EEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHH-HHHHHhhcccCCCCCEEEE
Q 025346          154 ILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERID-EILEEGVGDHKDKLPILLV  232 (254)
Q Consensus       154 ~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~-~~~~~~~~~~~~~~piivV  232 (254)
                      ....+.....-++|||.+|.+..-...+       +....+..|...+++-+..+.--.. +.+-..+   .-..|+++|
T Consensus       210 WvkIce~saKviTFIDLAGHEkYLKTTv-------FGMTGH~PDf~MLMiGaNaGIiGmTKEHLgLAL---aL~VPVfvV  279 (641)
T KOG0463|consen  210 WVKICEDSAKVITFIDLAGHEKYLKTTV-------FGMTGHMPDFTMLMIGANAGIIGMTKEHLGLAL---ALHVPVFVV  279 (641)
T ss_pred             ceeeccccceeEEEEeccchhhhhheee-------eccccCCCCceEEEecccccceeccHHhhhhhh---hhcCcEEEE
Confidence            0111222334588999999432111110       1112456788888888876432222 2222111   246899999


Q ss_pred             EecCCCCChHhHHHHHHHH
Q 025346          233 LNKKDLIKPGEIAKKLEVT  251 (254)
Q Consensus       233 ~nK~Dl~~~~~~~~~~~~~  251 (254)
                      ++|+|..+...+++..+.+
T Consensus       280 VTKIDMCPANiLqEtmKll  298 (641)
T KOG0463|consen  280 VTKIDMCPANILQETMKLL  298 (641)
T ss_pred             EEeeccCcHHHHHHHHHHH
Confidence            9999999988777766554

>KOG0446 consensus Vacuolar sorting protein VPS1, dynamin, and related proteins [Intracellular trafficking, secretion, and vesicular transport; General function prediction only]

Probab=97.03  E-value=0.00049  Score=65.62  Aligned_cols=130  Identities=17%  Similarity=0.147  Sum_probs=79.9

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEE-------------------------------------
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHR-------------------------------------  153 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~-------------------------------------  153 (254)
                      .....+.|+++|..++||||.++.+.|..+..-+ ....|+.+                                     
T Consensus        25 ~~i~lP~I~vvG~QSsGKSSvLE~lvG~~flpRg-~givTRrPlvlqL~~~~~~~~e~~~f~~h~~~~~~~D~~~vrkeI  103 (657)
T KOG0446|consen   25 SFIPLPQIVVVGGQSSGKSSVLESLVGFVFLPRG-VGIVTRRPLILQLSIVAGGDEEEASFLTHDKKKRFTDFEEVRKEI  103 (657)
T ss_pred             CcccCCceEEecCCCCcchhHHHHhhcccccccc-ccceecccceeecccccCCcccchhccccccccccCCHHHHHHHH
Confidence            3455678999999999999999999997553211 11111100                                     


Q ss_pred             -------------------EEEEEecCCeeEEEEecCCCcccc----hhhhhHHHHHHHHHHccCccEEEEEEeCCCCch
Q 025346          154 -------------------ILGICSGPEYQMILYDTPGIIEKK----IHMLDSMMMKNVRSAGINADCIVVLVDACKAPE  210 (254)
Q Consensus       154 -------------------~~~~~~~~~~~~~liDtpG~~~~~----~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~  210 (254)
                                         ........-..++++|.||+...+    ++.+..........++.....+++.+...+..-
T Consensus       104 ~~et~~~~g~~kgiS~~pI~L~i~s~~v~~lTLvDlPG~tkvpv~dqp~di~~qI~~mi~~yi~~~~~iILav~~an~d~  183 (657)
T KOG0446|consen  104 RSETDRITGSNKGISPVPITLKIFSALVANLTLVDLPGLTKVPVADQPDDIEEEIKSMIEEYIEKPNRIILAVTPANSDI  183 (657)
T ss_pred             HhhHHHhcCCCCCcCCCCceeeecCCCCchhhhcCCCCCcccccCCCCccHHHHHHHHHHHhccccchhhhhccchhhhh
Confidence                               000111122468899999986433    345556666777788899999998888765322


Q ss_pred             hHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          211 RIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       211 ~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      ....++......-..+..++.|++|.|+++.
T Consensus       184 ats~alkiarevDp~g~RTigvitK~Dlmdk  214 (657)
T KOG0446|consen  184 ATSPALVVAREVDPGGSRTLEVITKFDFMDK  214 (657)
T ss_pred             hcCHHHHHHHhhCCCccchhHHhhhHHhhhc
Confidence            2223333333333455667777777777654

>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport

Probab=97.01  E-value=0.0035  Score=46.75  Aligned_cols=21  Identities=33%  Similarity=0.562  Sum_probs=18.7

Q ss_pred             EEEEeCCCCChHHHHHHHhcC
Q 025346          118 VAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       118 ~~~~G~~~~gKssl~~~~~~~  138 (254)
                      |++.|++|+|||+++..+...
T Consensus         1 ill~G~~G~GKT~l~~~la~~   21 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQY   21 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHH
T ss_pred             CEEECcCCCCeeHHHHHHHhh
Confidence            678999999999999998853

Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....

>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation

Probab=96.99  E-value=0.0091  Score=42.95  Aligned_cols=71  Identities=28%  Similarity=0.335  Sum_probs=41.4

Q ss_pred             EEEEe-CCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCc
Q 025346          118 VAVLG-KPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINA  196 (254)
Q Consensus       118 ~~~~G-~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~  196 (254)
                      +++.| ..|+||||+...+...- ..    .+.  .......+ ....+.++|+|+.....           ....+..+
T Consensus         2 i~~~~~kgG~Gkst~~~~la~~~-~~----~~~--~vl~~d~d-~~~d~viiD~p~~~~~~-----------~~~~l~~a   62 (104)
T cd02042           2 IAVANQKGGVGKTTTAVNLAAAL-AR----RGK--RVLLIDLD-PQYDYIIIDTPPSLGLL-----------TRNALAAA   62 (104)
T ss_pred             EEEEeCCCCcCHHHHHHHHHHHH-Hh----CCC--cEEEEeCC-CCCCEEEEeCcCCCCHH-----------HHHHHHHC
Confidence            45555 66899999987665321 10    111  01111111 12679999999943321           12345679


Q ss_pred             cEEEEEEeCCC
Q 025346          197 DCIVVLVDACK  207 (254)
Q Consensus       197 d~iv~vid~~~  207 (254)
                      |.++.+++.+.
T Consensus        63 d~viv~~~~~~   73 (104)
T cd02042          63 DLVLIPVQPSP   73 (104)
T ss_pred             CEEEEeccCCH
Confidence            99999998876

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.

>cd03111 CpaE_like This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster

Probab=96.99  E-value=0.002  Score=46.92  Aligned_cols=100  Identities=17%  Similarity=0.023  Sum_probs=52.6

Q ss_pred             EEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEE
Q 025346          120 VLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCI  199 (254)
Q Consensus       120 ~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~i  199 (254)
                      +-+..|+||||+...+...-.. ..   +...-....... .+..+.++|||+....           .....+..+|.+
T Consensus         5 ~~~kgg~gkt~~~~~la~~~~~-~~---~~~~~l~d~d~~-~~~D~IIiDtpp~~~~-----------~~~~~l~~aD~v   68 (106)
T cd03111           5 IGAKGGVGATTLAANLAVALAK-EA---GRRVLLVDLDLQ-FGDDYVVVDLGRSLDE-----------VSLAALDQADRV   68 (106)
T ss_pred             ECCCCCCcHHHHHHHHHHHHHh-cC---CCcEEEEECCCC-CCCCEEEEeCCCCcCH-----------HHHHHHHHcCeE
Confidence            3456789999987766532110 00   000000000000 1127899999984332           122345778999


Q ss_pred             EEEEeCCCC-chhHHHHHHHhhcccCC-CCCEEEEEec
Q 025346          200 VVLVDACKA-PERIDEILEEGVGDHKD-KLPILLVLNK  235 (254)
Q Consensus       200 v~vid~~~~-~~~~~~~~~~~~~~~~~-~~piivV~nK  235 (254)
                      +++++.+.. .......+..+.+.... ..++.+|+|+
T Consensus        69 lvvv~~~~~s~~~~~~~~~~l~~~~~~~~~~~~lVvNr  106 (106)
T cd03111          69 FLVTQQDLPSIRNAKRLLELLRVLDYSLPAKIELVLNR  106 (106)
T ss_pred             EEEecCChHHHHHHHHHHHHHHHcCCCCcCceEEEecC
Confidence            999988763 33333333333222222 4578888886

The function of these proteins are unkown. The Caulobacter pilus assembly contains 7 genes: pilA, cpaA, cpaB, cpaC, cpaD, cpaE and cpaF. These genes are clustered together on chromosome.

>PRK14737 gmk guanylate kinase; Provisional

Probab=96.99  E-value=0.00048  Score=55.57  Aligned_cols=39  Identities=18%  Similarity=0.210  Sum_probs=28.6

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEE
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRH  152 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~  152 (254)
                      ++..++++|++|+|||||+++++..........+.||+.
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l~~~~~~~~~~v~~TTR~   41 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQALLEEHPDFLFSISCTTRA   41 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhcCCccccccCccCCC
Confidence            345699999999999999999987643323344566654

>KOG0099 consensus G protein subunit Galphas, small G protein superfamily [Signal transduction mechanisms]

Probab=96.95  E-value=0.0018  Score=54.34  Aligned_cols=75  Identities=17%  Similarity=0.266  Sum_probs=48.5

Q ss_pred             cCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCc---------hhHHHHHH---Hhhc-ccCCC
Q 025346          160 GPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAP---------ERIDEILE---EGVG-DHKDK  226 (254)
Q Consensus       160 ~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~---------~~~~~~~~---~~~~-~~~~~  226 (254)
                      .+..++..+|..|..+.+         ..|...+...-+|+||+.++..-         ..+.+.+.   .+.. .....
T Consensus       199 Vdkv~FhMfDVGGQRDeR---------rKWIQcFndvtAiifv~acSsyn~vlrED~~qNRL~EaL~LFksiWnNRwL~t  269 (379)
T KOG0099|consen  199 VDKVNFHMFDVGGQRDER---------RKWIQCFNDVTAIIFVVACSSYNMVLREDNQQNRLQEALNLFKSIWNNRWLRT  269 (379)
T ss_pred             ccccceeeeccCCchhhh---------hhHHHHhcCccEEEEEEeccchhhhhhcCCchhHHHHHHHHHHHHHhhhHHhh
Confidence            344668888888854443         66778899999999999987621         11122111   1111 11245


Q ss_pred             CCEEEEEecCCCCChHh
Q 025346          227 LPILLVLNKKDLIKPGE  243 (254)
Q Consensus       227 ~piivV~nK~Dl~~~~~  243 (254)
                      +.+|+.+||.|++.+.-
T Consensus       270 isvIlFLNKqDllaeKi  286 (379)
T KOG0099|consen  270 ISVILFLNKQDLLAEKI  286 (379)
T ss_pred             hheeEEecHHHHHHHHH
Confidence            78999999999986543

>KOG0056 consensus Heavy metal exporter HMT1, ABC superfamily [Inorganic ion transport and metabolism]

Probab=96.89  E-value=0.00018  Score=65.20  Aligned_cols=72  Identities=18%  Similarity=0.212  Sum_probs=53.2

Q ss_pred             HHHHhhhcccccCCCCCCCCc-----------cChHhhhhhccCCcCCCCCCCchhhhhccccCCCCCCCcEEEEEeCCC
Q 025346           57 QQKLWSNQREMDLDDGDEMEF-----------DDASSFLSLSEKPDRNMASPDDYEIEEFDYASHPNHKSGYVAVLGKPN  125 (254)
Q Consensus        57 ~~~~~~~~~~~~~~d~~~~~~-----------~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~G~~~  125 (254)
                      |.++-..++.+++..|+.+-.           .....+.++.+.|....+.+.++.+        ...++..++++|++|
T Consensus       503 Q~nfiDmEnmfdllkee~eVvd~P~a~pl~~~~G~i~fsnvtF~Y~p~k~vl~disF--------~v~pGktvAlVG~SG  574 (790)
T KOG0056|consen  503 QKNFIDMENMFDLLKEEPEVVDLPGAPPLKVTQGKIEFSNVTFAYDPGKPVLSDISF--------TVQPGKTVALVGPSG  574 (790)
T ss_pred             HHhhhhHHHHHHHhhcCchhhcCCCCCCccccCCeEEEEEeEEecCCCCceeecceE--------EecCCcEEEEECCCC
Confidence            555555566666554332211           1235788889999999999998876        567788999999999


Q ss_pred             CChHHHHHHHh
Q 025346          126 VGKSTLANQMI  136 (254)
Q Consensus       126 ~gKssl~~~~~  136 (254)
                      +||||++..++
T Consensus       575 aGKSTimRlLf  585 (790)
T KOG0056|consen  575 AGKSTIMRLLF  585 (790)
T ss_pred             CchhHHHHHHH
Confidence            99999998765

>KOG1424 consensus Predicted GTP-binding protein MMR1 [General function prediction only]

Probab=96.88  E-value=0.0025  Score=58.01  Aligned_cols=66  Identities=23%  Similarity=0.188  Sum_probs=50.8

Q ss_pred             HHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHHHHHHHh
Q 025346          187 KNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLEVTT  252 (254)
Q Consensus       187 ~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~~~~~~~  252 (254)
                      +++-..+...|+||.++|+.++.-.....+....+........++++||+||+.++++..+.+++.
T Consensus       166 RQLWRVlErSDivvqIVDARnPllfr~~dLe~Yvke~d~~K~~~LLvNKaDLl~~~qr~aWa~YF~  231 (562)
T KOG1424|consen  166 RQLWRVLERSDIVVQIVDARNPLLFRSPDLEDYVKEVDPSKANVLLVNKADLLPPEQRVAWAEYFR  231 (562)
T ss_pred             HHHHHHHhhcceEEEEeecCCccccCChhHHHHHhccccccceEEEEehhhcCCHHHHHHHHHHHH
Confidence            445566889999999999999654444445555555556678899999999999999988877763

>KOG0058 consensus Peptide exporter, ABC superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.79  E-value=0.00019  Score=67.68  Aligned_cols=101  Identities=16%  Similarity=0.187  Sum_probs=68.8

Q ss_pred             cCCcchhhhccccccCCceeeeeecccccccccchHHHHHHHHhhhcccccCCCCCCC----------CccChHhhhhhc
Q 025346           18 YSTLTAYREIKFGFQGRSSSITCRSNEHQSLVLSEKEVQQQKLWSNQREMDLDDGDEM----------EFDDASSFLSLS   87 (254)
Q Consensus        18 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~----------~~~~~~~~~~~~   87 (254)
                      ..+|++|+-|.+..-..-..++...++.           .+.+....|+|++.|-+..          ......++.++.
T Consensus       404 ~g~L~sFllY~~~~g~sl~~ls~~ys~l-----------mkgvGAs~rvFel~dr~P~i~~~G~~~p~~~~G~IeF~~Vs  472 (716)
T KOG0058|consen  404 SGALSSFLLYQVQLGSSLSGLSSFYSEL-----------MKGVGASERVFELMDRKPRIPLTGTLAPDHLQGVIEFEDVS  472 (716)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHhcchHHHHHHHhccCCCCCCCCccccccccceEEEEEee
Confidence            4567888888887766666665555544           4455555666665542111          122345788888


Q ss_pred             cCCcCCC--CCCCchhhhhccccCCCCCCCcEEEEEeCCCCChHHHHHHHhc
Q 025346           88 EKPDRNM--ASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus        88 ~~~~~~~--~~l~~~~~~~~~~~~~~~~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ++|-..-  +.++++..        ...++..++++||+|.||||+++.+.+
T Consensus       473 FaYP~Rp~~~Vlk~lsf--------ti~pGe~vALVGPSGsGKSTiasLL~r  516 (716)
T KOG0058|consen  473 FAYPTRPDVPVLKNLSF--------TIRPGEVVALVGPSGSGKSTIASLLLR  516 (716)
T ss_pred             eecCCCCCchhhcCcee--------eeCCCCEEEEECCCCCCHHHHHHHHHH
Confidence            8887554  46666665        667788999999999999999998874

>COG1132 MdlB ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]

Probab=96.77  E-value=0.00018  Score=67.89  Aligned_cols=99  Identities=18%  Similarity=0.116  Sum_probs=60.4

Q ss_pred             cchhhhccccccCCceeeeeecccccccccchHHHHHHHHhhhcccccCCCCCCC-C--------ccChHhhhhhccCCc
Q 025346           21 LTAYREIKFGFQGRSSSITCRSNEHQSLVLSEKEVQQQKLWSNQREMDLDDGDEM-E--------FDDASSFLSLSEKPD   91 (254)
Q Consensus        21 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~-~--------~~~~~~~~~~~~~~~   91 (254)
                      +.+|+.+...+..+...+.......           +......+|..++.+++.. .        ......+.++...|.
T Consensus       271 ~~~~~~~~~~~~~~~~~l~~~~~~~-----------~~~~~a~~ri~~~l~~~~~~~~~~~~~~~~~~~I~f~~vsf~y~  339 (567)
T COG1132         271 LAAFILYLLRLLTPILQLGEVVSLL-----------QRASAAAERLFELLDEEPEVEDPPDPLKDTIGSIEFENVSFSYP  339 (567)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHcCCccccCCCCCCCCCCCeEEEEEEEEEcC
Confidence            4555666655555555555444444           3333444444444443111 1        112246777788887


Q ss_pred             CCCCCCCchhhhhccccCCCCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346           92 RNMASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus        92 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ...+.++++..        ...++.+++++|++|+||||+++.+.+-
T Consensus       340 ~~~~vl~~is~--------~i~~Ge~vaiVG~sGsGKSTl~~LL~r~  378 (567)
T COG1132         340 GKKPVLKDISF--------SIEPGEKVAIVGPSGSGKSTLIKLLLRL  378 (567)
T ss_pred             CCCccccCceE--------EEcCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            65555666654        4567789999999999999999998864

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=96.76  E-value=0.017  Score=47.90  Aligned_cols=46  Identities=28%  Similarity=0.243  Sum_probs=32.0

Q ss_pred             ccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCC
Q 025346          193 GINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLI  239 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~  239 (254)
                      ..++|.++.|+|.+...-...+.+.++..... =.++.+|+||.|-.
T Consensus       153 ~~~vD~vivVvDpS~~sl~taeri~~L~~elg-~k~i~~V~NKv~e~  198 (255)
T COG3640         153 IEGVDLVIVVVDPSYKSLRTAERIKELAEELG-IKRIFVVLNKVDEE  198 (255)
T ss_pred             ccCCCEEEEEeCCcHHHHHHHHHHHHHHHHhC-CceEEEEEeeccch
Confidence            56899999999998633333344444444332 26899999999966

>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=96.74  E-value=0.021  Score=51.36  Aligned_cols=43  Identities=28%  Similarity=0.478  Sum_probs=29.2

Q ss_pred             CeeEEEEecCCCcccchhhhhHHHHHHHHHH--ccCccEEEEEEeCCCCc
Q 025346          162 EYQMILYDTPGIIEKKIHMLDSMMMKNVRSA--GINADCIVVLVDACKAP  209 (254)
Q Consensus       162 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~--~~~~d~iv~vid~~~~~  209 (254)
                      ...+.|+||+|-...     +..++......  .-.+|-+++|+|+.-+-
T Consensus       182 ~~DvvIvDTAGRl~i-----de~Lm~El~~Ik~~~~P~E~llVvDam~GQ  226 (451)
T COG0541         182 GYDVVIVDTAGRLHI-----DEELMDELKEIKEVINPDETLLVVDAMIGQ  226 (451)
T ss_pred             CCCEEEEeCCCcccc-----cHHHHHHHHHHHhhcCCCeEEEEEecccch
Confidence            367999999994332     33334443332  45789999999997753

>cd02036 MinD Bacterial cell division requires the formation of a septum at mid-cell

Probab=96.73  E-value=0.03  Score=44.13  Aligned_cols=64  Identities=17%  Similarity=0.092  Sum_probs=39.0

Q ss_pred             eEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCC-chhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          164 QMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKA-PERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       164 ~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~-~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      .+.++|||+-...           .....+..+|.++++++.+.. .......+..+.. . ....+.+|+|++|...
T Consensus        64 d~viiD~p~~~~~-----------~~~~~l~~ad~viiv~~~~~~s~~~~~~~~~~~~~-~-~~~~~~iv~N~~~~~~  128 (179)
T cd02036          64 DYILIDSPAGIER-----------GFITAIAPADEALLVTTPEISSLRDADRVKGLLEA-L-GIKVVGVIVNRVRPDM  128 (179)
T ss_pred             CEEEEECCCCCcH-----------HHHHHHHhCCcEEEEeCCCcchHHHHHHHHHHHHH-c-CCceEEEEEeCCcccc
Confidence            6999999983221           112335679999999988763 3333333333222 1 2235778999998754

The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal role, selecting the mid-cell over other sites through the activation and regulation of MinC and MinE. MinD is a membrane-associated ATPase, related to nitrogenase iron protein. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. MinD is a monomer.

>KOG2423 consensus Nucleolar GTPase [General function prediction only]

Probab=96.73  E-value=0.0057  Score=54.23  Aligned_cols=65  Identities=23%  Similarity=0.173  Sum_probs=50.1

Q ss_pred             HHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHHHHHHH
Q 025346          187 KNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLEVT  251 (254)
Q Consensus       187 ~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~~~~~~  251 (254)
                      ..+...+...|+||-|+|+.++...-...++..++...+...++.|+|||||++......++..+
T Consensus       205 ~ELyKViDSSDVvvqVlDARDPmGTrc~~ve~ylkke~phKHli~vLNKvDLVPtwvt~~Wv~~l  269 (572)
T KOG2423|consen  205 GELYKVIDSSDVVVQVLDARDPMGTRCKHVEEYLKKEKPHKHLIYVLNKVDLVPTWVTAKWVRHL  269 (572)
T ss_pred             HHHHHhhcccceeEEeeeccCCcccccHHHHHHHhhcCCcceeEEEeeccccccHHHHHHHHHHH
Confidence            33445567899999999999976555566666677667788999999999999987776666544

>PRK14738 gmk guanylate kinase; Provisional

Probab=96.72  E-value=0.0012  Score=54.19  Aligned_cols=27  Identities=30%  Similarity=0.391  Sum_probs=22.4

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      ..+..++++|++|+|||||++.+....
T Consensus        11 ~~~~~ivi~GpsG~GK~tl~~~L~~~~   37 (206)
T PRK14738         11 AKPLLVVISGPSGVGKDAVLARMRERK   37 (206)
T ss_pred             CCCeEEEEECcCCCCHHHHHHHHHhcC
Confidence            345678899999999999999997543

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=96.71  E-value=0.0033  Score=47.06  Aligned_cols=25  Identities=28%  Similarity=0.472  Sum_probs=19.0

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      ...+++.|++|+|||++++.+...-
T Consensus         4 ~~~~~i~G~~G~GKT~~~~~~~~~~   28 (131)
T PF13401_consen    4 QRILVISGPPGSGKTTLIKRLARQL   28 (131)
T ss_dssp             ---EEEEE-TTSSHHHHHHHHHHHH
T ss_pred             CcccEEEcCCCCCHHHHHHHHHHHh
Confidence            3458899999999999999998754

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=96.71  E-value=0.0041  Score=55.45  Aligned_cols=51  Identities=31%  Similarity=0.278  Sum_probs=37.0

Q ss_pred             HHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          187 KNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       187 ~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      .....+...+++|++|+|+.+........+....    .+.|+++|+||+|+++.
T Consensus        55 ~~l~~~~~~~~~Il~VvD~~d~~~s~~~~l~~~~----~~~piilV~NK~DLl~k  105 (360)
T TIGR03597        55 NLLNSLGDSNALIVYVVDIFDFEGSLIPELKRFV----GGNPVLLVGNKIDLLPK  105 (360)
T ss_pred             HHHhhcccCCcEEEEEEECcCCCCCccHHHHHHh----CCCCEEEEEEchhhCCC
Confidence            4455566789999999999875544444444432    26799999999999764

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.

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=96.69  E-value=0.00067  Score=54.12  Aligned_cols=38  Identities=29%  Similarity=0.406  Sum_probs=27.7

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEE
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRH  152 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~  152 (254)
                      ++..+++.||+|+||||++++++... ...-....||+.
T Consensus         3 ~G~l~vlsgPSG~GKsTl~k~L~~~~-~l~~SVS~TTR~   40 (191)
T COG0194           3 KGLLIVLSGPSGVGKSTLVKALLEDD-KLRFSVSATTRK   40 (191)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhhc-CeEEEEEeccCC
Confidence            45678999999999999999999776 323333445543

>cd01854 YjeQ_engC YjeQ/EngC

Probab=96.69  E-value=0.0053  Score=52.98  Aligned_cols=49  Identities=24%  Similarity=0.329  Sum_probs=36.1

Q ss_pred             HccCccEEEEEEeCCCCc---hhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          192 AGINADCIVVLVDACKAP---ERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~~~---~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      .+.++|.+++|+|+.++.   ..++.++....   ..++|+++|+||+||.++.+
T Consensus        75 i~anvD~vllV~d~~~p~~s~~~ldr~L~~~~---~~~ip~iIVlNK~DL~~~~~  126 (287)
T cd01854          75 IAANVDQLVIVVSLNEPFFNPRLLDRYLVAAE---AAGIEPVIVLTKADLLDDEE  126 (287)
T ss_pred             EEEeCCEEEEEEEcCCCCCCHHHHHHHHHHHH---HcCCCEEEEEEHHHCCChHH
Confidence            378899999999998754   44455544332   24689999999999987643

YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. All YjeQ family proteins display a unique domain architecture, which includes an N-terminal OB-fold RNA-binding domain, the central permuted GTPase domain, and a zinc knuckle-like C-terminal cysteine domain. This domain architecture suggests a role for YjeQ as a regulator of translation.

>PRK00098 GTPase RsgA; Reviewed

Probab=96.66  E-value=0.0041  Score=53.97  Aligned_cols=46  Identities=26%  Similarity=0.351  Sum_probs=32.9

Q ss_pred             ccCccEEEEEEeCCCCc--hh-HHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          193 GINADCIVVLVDACKAP--ER-IDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~~--~~-~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      +.++|.+++|+|+.++.  .. +..++....   ..++|+++|+||+|+.+.
T Consensus        78 aaniD~vllV~d~~~p~~~~~~idr~L~~~~---~~~ip~iIVlNK~DL~~~  126 (298)
T PRK00098         78 AANVDQAVLVFAAKEPDFSTDLLDRFLVLAE---ANGIKPIIVLNKIDLLDD  126 (298)
T ss_pred             eecCCEEEEEEECCCCCCCHHHHHHHHHHHH---HCCCCEEEEEEhHHcCCC
Confidence            68999999999997632  22 344443322   357899999999999743

>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold

Probab=96.64  E-value=0.02  Score=42.76  Aligned_cols=24  Identities=29%  Similarity=0.534  Sum_probs=21.0

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcC
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ...+++.|++|+|||++++.+...
T Consensus        19 ~~~v~i~G~~G~GKT~l~~~i~~~   42 (151)
T cd00009          19 PKNLLLYGPPGTGKTTLARAIANE   42 (151)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH
Confidence            456999999999999999998864

The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=96.63  E-value=0.03  Score=38.90  Aligned_cols=69  Identities=23%  Similarity=0.301  Sum_probs=43.7

Q ss_pred             EEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCcc
Q 025346          118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINAD  197 (254)
Q Consensus       118 ~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d  197 (254)
                      +++.|..|+||||+...+...-..     .+..    ...++    .+.++|+|+........        .......++
T Consensus         2 ~~~~g~~G~Gktt~~~~l~~~l~~-----~g~~----v~~~~----d~iivD~~~~~~~~~~~--------~~~~~~~~~   60 (99)
T cd01983           2 IVVTGKGGVGKTTLAANLAAALAK-----RGKR----VLLID----DYVLIDTPPGLGLLVLL--------CLLALLAAD   60 (99)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHH-----CCCe----EEEEC----CEEEEeCCCCccchhhh--------hhhhhhhCC
Confidence            678899999999999987743211     1110    11111    78999999954432100        123466889


Q ss_pred             EEEEEEeCCC
Q 025346          198 CIVVLVDACK  207 (254)
Q Consensus       198 ~iv~vid~~~  207 (254)
                      .++.+++...
T Consensus        61 ~vi~v~~~~~   70 (99)
T cd01983          61 LVIIVTTPEA   70 (99)
T ss_pred             EEEEecCCch
Confidence            9999998876

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.59  E-value=0.0011  Score=55.17  Aligned_cols=29  Identities=38%  Similarity=0.576  Sum_probs=25.0

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCc
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      ...++-.++++|++|||||||++.+.|-.
T Consensus        25 ~v~~GEfvsilGpSGcGKSTLLriiAGL~   53 (248)
T COG1116          25 SVEKGEFVAILGPSGCGKSTLLRLIAGLE   53 (248)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            44567789999999999999999998754

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=96.56  E-value=0.0016  Score=52.25  Aligned_cols=49  Identities=24%  Similarity=0.316  Sum_probs=37.4

Q ss_pred             hhhhccCCcCCCCCCCchhhhhccccCCCCCCCcEEEEEeCCCCChHHHHHHHhcCc
Q 025346           83 FLSLSEKPDRNMASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus        83 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      +.++.++|......+.++.+        ...++-.+.++|++|+|||||++.+++..
T Consensus         4 f~~V~k~Y~~g~~aL~~vs~--------~i~~Gef~fl~GpSGAGKSTllkLi~~~e   52 (223)
T COG2884           4 FENVSKAYPGGREALRDVSF--------HIPKGEFVFLTGPSGAGKSTLLKLIYGEE   52 (223)
T ss_pred             ehhhhhhcCCCchhhhCceE--------eecCceEEEEECCCCCCHHHHHHHHHhhh
Confidence            45567777766546666654        45667789999999999999999998754

>PF00503 G-alpha: G-protein alpha subunit; InterPro: IPR001019 Guanine nucleotide binding proteins (G proteins) are membrane-associated, heterotrimeric proteins composed of three subunits: alpha (IPR001019 from INTERPRO), beta (IPR001632 from INTERPRO) and gamma (IPR001770 from INTERPRO) []

Probab=96.54  E-value=0.0038  Score=56.23  Aligned_cols=79  Identities=19%  Similarity=0.174  Sum_probs=53.4

Q ss_pred             EEEEEEec-CCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCc---------hhH---HHHHHHh
Q 025346          153 RILGICSG-PEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAP---------ERI---DEILEEG  219 (254)
Q Consensus       153 ~~~~~~~~-~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~---------~~~---~~~~~~~  219 (254)
                      .....+.. .+..+.++|+.|....+         ..|..++.+.++||||++.++..         ..+   ...+..+
T Consensus       225 i~e~~f~~~~~~~~~~~DvGGqr~eR---------kKW~~~F~~v~~vif~vsls~ydq~~~ed~~~nrl~esl~lF~~i  295 (389)
T PF00503_consen  225 ITEIDFNFSGSRKFRLIDVGGQRSER---------KKWIHCFEDVTAVIFVVSLSEYDQTLYEDPNTNRLHESLNLFESI  295 (389)
T ss_dssp             EEEEEEEE-TTEEEEEEEETSSGGGG---------GGGGGGGTTESEEEEEEEGGGGGSBESSSTTSBHHHHHHHHHHHH
T ss_pred             eeEEEEEeecccccceecCCCCchhh---------hhHHHHhccccEEEEeecccchhhhhcccchHHHHHHHHHHHHHH
Confidence            33444555 78899999999954332         55677889999999999986521         122   2334444


Q ss_pred             hcc-cCCCCCEEEEEecCCCCC
Q 025346          220 VGD-HKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       220 ~~~-~~~~~piivV~nK~Dl~~  240 (254)
                      ... ...+.|++|++||.|+..
T Consensus       296 ~~~~~~~~~~iil~lnK~D~f~  317 (389)
T PF00503_consen  296 CNNPWFKNTPIILFLNKIDLFE  317 (389)
T ss_dssp             HTSGGGTTSEEEEEEE-HHHHH
T ss_pred             HhCcccccCceEEeeecHHHHH
Confidence            432 236799999999999854

G proteins and their receptors (GPCRs) form one of the most prevalent signalling systems in mammalian cells, regulating systems as diverse as sensory perception, cell growth and hormonal regulation []. At the cell surface, the binding of ligands such as hormones and neurotransmitters to a GPCR activates the receptor by causing a conformational change, which in turn activates the bound G protein on the intracellular-side of the membrane. The activated receptor promotes the exchange of bound GDP for GTP on the G protein alpha subunit. GTP binding changes the conformation of switch regions within the alpha subunit, which allows the bound trimeric G protein (inactive) to be released from the receptor, and to dissociate into active alpha subunit (GTP-bound) and beta/gamma dimer. The alpha subunit and the beta/gamma dimer go on to activate distinct downstream effectors, such as adenylyl cyclase, phosphodiesterases, phospholipase C, and ion channels. These effectors in turn regulate the intracellular concentrations of secondary messengers, such as cAMP, diacylglycerol, sodium or calcium cations, which ultimately lead to a physiological response, usually via the downstream regulation of gene transcription. The cycle is completed by the hydrolysis of alpha subunit-bound GTP to GDP, resulting in the re-association of the alpha and beta/gamma subunits and their binding to the receptor, which terminates the signal []. The length of the G protein signal is controlled by the duration of the GTP-bound alpha subunit, which can be regulated by RGS (regulator of G protein signalling) proteins (IPR000342 from INTERPRO) or by covalent modifications []. There are several isoforms of each subunit, many of which have splice variants, which together can make up hundreds of combinations of G proteins. The specific combination of subunits in heterotrimeric G proteins affects not only which receptor it can bind to, but also which downstream target is affected, providing the means to target specific physiological processes in response to specific external stimuli [, ]. G proteins carry lipid modifications on one or more of their subunits to target them to the plasma membrane and to contribute to protein interactions. This family consists of the G protein alpha subunit, which acts as a weak GTPase. G protein classes are defined based on the sequence and function of their alpha subunits, which in mammals fall into four main categories: G(S)alpha, G(Q)alpha, G(I)alpha and G(12)alpha; there are also fungal and plant classes of alpha subunits. The alpha subunit consists of two domains: a GTP-binding domain and a helical insertion domain (IPR011025 from INTERPRO). The GTP-binding domain is homologous to Ras-like small GTPases, and includes switch regions I and II, which change conformation during activation. The switch regions are loops of alpha-helices with conformations sensitive to guanine nucleotides. The helical insertion domain is inserted into the GTP-binding domain before switch region I and is unique to heterotrimeric G proteins. This helical insertion domain functions to sequester the guanine nucleotide at the interface with the GTP-binding domain and must be displaced to enable nucleotide dissociation.; GO: 0004871 signal transducer activity, 0019001 guanyl nucleotide binding, 0007186 G-protein coupled receptor protein signaling pathway; PDB: 3QI2_B 3QE0_A 2IK8_A 2OM2_A 2GTP_B 2XNS_B 3ONW_B 1KJY_A 2EBC_A 1Y3A_B ....

>KOG0057 consensus Mitochondrial Fe/S cluster exporter, ABC superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.54  E-value=0.0013  Score=60.50  Aligned_cols=50  Identities=18%  Similarity=0.170  Sum_probs=43.1

Q ss_pred             hHhhhhhccCCcCCCCCCCchhhhhccccCCCCCCCcEEEEEeCCCCChHHHHHHHhc
Q 025346           80 ASSFLSLSEKPDRNMASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus        80 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ...+.++...|.+..+.++.+.+        ..+++.+++++|.+|+||||+++.+++
T Consensus       351 ~I~F~dV~f~y~~k~~iL~gvsf--------~I~kGekVaIvG~nGsGKSTilr~Llr  400 (591)
T KOG0057|consen  351 SIEFDDVHFSYGPKRKVLKGVSF--------TIPKGEKVAIVGSNGSGKSTILRLLLR  400 (591)
T ss_pred             cEEEEeeEEEeCCCCceecceeE--------EecCCCEEEEECCCCCCHHHHHHHHHH
Confidence            36788888889888888888776        678889999999999999999998873

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=96.49  E-value=0.013  Score=50.48  Aligned_cols=110  Identities=12%  Similarity=0.184  Sum_probs=62.6

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccc-------------
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK-------------  177 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~-------------  177 (254)
                      ...+.+.++++|++|.|||+++++|...... ..+ ..           ....++..+.+|.-.+..             
T Consensus        57 ~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~-~~d-~~-----------~~~~PVv~vq~P~~p~~~~~Y~~IL~~lgaP  123 (302)
T PF05621_consen   57 KRHRMPNLLIVGDSNNGKTMIIERFRRLHPP-QSD-ED-----------AERIPVVYVQMPPEPDERRFYSAILEALGAP  123 (302)
T ss_pred             cccCCCceEEecCCCCcHHHHHHHHHHHCCC-CCC-CC-----------CccccEEEEecCCCCChHHHHHHHHHHhCcc
Confidence            4566778999999999999999999976532 111 11           112356677776532211             


Q ss_pred             h---hhhhHHHHHHHHHHccCccEEEEEEeCCC-----CchhHHHHHHHhhcccC--CCCCEEEEEec
Q 025346          178 I---HMLDSMMMKNVRSAGINADCIVVLVDACK-----APERIDEILEEGVGDHK--DKLPILLVLNK  235 (254)
Q Consensus       178 ~---~~~~~~~~~~~~~~~~~~d~iv~vid~~~-----~~~~~~~~~~~~~~~~~--~~~piivV~nK  235 (254)
                      +   .... .........++...+=+++||=-+     +.......+.. ++...  -++|++.||++
T Consensus       124 ~~~~~~~~-~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~-LK~L~NeL~ipiV~vGt~  189 (302)
T PF05621_consen  124 YRPRDRVA-KLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNA-LKFLGNELQIPIVGVGTR  189 (302)
T ss_pred             cCCCCCHH-HHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHH-HHHHhhccCCCeEEeccH
Confidence            0   1111 112334456677777788898533     22333333322 22222  46899998875

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>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=96.49  E-value=0.0027  Score=46.96  Aligned_cols=22  Identities=36%  Similarity=0.626  Sum_probs=19.7

Q ss_pred             EEEEEeCCCCChHHHHHHHhcC
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      .|++.|++|+||||+++.+...
T Consensus         1 vI~I~G~~gsGKST~a~~La~~   22 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAER   22 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            4889999999999999999864

...

>KOG0085 consensus G protein subunit Galphaq/Galphay, small G protein superfamily [Signal transduction mechanisms]

Probab=96.48  E-value=0.0015  Score=53.78  Aligned_cols=24  Identities=33%  Similarity=0.440  Sum_probs=20.2

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHH
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQM  135 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~  135 (254)
                      ..+..+++++|...+||||+|+.+
T Consensus        36 arrelkllllgtgesgkstfikqm   59 (359)
T KOG0085|consen   36 ARRELKLLLLGTGESGKSTFIKQM   59 (359)
T ss_pred             hhhhheeeeecCCCcchhhHHHHH
Confidence            344568999999999999999876

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=96.44  E-value=0.0017  Score=60.79  Aligned_cols=50  Identities=26%  Similarity=0.194  Sum_probs=36.3

Q ss_pred             HhhhhhccCCcCCCCCCCchhhhhccccCCCCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346           81 SSFLSLSEKPDRNMASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus        81 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..+.++..+|......+++++.        ...++.+++++|++|+|||||++.+++-
T Consensus       335 I~~~~vsf~Y~~~~~vL~~isl--------~i~~G~~vaIvG~SGsGKSTLl~lL~g~  384 (529)
T TIGR02868       335 LELRDLSFGYPGSPPVLDGVSL--------DLPPGERVAILGPSGSGKSTLLMLLTGL  384 (529)
T ss_pred             EEEEEEEEecCCCCceeecceE--------EEcCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3455566666543334555543        5567889999999999999999999865

The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex.

>TIGR03263 guanyl_kin guanylate kinase

Probab=96.39  E-value=0.0031  Score=50.17  Aligned_cols=24  Identities=29%  Similarity=0.504  Sum_probs=21.2

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      ..++++|++|+||||+++.+....
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~~~   25 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLEED   25 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHccC
Confidence            368999999999999999998754

Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.

>PRK13695 putative NTPase; Provisional

Probab=96.34  E-value=0.051  Score=43.05  Aligned_cols=21  Identities=33%  Similarity=0.604  Sum_probs=18.7

Q ss_pred             EEEEEeCCCCChHHHHHHHhc
Q 025346          117 YVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ++++.|.+|+|||||+..+.+
T Consensus         2 ~i~ltG~~G~GKTTll~~i~~   22 (174)
T PRK13695          2 KIGITGPPGVGKTTLVLKIAE   22 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999998654

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=96.30  E-value=0.00066  Score=65.41  Aligned_cols=51  Identities=24%  Similarity=0.304  Sum_probs=40.4

Q ss_pred             HhhhhhccCCcCCC-CCCCchhhhhccccCCCCCCCcEEEEEeCCCCChHHHHHHHhcCc
Q 025346           81 SSFLSLSEKPDRNM-ASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus        81 ~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~~~~~~~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      ..+.++.+.|...- ..+++++.        ..+++.+++++|.+|+|||||.+.+.+--
T Consensus       472 I~~~nvsf~y~~~~~~vL~~isL--------~I~~Ge~vaIvG~SGsGKSTL~KLL~gly  523 (709)
T COG2274         472 IEFENVSFRYGPDDPPVLEDLSL--------EIPPGEKVAIVGRSGSGKSTLLKLLLGLY  523 (709)
T ss_pred             EEEEEEEEEeCCCCcchhhceeE--------EeCCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            57777788887774 35666654        55677899999999999999999998753

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=96.27  E-value=0.003  Score=51.66  Aligned_cols=29  Identities=31%  Similarity=0.425  Sum_probs=25.1

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCc
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      ...++-.++++|++|+|||||+.++-+-+
T Consensus        24 ~v~~Gevv~iiGpSGSGKSTlLRclN~LE   52 (240)
T COG1126          24 SVEKGEVVVIIGPSGSGKSTLLRCLNGLE   52 (240)
T ss_pred             eEcCCCEEEEECCCCCCHHHHHHHHHCCc
Confidence            45667789999999999999999998654

>PF05729 NACHT: NACHT domain

Probab=96.25  E-value=0.022  Score=44.04  Aligned_cols=22  Identities=36%  Similarity=0.542  Sum_probs=19.3

Q ss_pred             EEEEEeCCCCChHHHHHHHhcC
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      .+++.|++|+|||+++..+...
T Consensus         2 ~l~I~G~~G~GKStll~~~~~~   23 (166)
T PF05729_consen    2 VLWISGEPGSGKSTLLRKLAQQ   23 (166)
T ss_pred             EEEEECCCCCChHHHHHHHHHH
Confidence            4889999999999999988754

>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]

Probab=96.24  E-value=0.0024  Score=56.08  Aligned_cols=29  Identities=31%  Similarity=0.492  Sum_probs=24.4

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCc
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      ....+-.++++||+||||||+++.+.|-.
T Consensus        25 ~i~~Gef~vllGPSGcGKSTlLr~IAGLe   53 (338)
T COG3839          25 DIEDGEFVVLLGPSGCGKSTLLRMIAGLE   53 (338)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34556679999999999999999998764

>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=96.24  E-value=0.0051  Score=46.54  Aligned_cols=27  Identities=33%  Similarity=0.457  Sum_probs=23.4

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      .++..++++|++|+|||||++.+.+..
T Consensus         9 ~~g~~~~i~G~nGsGKStLl~~l~g~~   35 (137)
T PF00005_consen    9 KPGEIVAIVGPNGSGKSTLLKALAGLL   35 (137)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEEccCCCccccceeeecccc
Confidence            445689999999999999999998764

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 ....

>KOG0705 consensus GTPase-activating protein Centaurin gamma (contains Ras-like GTPase, PH and ankyrin repeat domains) [Signal transduction mechanisms]

Probab=96.21  E-value=0.0047  Score=56.76  Aligned_cols=107  Identities=15%  Similarity=0.250  Sum_probs=67.4

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      ..++.|+|..++|||+|+.+++...+. ....|...+..-....++...-+.+.|-.|..+              ..+..
T Consensus        30 elk~givg~~~sgktalvhr~ltgty~-~~e~~e~~~~kkE~vv~gqs~lLlirdeg~~~~--------------aQft~   94 (749)
T KOG0705|consen   30 ELKLGIVGTSQSGKTALVHRYLTGTYT-QDESPEGGRFKKEVVVDGQSHLLLIRDEGGHPD--------------AQFCQ   94 (749)
T ss_pred             hhheeeeecccCCceeeeeeeccceec-cccCCcCccceeeEEeeccceEeeeecccCCch--------------hhhhh
Confidence            458999999999999999999988775 233333333333444555566677778777211              12345


Q ss_pred             CccEEEEEEeCCC--CchhHHHHHHHhhccc-CCCCCEEEEEecC
Q 025346          195 NADCIVVLVDACK--APERIDEILEEGVGDH-KDKLPILLVLNKK  236 (254)
Q Consensus       195 ~~d~iv~vid~~~--~~~~~~~~~~~~~~~~-~~~~piivV~nK~  236 (254)
                      ..|++|||+...+  +++.+........... ...+|+++|+++-
T Consensus        95 wvdavIfvf~~~d~~s~q~v~~l~~~l~~~r~r~~i~l~lvgtqd  139 (749)
T KOG0705|consen   95 WVDAVVFVFSVEDEQSFQAVQALAHEMSSYRNISDLPLILVGTQD  139 (749)
T ss_pred             hccceEEEEEeccccCHHHHHHHHhhcccccccccchHHhhcCcc
Confidence            6788888888766  4444444433333222 2457788777763

>COG4987 CydC ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]

Probab=96.19  E-value=0.0072  Score=55.58  Aligned_cols=49  Identities=22%  Similarity=0.328  Sum_probs=37.9

Q ss_pred             hhhhhccCCcCCC-CCCCchhhhhccccCCCCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346           82 SFLSLSEKPDRNM-ASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus        82 ~~~~~~~~~~~~~-~~l~~~~~~~~~~~~~~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      .+.++.++|.... +.+.+++.        ....+.+++++|.+||||||+++.+.+.
T Consensus       338 ~~~~vsF~y~~~~~~~L~~~~l--------~l~~GEkvAIlG~SGsGKSTllqLl~~~  387 (573)
T COG4987         338 ELRNVSFTYPGQQTKALKNFNL--------TLAQGEKVAILGRSGSGKSTLLQLLAGA  387 (573)
T ss_pred             eeccceeecCCCccchhhccce--------eecCCCeEEEECCCCCCHHHHHHHHHhc
Confidence            5566667766555 56666664        5567889999999999999999999863

>PRK00300 gmk guanylate kinase; Provisional

Probab=96.19  E-value=0.005  Score=50.08  Aligned_cols=25  Identities=24%  Similarity=0.454  Sum_probs=22.1

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ++..++++|++|+|||||++.+.+.
T Consensus         4 ~g~~i~i~G~sGsGKstl~~~l~~~   28 (205)
T PRK00300          4 RGLLIVLSGPSGAGKSTLVKALLER   28 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhh
Confidence            4567999999999999999999875

>PF09547 Spore_IV_A: Stage IV sporulation protein A (spore_IV_A); InterPro: IPR014201 This entry is designated stage IV sporulation protein A

Probab=96.13  E-value=0.069  Score=48.17  Aligned_cols=22  Identities=32%  Similarity=0.619  Sum_probs=19.9

Q ss_pred             EEEEEeCCCCChHHHHHHHhcC
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      -+.++||--+||||||++|+..
T Consensus        19 YiGVVGPVRTGKSTFIKRFMel   40 (492)
T PF09547_consen   19 YIGVVGPVRTGKSTFIKRFMEL   40 (492)
T ss_pred             EEEeecCcccCchhHHHHHHHH
Confidence            5899999999999999999854

It acts in the mother cell compartment and plays a role in spore coat morphogenesis []. A comparative genome analysis of all sequenced genomes of Firmicutes shows that the proteins are strictly conserved among the sub-set of endospore-forming species.

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=96.13  E-value=0.0055  Score=50.74  Aligned_cols=29  Identities=34%  Similarity=0.475  Sum_probs=24.6

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCc
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      ...++-.++++|++|+|||||+|.+.+-.
T Consensus        27 ~i~~Ge~vaI~GpSGSGKSTLLniig~ld   55 (226)
T COG1136          27 EIEAGEFVAIVGPSGSGKSTLLNLLGGLD   55 (226)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            44667789999999999999999987654

>KOG0459 consensus Polypeptide release factor 3 [Translation, ribosomal structure and biogenesis]

Probab=96.13  E-value=0.0052  Score=54.57  Aligned_cols=119  Identities=16%  Similarity=0.107  Sum_probs=72.9

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCcc------------------------------ccccCCCCceEEEEEEEEecC
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQKL------------------------------SIVTNKPQTTRHRILGICSGP  161 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~~------------------------------~~~~~~~~tt~~~~~~~~~~~  161 (254)
                      .....+++++|.-.+||||+-..++....                              .......+.|......++...
T Consensus        76 pk~hvn~vfighVdagkstigg~il~ltg~Vd~Rt~ekyereake~~rEswylsW~ldtn~EeR~kgKtvEvGrA~FEte  155 (501)
T KOG0459|consen   76 PKEHVNAVFIGHVDAGKSTIGGNILFLTGMVDKRTLEKYEREAKEKNRESWYLSWALDTNGEERDKGKTVEVGRAYFETE  155 (501)
T ss_pred             CCCCceEEEEEEEeccccccCCeeEEEEeeecHHHHHHHHHHHHhhccccceEEEEEcCchhhhhccceeeeeeEEEEec
Confidence            35567899999999999999887764310                              001122334555556667777


Q ss_pred             CeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCC-----chh--HHHHHHHhhcccCCCCCEEEEEe
Q 025346          162 EYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKA-----PER--IDEILEEGVGDHKDKLPILLVLN  234 (254)
Q Consensus       162 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~-----~~~--~~~~~~~~~~~~~~~~piivV~n  234 (254)
                      ..++.+.|+||.-..-+         ....-+.+||+-++|+.+..+     ++.  .......+.+. ..-...++++|
T Consensus       156 ~~~ftiLDApGHk~fv~---------nmI~GasqAD~~vLvisar~gefetgFerGgQTREha~Lakt-~gv~~lVv~vN  225 (501)
T KOG0459|consen  156 NKRFTILDAPGHKSFVP---------NMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKT-AGVKHLIVLIN  225 (501)
T ss_pred             ceeEEeeccCcccccch---------hhccccchhhhhhhhhhhhhchhhcccccccchhHHHHHHHh-hccceEEEEEE
Confidence            88999999999533322         222336788999999988542     110  11111111111 12357899999


Q ss_pred             cCCCCC
Q 025346          235 KKDLIK  240 (254)
Q Consensus       235 K~Dl~~  240 (254)
                      |+|-..
T Consensus       226 KMddPt  231 (501)
T KOG0459|consen  226 KMDDPT  231 (501)
T ss_pred             eccCCc
Confidence            999754

>PRK08118 topology modulation protein; Reviewed

Probab=96.11  E-value=0.0052  Score=48.62  Aligned_cols=23  Identities=35%  Similarity=0.452  Sum_probs=20.3

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcC
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      .+|+|+|++|+||||+...+...
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~   24 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEK   24 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999988753

>COG1161 Predicted GTPases [General function prediction only]

Probab=96.11  E-value=0.016  Score=50.83  Aligned_cols=63  Identities=29%  Similarity=0.244  Sum_probs=48.1

Q ss_pred             HHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHHHHHHHh
Q 025346          186 MKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLEVTT  252 (254)
Q Consensus       186 ~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~~~~~~~  252 (254)
                      .......+...|+|+.|+|+.++.......+..+..    +.|.++|+||+||.+....+++.+.+.
T Consensus        25 ~~~~~~~~~~~d~vvevvDar~P~~s~~~~l~~~v~----~k~~i~vlNK~DL~~~~~~~~W~~~~~   87 (322)
T COG1161          25 KRQLKEVLKSVDVVVEVVDARDPLGTRNPELERIVK----EKPKLLVLNKADLAPKEVTKKWKKYFK   87 (322)
T ss_pred             HHHHHHhcccCCEEEEEEeccccccccCccHHHHHc----cCCcEEEEehhhcCCHHHHHHHHHHHH
Confidence            356667789999999999999876655555555544    345599999999999988877766654

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=96.08  E-value=0.0047  Score=47.23  Aligned_cols=21  Identities=33%  Similarity=0.623  Sum_probs=19.3

Q ss_pred             EEEEeCCCCChHHHHHHHhcC
Q 025346          118 VAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       118 ~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ++++|++|+||||+++.+...
T Consensus         2 i~i~GpsGsGKstl~~~L~~~   22 (137)
T cd00071           2 IVLSGPSGVGKSTLLKRLLEE   22 (137)
T ss_pred             EEEECCCCCCHHHHHHHHHhc
Confidence            688999999999999999875

7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=96.08  E-value=0.004  Score=50.75  Aligned_cols=28  Identities=32%  Similarity=0.390  Sum_probs=24.2

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCc
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      ..++..++++|++|+|||||++.+.+..
T Consensus        23 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   50 (205)
T cd03226          23 LYAGEIIALTGKNGAGKTTLAKILAGLI   50 (205)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            4556789999999999999999998753

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.

>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=96.05  E-value=0.0056  Score=46.55  Aligned_cols=20  Identities=40%  Similarity=0.662  Sum_probs=18.4

Q ss_pred             EEEEeCCCCChHHHHHHHhc
Q 025346          118 VAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       118 ~~~~G~~~~gKssl~~~~~~  137 (254)
                      ++++|++|+||||++..+..
T Consensus         2 ii~~G~pgsGKSt~a~~l~~   21 (143)
T PF13671_consen    2 IILCGPPGSGKSTLAKRLAK   21 (143)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999999873

...

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=96.04  E-value=0.0031  Score=53.05  Aligned_cols=44  Identities=25%  Similarity=0.395  Sum_probs=32.2

Q ss_pred             hhccCCcCCCCCCCchhhhhccccCCCCCCCcEEEEEeCCCCChHHHHHHHhc
Q 025346           85 SLSEKPDRNMASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus        85 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ++...|... ..++++..        ...++..++++||.|+|||||++.+++
T Consensus         9 nl~v~y~~~-~vl~~i~l--------~v~~G~~~~iiGPNGaGKSTLlK~iLG   52 (254)
T COG1121           9 NLTVSYGNR-PVLEDISL--------SVEKGEITALIGPNGAGKSTLLKAILG   52 (254)
T ss_pred             eeEEEECCE-eeeeccEE--------EEcCCcEEEEECCCCCCHHHHHHHHhC
Confidence            344445533 35666554        445567899999999999999999998

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=96.02  E-value=0.003  Score=53.36  Aligned_cols=28  Identities=32%  Similarity=0.399  Sum_probs=24.2

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..+++..++++|+.|||||||++++.+-
T Consensus        24 ~i~~G~i~~iiGpNG~GKSTLLk~l~g~   51 (258)
T COG1120          24 SIPKGEITGILGPNGSGKSTLLKCLAGL   51 (258)
T ss_pred             EecCCcEEEEECCCCCCHHHHHHHHhcc
Confidence            4556778999999999999999999873

>PRK07261 topology modulation protein; Provisional

Probab=96.02  E-value=0.0057  Score=48.58  Aligned_cols=21  Identities=38%  Similarity=0.577  Sum_probs=19.2

Q ss_pred             EEEEEeCCCCChHHHHHHHhc
Q 025346          117 YVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +|+++|++|+|||||+..+..
T Consensus         2 ri~i~G~~GsGKSTla~~l~~   22 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQ   22 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            689999999999999998864

>PRK13796 GTPase YqeH; Provisional

Probab=96.01  E-value=0.024  Score=50.71  Aligned_cols=49  Identities=29%  Similarity=0.221  Sum_probs=34.6

Q ss_pred             HHHHccCcc-EEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          189 VRSAGINAD-CIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       189 ~~~~~~~~d-~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      ....+...+ +|++|+|+.+........+....    .+.|+++|+||+|+.+.
T Consensus        62 ~l~~i~~~~~lIv~VVD~~D~~~s~~~~L~~~~----~~kpviLViNK~DLl~~  111 (365)
T PRK13796         62 LLNGIGDSDALVVNVVDIFDFNGSWIPGLHRFV----GNNPVLLVGNKADLLPK  111 (365)
T ss_pred             HHHhhcccCcEEEEEEECccCCCchhHHHHHHh----CCCCEEEEEEchhhCCC
Confidence            334455555 99999999886555544444433    36799999999999863

>COG3840 ThiQ ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]

Probab=95.99  E-value=0.0067  Score=48.49  Aligned_cols=28  Identities=39%  Similarity=0.494  Sum_probs=23.9

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCc
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      ...+..++++|++|+|||||+|.+.+=.
T Consensus        22 v~~ge~vAi~GpSGaGKSTLLnLIAGF~   49 (231)
T COG3840          22 VPAGEIVAILGPSGAGKSTLLNLIAGFE   49 (231)
T ss_pred             ecCCcEEEEECCCCccHHHHHHHHHhcc
Confidence            3556789999999999999999998643

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=95.98  E-value=0.0055  Score=51.28  Aligned_cols=28  Identities=29%  Similarity=0.388  Sum_probs=24.2

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ...++..++++|++|+|||||++.+.+.
T Consensus        24 ~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl   51 (243)
T TIGR02315        24 NINPGEFVAIIGPSGAGKSTLLRCINRL   51 (243)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3456678999999999999999999875

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.

>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=95.97  E-value=0.0044  Score=51.37  Aligned_cols=44  Identities=27%  Similarity=0.380  Sum_probs=31.5

Q ss_pred             hccCCcCCCCCCCchhhhhccccCCCCCCCcEEEEEeCCCCChHHHHHHHhc
Q 025346           86 LSEKPDRNMASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus        86 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +.+.|......+.+++.        ....+-.++++|++|+|||||+..+-+
T Consensus         9 l~k~yp~~~~aL~~Vnl--------~I~~GE~VaiIG~SGaGKSTLLR~lng   52 (258)
T COG3638           9 LSKTYPGGHQALKDVNL--------EINQGEMVAIIGPSGAGKSTLLRSLNG   52 (258)
T ss_pred             eeeecCCCceeeeeEeE--------EeCCCcEEEEECCCCCcHHHHHHHHhc
Confidence            44444333344555543        456677899999999999999999887

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=95.95  E-value=0.0049  Score=50.56  Aligned_cols=29  Identities=24%  Similarity=0.389  Sum_probs=24.6

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCc
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      ...++..++++|++|+|||||++.+.+..
T Consensus        24 ~i~~G~~~~l~G~nGsGKSTLl~~i~Gl~   52 (214)
T TIGR02673        24 HIRKGEFLFLTGPSGAGKTTLLKLLYGAL   52 (214)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34566789999999999999999998753

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.

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=95.92  E-value=0.0081  Score=44.52  Aligned_cols=25  Identities=28%  Similarity=0.523  Sum_probs=21.6

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      ...++++|++|+|||+++..+...-
T Consensus         2 ~~~~~l~G~~G~GKTtl~~~l~~~~   26 (148)
T smart00382        2 GEVILIVGPPGSGKTTLARALAREL   26 (148)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHhcc
Confidence            3579999999999999999998654

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.

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=95.91  E-value=0.011  Score=38.66  Aligned_cols=21  Identities=29%  Similarity=0.382  Sum_probs=18.6

Q ss_pred             cEEEEEeCCCCChHHHHHHHh
Q 025346          116 GYVAVLGKPNVGKSTLANQMI  136 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~  136 (254)
                      ...++.|++|+||||++..+.
T Consensus        24 ~~tli~G~nGsGKSTllDAi~   44 (62)
T PF13555_consen   24 DVTLITGPNGSGKSTLLDAIQ   44 (62)
T ss_pred             cEEEEECCCCCCHHHHHHHHH
Confidence            368999999999999998775

>TIGR00958 3a01208 Conjugate Transporter-2 (CT2) Family protein

Probab=95.90  E-value=0.0011  Score=64.28  Aligned_cols=50  Identities=22%  Similarity=0.242  Sum_probs=35.6

Q ss_pred             HhhhhhccCCcC--CCCCCCchhhhhccccCCCCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346           81 SSFLSLSEKPDR--NMASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus        81 ~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~~~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..+.++...|..  ....+++++.        ...++.+++++|++|+|||||++.+.+-
T Consensus       479 I~~~nVsf~Y~~~~~~~vL~~isl--------~i~~Ge~vaIvG~SGsGKSTLl~lL~gl  530 (711)
T TIGR00958       479 IEFQDVSFSYPNRPDVPVLKGLTF--------TLHPGEVVALVGPSGSGKSTVAALLQNL  530 (711)
T ss_pred             EEEEEEEEECCCCCCCccccCceE--------EEcCCCEEEEECCCCCCHHHHHHHHHhc
Confidence            345556666642  2234555543        4567889999999999999999999875

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=95.88  E-value=0.007  Score=48.45  Aligned_cols=22  Identities=41%  Similarity=0.711  Sum_probs=20.3

Q ss_pred             EEEEEeCCCCChHHHHHHHhcC
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      +++++|+||+||||+...+...
T Consensus         2 riiilG~pGaGK~T~A~~La~~   23 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKK   23 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999999865

>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=95.86  E-value=0.0044  Score=50.81  Aligned_cols=27  Identities=26%  Similarity=0.394  Sum_probs=23.9

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..++..++++|++|+|||||++.+.+.
T Consensus        24 i~~G~~~~i~G~nGsGKSTLl~~l~G~   50 (214)
T cd03292          24 ISAGEFVFLVGPSGAGKSTLLKLIYKE   50 (214)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            356678999999999999999999985

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>cd03110 Fer4_NifH_child This protein family's function is unkown

Probab=95.82  E-value=0.097  Score=41.51  Aligned_cols=66  Identities=23%  Similarity=0.287  Sum_probs=43.1

Q ss_pred             CCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCC-chhHHHHHHHhhcccCCCCCEEEEEecCCCC
Q 025346          161 PEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKA-PERIDEILEEGVGDHKDKLPILLVLNKKDLI  239 (254)
Q Consensus       161 ~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~-~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~  239 (254)
                      ....+.++|||+....           .....+..+|.+++++..+.. .......+.. ++.  .+.|+.+|+||+|..
T Consensus        91 ~~~d~viiDtpp~~~~-----------~~~~~l~~aD~vliv~~~~~~~~~~~~~~~~~-l~~--~~~~~~vV~N~~~~~  156 (179)
T cd03110          91 EGAELIIIDGPPGIGC-----------PVIASLTGADAALLVTEPTPSGLHDLERAVEL-VRH--FGIPVGVVINKYDLN  156 (179)
T ss_pred             cCCCEEEEECcCCCcH-----------HHHHHHHcCCEEEEEecCCcccHHHHHHHHHH-HHH--cCCCEEEEEeCCCCC
Confidence            4567999999973321           122335789999999998763 3333344333 222  356789999999976


Q ss_pred             C
Q 025346          240 K  240 (254)
Q Consensus       240 ~  240 (254)
                      .
T Consensus       157 ~  157 (179)
T cd03110         157 D  157 (179)
T ss_pred             c
Confidence            4

It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion.

>KOG0781 consensus Signal recognition particle receptor, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.82  E-value=0.043  Score=49.92  Aligned_cols=76  Identities=14%  Similarity=0.225  Sum_probs=42.8

Q ss_pred             CCeeEEEEecCCCcccchhhhhHHHHHHHHHH--ccCccEEEEEEeCCCC---chhHHHHHHHhhcccCCCCCEEEEEec
Q 025346          161 PEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA--GINADCIVVLVDACKA---PERIDEILEEGVGDHKDKLPILLVLNK  235 (254)
Q Consensus       161 ~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~--~~~~d~iv~vid~~~~---~~~~~~~~~~~~~~~~~~~piivV~nK  235 (254)
                      .+..+.++||+|-.......|     ..+...  ...+|.|+||-.+--+   ...+...-..+.....+..-=-++++|
T Consensus       465 ~gfDVvLiDTAGR~~~~~~lm-----~~l~k~~~~~~pd~i~~vgealvg~dsv~q~~~fn~al~~~~~~r~id~~~ltk  539 (587)
T KOG0781|consen  465 QGFDVVLIDTAGRMHNNAPLM-----TSLAKLIKVNKPDLILFVGEALVGNDSVDQLKKFNRALADHSTPRLIDGILLTK  539 (587)
T ss_pred             cCCCEEEEeccccccCChhHH-----HHHHHHHhcCCCceEEEehhhhhCcHHHHHHHHHHHHHhcCCCccccceEEEEe
Confidence            467899999999665543333     333333  5689999999776333   333332222222211111112467899


Q ss_pred             CCCCCh
Q 025346          236 KDLIKP  241 (254)
Q Consensus       236 ~Dl~~~  241 (254)
                      +|.++.
T Consensus       540 ~dtv~d  545 (587)
T KOG0781|consen  540 FDTVDD  545 (587)
T ss_pred             ccchhh
Confidence            998765

>COG4988 CydD ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]

Probab=95.81  E-value=0.0088  Score=55.48  Aligned_cols=46  Identities=26%  Similarity=0.348  Sum_probs=35.1

Q ss_pred             hhccCCcCCCCCCCchhhhhccccCCCCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346           85 SLSEKPDRNMASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus        85 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ++...+.+....+.++++        ...++.+++++|++|+|||||++.++|-
T Consensus       325 ~l~~~y~~g~~~l~~l~~--------t~~~g~~talvG~SGaGKSTLl~lL~G~  370 (559)
T COG4988         325 NLSFRYPDGKPALSDLNL--------TIKAGQLTALVGASGAGKSTLLNLLLGF  370 (559)
T ss_pred             ceEEecCCCCcccCCcee--------EecCCcEEEEECCCCCCHHHHHHHHhCc
Confidence            555555555455566554        5567789999999999999999999875

>COG3842 PotA ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=95.78  E-value=0.0051  Score=54.28  Aligned_cols=29  Identities=31%  Similarity=0.511  Sum_probs=24.2

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCc
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      ...++-.+.++||+||||||++..+.|-.
T Consensus        27 ~i~~Gef~~lLGPSGcGKTTlLR~IAGfe   55 (352)
T COG3842          27 DIKKGEFVTLLGPSGCGKTTLLRMIAGFE   55 (352)
T ss_pred             eecCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            44556679999999999999999998754

>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=95.76  E-value=0.0065  Score=47.92  Aligned_cols=29  Identities=21%  Similarity=0.271  Sum_probs=24.8

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCc
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      ...++..++++|++|+|||||++.+.+..
T Consensus        23 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   51 (166)
T cd03223          23 EIKPGDRLLITGPSGTGKSSLFRALAGLW   51 (166)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34567789999999999999999999863

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

>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE)

Probab=95.76  E-value=0.0068  Score=50.12  Aligned_cols=29  Identities=31%  Similarity=0.481  Sum_probs=24.8

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCc
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      ...++..++++|++|+|||||++.+.+..
T Consensus        27 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   55 (228)
T cd03257          27 SIKKGETLGLVGESGSGKSTLARAILGLL   55 (228)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34567789999999999999999999763

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.

>PF02263 GBP: Guanylate-binding protein, N-terminal domain; InterPro: IPR015894 Guanylate-binding protein is a GTPase that is induced by interferon (IFN)-gamma

Probab=95.75  E-value=0.015  Score=49.47  Aligned_cols=62  Identities=26%  Similarity=0.339  Sum_probs=41.2

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCc--cccccCCCCceEEEEEEE---EecCCeeEEEEecCCCcc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQK--LSIVTNKPQTTRHRILGI---CSGPEYQMILYDTPGIIE  175 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~--~~~~~~~~~tt~~~~~~~---~~~~~~~~~liDtpG~~~  175 (254)
                      +...|.|+|+..+|||.|+|.+++..  +.......+.|.......   ...+...+.++||.|+.+
T Consensus        20 ~v~vvsi~G~~rtGKSfLln~l~~~~~gF~~~~~~~~~T~Giw~w~~~~~~~~~~~v~llDteG~~~   86 (260)
T PF02263_consen   20 PVAVVSIVGPYRTGKSFLLNQLLGPQSGFSWGPTVEPCTKGIWMWSEPLPDGEKVAVVLLDTEGLGD   86 (260)
T ss_dssp             BEEEEEEEEETTSSHHHHHHHHCCBSSSSESSSCSSST-SCEEEECCE-TTSTCEEEEEEEEECBTT
T ss_pred             CEEEEEeecCCccchHHHHHHHhcccccccccCCCCCCCcceeeeecccccccceeEEEecchhccc
Confidence            34478999999999999999999753  332222334444333221   134567899999999876

GTPases induced by IFN-gamma are key to the protective immunity against microbial and viral pathogens. These GTPases are classified into three groups: the small 47-kd GTPases, the Mx proteins, and the large 65- to 67-kd GTPases. Guanylate-binding proteins (GBP) fall into the last class. In humans, there are seven GBPs (hGBP1-7) []. Structurally, hGBP1 consists of two domains: a compact globular N-terminal domain harbouring the GTPase function, and an alpha-helical finger-like C-terminal domain (IPR003191 from INTERPRO). Human GBP1 is secreted from cells without the need of a leader peptide, and has been shown to exhibit antiviral activity against Vesicular stomatitis virus and Encephalomyocarditis virus, as well as being able to regulate the inhibition of proliferation and invasion of endothelial cells in response to IFN-gamma [].; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 3QOF_A 3Q5E_C 3QNU_A 3Q5D_A 1DG3_A 2D4H_A 2B8W_B 2B92_A 2BC9_A 1F5N_A.

>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=95.75  E-value=0.0097  Score=47.61  Aligned_cols=27  Identities=22%  Similarity=0.434  Sum_probs=23.5

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      .++..++++|++|+|||||++.+.+..
T Consensus        23 ~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   49 (177)
T cd03222          23 KEGEVIGIVGPNGTGKTTAVKILAGQL   49 (177)
T ss_pred             CCCCEEEEECCCCChHHHHHHHHHcCC
Confidence            456689999999999999999998753

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.

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=95.75  E-value=0.01  Score=47.77  Aligned_cols=29  Identities=31%  Similarity=0.413  Sum_probs=24.3

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCc
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      ...++..++++|++|+|||||++.+.+..
T Consensus        14 ~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   42 (190)
T TIGR01166        14 AAERGEVLALLGANGAGKSTLLLHLNGLL   42 (190)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34556689999999999999999998753

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.

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=95.74  E-value=0.01  Score=47.74  Aligned_cols=23  Identities=17%  Similarity=0.346  Sum_probs=20.6

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcC
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..++++|++|+||||+++.+.+.
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~   25 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQR   25 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcc
Confidence            46899999999999999999765

>TIGR00235 udk uridine kinase

Probab=95.73  E-value=0.0095  Score=48.72  Aligned_cols=25  Identities=24%  Similarity=0.344  Sum_probs=21.8

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +++..++++|++|+|||||++.+.+
T Consensus         4 ~~g~vi~I~G~sGsGKSTl~~~l~~   28 (207)
T TIGR00235         4 PKGIIIGIGGGSGSGKTTVARKIYE   28 (207)
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHHH
Confidence            4556899999999999999999875

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>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=95.72  E-value=0.011  Score=47.29  Aligned_cols=27  Identities=33%  Similarity=0.270  Sum_probs=23.1

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ...++..++++|++|+|||||++.++.
T Consensus        17 ~i~~G~~~~l~G~nG~GKSTLl~~il~   43 (176)
T cd03238          17 SIPLNVLVVVTGVSGSGKSTLVNEGLY   43 (176)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhh
Confidence            445677899999999999999998863

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.

>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein

Probab=95.69  E-value=0.0079  Score=49.86  Aligned_cols=29  Identities=28%  Similarity=0.362  Sum_probs=24.6

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCc
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      ...++..++++|++|+|||||++.+.+..
T Consensus        25 ~i~~G~~~~i~G~nGsGKSTLl~~l~G~~   53 (229)
T cd03254          25 SIKPGETVAIVGPTGAGKTTLINLLMRFY   53 (229)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcCc
Confidence            34566789999999999999999998764

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.

>PRK08181 transposase; Validated

Probab=95.69  E-value=0.021  Score=48.75  Aligned_cols=24  Identities=33%  Similarity=0.404  Sum_probs=20.7

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ....++++|++|+|||.|+..+..
T Consensus       105 ~~~nlll~Gp~GtGKTHLa~Aia~  128 (269)
T PRK08181        105 KGANLLLFGPPGGGKSHLAAAIGL  128 (269)
T ss_pred             cCceEEEEecCCCcHHHHHHHHHH
Confidence            345799999999999999998864

>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=95.67  E-value=0.011  Score=48.53  Aligned_cols=29  Identities=38%  Similarity=0.523  Sum_probs=24.7

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCc
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      ...++..++++|++|+|||||++.+.+..
T Consensus        26 ~i~~G~~~~l~G~nGsGKSTLl~~i~Gl~   54 (218)
T cd03255          26 SIEKGEFVAIVGPSGSGKSTLLNILGGLD   54 (218)
T ss_pred             EEcCCCEEEEEcCCCCCHHHHHHHHhCCc
Confidence            34566789999999999999999998763

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.

>cd03290 ABCC_SUR1_N The SUR domain 1

Probab=95.67  E-value=0.0079  Score=49.51  Aligned_cols=29  Identities=21%  Similarity=0.357  Sum_probs=24.8

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCc
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      ...++..++++|++|+|||||++.+.+..
T Consensus        23 ~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   51 (218)
T cd03290          23 RIPTGQLTMIVGQVGCGKSSLLLAILGEM   51 (218)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhccC
Confidence            34567789999999999999999999764

The sulfonylurea receptor SUR is an ATP transporter of the ABCC/MRP family with tandem ATPase binding domains. Unlike other ABC proteins, it has no intrinsic transport function, neither active nor passive, but associates with the potassium channel proteins Kir6.1 or Kir6.2 to form the ATP-sensitive potassium (K(ATP)) channel. Within the channel complex, SUR serves as a regulatory subunit that fine-tunes the gating of Kir6.x in response to alterations in cellular metabolism. It constitutes a major pharmaceutical target as it binds numerous drugs, K(ATP) channel openers and blockers, capable of up- or down-regulating channel activity.

>COG1341 Predicted GTPase or GTP-binding protein [General function prediction only]

Probab=95.66  E-value=0.073  Score=47.51  Aligned_cols=26  Identities=38%  Similarity=0.508  Sum_probs=21.1

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .....+++++|+.++|||||...+..
T Consensus        70 ~~~~~~vmvvG~vDSGKSTLt~~LaN   95 (398)
T COG1341          70 AGKVGVVMVVGPVDSGKSTLTTYLAN   95 (398)
T ss_pred             ccCCcEEEEECCcCcCHHHHHHHHHH
Confidence            44567899999999999999776653

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=95.65  E-value=0.012  Score=48.42  Aligned_cols=28  Identities=29%  Similarity=0.426  Sum_probs=24.3

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ...++..++++|++|+|||||++.+.+.
T Consensus        25 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   52 (216)
T TIGR00960        25 HITKGEMVFLVGHSGAGKSTFLKLILGI   52 (216)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3456678999999999999999999985

>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=95.65  E-value=0.011  Score=39.36  Aligned_cols=21  Identities=38%  Similarity=0.596  Sum_probs=18.6

Q ss_pred             EEEEeCCCCChHHHHHHHhcC
Q 025346          118 VAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       118 ~~~~G~~~~gKssl~~~~~~~  138 (254)
                      +++.|++|+||||+.+.+...
T Consensus         2 i~i~G~~gsGKst~~~~l~~~   22 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQ   22 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            678999999999999988753

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.

>COG4525 TauB ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=95.64  E-value=0.0096  Score=48.17  Aligned_cols=28  Identities=36%  Similarity=0.458  Sum_probs=23.1

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ....+-.++++|++|||||||+|-+.+-
T Consensus        27 ~ia~ge~vv~lGpSGcGKTTLLnl~AGf   54 (259)
T COG4525          27 TIASGELVVVLGPSGCGKTTLLNLIAGF   54 (259)
T ss_pred             eecCCCEEEEEcCCCccHHHHHHHHhcC
Confidence            3445567999999999999999998863

>PF05783 DLIC: Dynein light intermediate chain (DLIC); InterPro: IPR022780 This entry consists of several eukaryotic dynein light intermediate chain proteins

Probab=95.63  E-value=0.056  Score=49.84  Aligned_cols=88  Identities=17%  Similarity=0.173  Sum_probs=47.3

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEec----CCeeEEEEecCCCcccchhhhhHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSG----PEYQMILYDTPGIIEKKIHMLDSMMMKN  188 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~----~~~~~~liDtpG~~~~~~~~~~~~~~~~  188 (254)
                      .....|+|+|..++|||||+.+|.+.+-    ..++.........+..    +..++.+|-..|  +..+..+-...   
T Consensus        23 ~~~k~vlvlG~~~~GKttli~~L~~~e~----~~~~~aLeYty~~v~d~~~dd~~rl~vw~L~g--~~~~~~LLk~~---   93 (472)
T PF05783_consen   23 PSEKSVLVLGDKGSGKTTLIARLQGIED----PKKGLALEYTYLDVKDEDRDDLARLNVWELDG--DPSHSDLLKFA---   93 (472)
T ss_pred             CCCceEEEEeCCCCchHHHHHHhhccCC----CCCCcccceEEEeeccCcCCcCceeeEEEcCC--CcchHhHhccc---
Confidence            4456899999999999999999876532    2223222222221211    123567776655  32222211110   


Q ss_pred             HHHHccCccEEEEEEeCCCCc
Q 025346          189 VRSAGINADCIVVLVDACKAP  209 (254)
Q Consensus       189 ~~~~~~~~d~iv~vid~~~~~  209 (254)
                      +...--.--+||+|+|.+.++
T Consensus        94 lt~~~l~~t~vvIvlDlS~PW  114 (472)
T PF05783_consen   94 LTPENLPNTLVVIVLDLSKPW  114 (472)
T ss_pred             CCcccccceEEEEEecCCChH
Confidence            000011235788889998764

The light intermediate chains (LICs) of cytoplasmic dynein consist of multiple isoforms, which undergo post-translational modification to produce a large number of species. DLIC1 is known to be involved in assembly, organisation, and function of centrosomes and mitotic spindles when bound to pericentrin [, ]. DLIC2 is a subunit of cytoplasmic dynein 2 that may play a role in maintaining Golgi organisation by binding cytoplasmic dynein 2 to its Golgi-associated cargo [].

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=95.63  E-value=0.011  Score=48.41  Aligned_cols=27  Identities=30%  Similarity=0.314  Sum_probs=22.3

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ..++....+++||+|||||||+.++-+
T Consensus        29 ~i~~~~VTAlIGPSGcGKST~LR~lNR   55 (253)
T COG1117          29 DIPKNKVTALIGPSGCGKSTLLRCLNR   55 (253)
T ss_pred             eccCCceEEEECCCCcCHHHHHHHHHh
Confidence            455666789999999999999988754

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	254
1wf3_A	301	Crystal Structure Of Gtp-Binding Protein Tt1341 Fro		5e-20
1x18_X	292	Contact Sites Of Era Gtpase On The Thermus Thermoph		3e-19
3r9w_A	307	Crystal Structure Of Era In Complex With Mggdpnp An		4e-19
3iev_A	308	Crystal Structure Of Era In Complex With Mggnp And		4e-19
1ega_A	301	Crystal Structure Of A Widely Conserved Gtpase Era		4e-19
2hjg_A	436	The Crystal Structure Of The B. Subtilis Yphc Gtpas		5e-11
4dcs_A	456	Crystal Structure Of B. Subtilis Enga In Complex Wi		5e-11
3k53_A	271	Crystal Structure Of Nfeob From P. Furiosus Length		1e-09
3geh_A	462	Crystal Structure Of Mnme From Nostoc In Complex Wi		7e-09
3qq5_A	423	Crystal Structure Of The [fefe]-Hydrogenase Maturat		1e-07
1xzp_A	482	Structure Of The Gtp-Binding Protein Trme From Ther		8e-07
2e87_A	357	Crystal Structure Of Hypothetical Gtp-Binding Prote		1e-06
1mky_A	439	Structural Analysis Of The Domain Interactions In D		1e-06
3gee_A	476	Crystal Structure Of Mnme From Chlorobium Tepidum I		1e-06
3t5g_A	181	Structure Of Fully Modified Farnesylated Rheb In Co		4e-06
1xtq_A	177	Structure Of Small Gtpase Human Rheb In Complex Wit		4e-06
2dyk_A	161	Crystal Structure Of N-Terminal Gtp-Binding Domain		1e-05
3sea_A	167	Structure Of Rheb-Y35a Mutant In Gdp- And Gmppnp-Bo		2e-05
3a1t_A	258	Crystal Structue Of The Cytosolic Domain Of T. Mari		4e-05
3a1s_A	258	Crystal Structue Of The Cytosolic Domain Of T. Mari		5e-05
3a1w_A	168	Crystal Structue Of The G Domain Of T. Maritima Feo		5e-05
2l0x_A	169	Solution Structure Of The 21 Kda Gtpase Rheb Bound		7e-05
2gj9_A	172	Structure Of The Mnme G-Domain In Complex With GdpA		7e-05
1rfl_A	172	Nmr Data Driven Structural Model Of G-Domain Of Mnm		8e-05
2gj8_A	172	Structure Of The Mnme G-domain In Complex With Gdp*		9e-05
2wjg_A	188	Structure And Function Of The Feob G-Domain From Me		2e-04
2wjj_A	168	Structure And Function Of The Feob G-Domain From Me		2e-04
2wji_A	165	Structure And Function Of The Feob G-Domain From Me		2e-04
2wjh_A	166	Structure And Function Of The Feob G-Domain From Me		2e-04

>pdb|1WF3|A Chain A, Crystal Structure Of Gtp-Binding Protein Tt1341 From Thermus Thermophilus Hb8 Length = 301

Iteration: 1
 Score = 94.4 bits (233), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 54/133 (40%), Positives = 79/133 (59%), Gaps = 1/133 (0%)
Query: 115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGII 174
           SG+VA++GKPNVGKSTL N ++G K++ ++ +PQTTR R+ GI +    Q++  DTPG +
Sbjct: 7   SGFVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTEGRRQIVFVDTPG-L 65
Query: 175 EKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLN 234
            K +  L   M + V  A  + + +V +VD    P   DE++   +     K+PILLV N
Sbjct: 66  HKPMDALGEFMDQEVYEALADVNAVVWVVDLRHPPTPEDELVARALKPLVGKVPILLVGN 125
Query: 235 KKDLIKPGEIAKK 247
           K D  K  E A K
Sbjct: 126 KLDAAKYPEEAMK 138

>pdb|1X18|X Chain X, Contact Sites Of Era Gtpase On The Thermus Thermophilus 30s Subunit Length = 292

Iteration: 1
 Score = 91.7 bits (226), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 48/125 (38%), Positives = 78/125 (62%), Gaps = 9/125 (7%)
Query: 116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIE 175
           G++A++G+PNVGKSTL N+++GQK+SI + K QTTRHRI+GI +   YQ I  DTPG+  
Sbjct: 6   GFIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEGAYQAIYVDTPGLHM 65
Query: 176 KKIHMLDSMMMKNVRSAGINADCIVVLVDACKAP---ERIDEILEEGVGDHKDKLPILLV 232
           ++   ++ +M K   S+  + + ++ +V+  +     E +   L EG      K P++L 
Sbjct: 66  EEKRAINRLMNKAASSSIGDVELVIFVVEGTRWTPDDEMVLNKLREG------KAPVILA 119
Query: 233 LNKKD 237
           +NK D
Sbjct: 120 VNKVD 124

>pdb|3R9W|A Chain A, Crystal Structure Of Era In Complex With Mggdpnp And Nucleotides 1506- 1542 Of 16s Ribosomal Rna Length = 307

Iteration: 1
 Score = 91.7 bits (226), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 56/132 (42%), Positives = 84/132 (63%), Gaps = 3/132 (2%)
Query: 114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGP-EYQMILYDTPG 172
           K GYVA++GKPNVGKSTL N ++G K+SI++ K  TTR R+LG+ + P E Q+I  DTPG
Sbjct: 8   KVGYVAIVGKPNVGKSTLLNNLLGTKVSIISPKAGTTRMRVLGVKNIPNEAQIIFLDTPG 67
Query: 173 IIE-KKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILL 231
           I E KK  +L   M++  + +   AD I+ ++DA +     DE + +      +K P+++
Sbjct: 68  IYEPKKSDVLGHSMVEIAKQSLEEADVILFMIDATEGWRPRDEEIYQNFIKPLNK-PVIV 126
Query: 232 VLNKKDLIKPGE 243
           V+NK D I P +
Sbjct: 127 VINKIDKIGPAK 138

>pdb|3IEV|A Chain A, Crystal Structure Of Era In Complex With Mggnp And The 3' End Of 16s Rrna Length = 308

Iteration: 1
 Score = 91.7 bits (226), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 56/132 (42%), Positives = 84/132 (63%), Gaps = 3/132 (2%)
Query: 114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGP-EYQMILYDTPG 172
           K GYVA++GKPNVGKSTL N ++G K+SI++ K  TTR R+LG+ + P E Q+I  DTPG
Sbjct: 9   KVGYVAIVGKPNVGKSTLLNNLLGTKVSIISPKAGTTRMRVLGVKNIPNEAQIIFLDTPG 68
Query: 173 IIE-KKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILL 231
           I E KK  +L   M++  + +   AD I+ ++DA +     DE + +      +K P+++
Sbjct: 69  IYEPKKSDVLGHSMVEIAKQSLEEADVILFMIDATEGWRPRDEEIYQNFIKPLNK-PVIV 127
Query: 232 VLNKKDLIKPGE 243
           V+NK D I P +
Sbjct: 128 VINKIDKIGPAK 139

>pdb|1EGA|A Chain A, Crystal Structure Of A Widely Conserved Gtpase Era Length = 301

Iteration: 1
 Score = 91.7 bits (226), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 48/125 (38%), Positives = 78/125 (62%), Gaps = 9/125 (7%)
Query: 116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIE 175
           G++A++G+PNVGKSTL N+++GQK+SI + K QTTRHRI+GI +   YQ I  DTPG+  
Sbjct: 9   GFIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEGAYQAIYVDTPGLHM 68
Query: 176 KKIHMLDSMMMKNVRSAGINADCIVVLVDACKAP---ERIDEILEEGVGDHKDKLPILLV 232
           ++   ++ +M K   S+  + + ++ +V+  +     E +   L EG      K P++L 
Sbjct: 69  EEKRAINRLMNKAASSSIGDVELVIFVVEGTRWTPDDEMVLNKLREG------KAPVILA 122
Query: 233 LNKKD 237
           +NK D
Sbjct: 123 VNKVD 127

>pdb|2HJG|A Chain A, The Crystal Structure Of The B. Subtilis Yphc Gtpase In Complex With Gdp Length = 436

Iteration: 1
 Score = 64.7 bits (156), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 43/128 (33%), Positives = 65/128 (50%), Gaps = 19/128 (14%)
Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
           VA++G+PNVGKST+ N++ G+++SIV + P  TR RI        Y   L DT G     
Sbjct: 6   VAIVGRPNVGKSTIFNRIAGERISIVEDTPGVTRDRIYSSAEWLNYDFNLIDTGG----- 60
Query: 178 IHMLDSMMMKNVRS----AGINADCIVVLVDA----CKAPERIDEILEEGVGDHKDKLPI 229
           I + D   +  +R     A   AD I+  V+       A E + +IL      ++ K P+
Sbjct: 61  IDIGDEPFLAQIRQQAEIAXDEADVIIFXVNGREGVTAADEEVAKIL------YRTKKPV 114
Query: 230 LLVLNKKD 237
           +L +NK D
Sbjct: 115 VLAVNKLD 122

>pdb|4DCS|A Chain A, Crystal Structure Of B. Subtilis Enga In Complex With Sulfate Ion And Gdp Length = 456

Iteration: 1
 Score = 64.7 bits (156), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 43/128 (33%), Positives = 66/128 (51%), Gaps = 19/128 (14%)
Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
           VA++G+PNVGKST+ N++ G+++SIV + P  TR RI        Y   L DT G     
Sbjct: 26  VAIVGRPNVGKSTIFNRIAGERISIVEDTPGVTRDRIYSSAEWLNYDFNLIDTGG----- 80
Query: 178 IHMLDSMMMKNVRS----AGINADCIVVLVDA----CKAPERIDEILEEGVGDHKDKLPI 229
           I + D   +  +R     A   AD I+ +V+       A E + +IL      ++ K P+
Sbjct: 81  IDIGDEPFLAQIRQQAEIAMDEADVIIFMVNGREGVTAADEEVAKIL------YRTKKPV 134
Query: 230 LLVLNKKD 237
           +L +NK D
Sbjct: 135 VLAVNKLD 142

>pdb|3K53|A Chain A, Crystal Structure Of Nfeob From P. Furiosus Length = 271

Iteration: 1
 Score = 59.7 bits (143), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 45/123 (36%), Positives = 66/123 (53%), Gaps = 5/123 (4%)
Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
           VA++G PNVGK+T+ N + G +   V N P  T  +  GI    E + ++ D PGI    
Sbjct: 6   VALVGNPNVGKTTIFNALTGLRQH-VGNWPGVTVEKKEGIMEYREKEFLVVDLPGIYSLT 64
Query: 178 IHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKD 237
            H +D ++ +N    G NAD IV +VD+      +   LE    + K+   I+LVLNK D
Sbjct: 65  AHSIDELIARNFILDG-NADVIVDIVDSTCLMRNLFLTLELFEMEVKN---IILVLNKFD 120
Query: 238 LIK 240
           L+K
Sbjct: 121 LLK 123

>pdb|3GEH|A Chain A, Crystal Structure Of Mnme From Nostoc In Complex With Gdp, Folinic Acid And Zn Length = 462

Iteration: 1
 Score = 57.4 bits (137), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 42/125 (33%), Positives = 69/125 (55%), Gaps = 9/125 (7%)
Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILG--ICSGPEYQMILYDTPGIIE 175
           VA++G+PNVGKS+L N       +IVT+ P TTR  +    +  G   Q++  DT GI E
Sbjct: 227 VAIVGRPNVGKSSLLNAWSQSDRAIVTDLPGTTRDVVESQLVVGGIPVQVL--DTAGIRE 284
Query: 176 KKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNK 235
                ++ + ++  R A   AD +++ +DA       D+ + E V  H+   P++LV+NK
Sbjct: 285 TS-DQVEKIGVERSRQAANTADLVLLTIDAATGWTTGDQEIYEQV-KHR---PLILVMNK 339
Query: 236 KDLIK 240
            DL++
Sbjct: 340 IDLVE 344

>pdb|3QQ5|A Chain A, Crystal Structure Of The [fefe]-Hydrogenase Maturation Protein Hydf Length = 423

Iteration: 1
 Score = 53.5 bits (127), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 41/135 (30%), Positives = 72/135 (53%), Gaps = 11/135 (8%)
Query: 117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRIL-GICSGPEYQMILYDTPGIIE 175
           Y+ V G+ NVGKS+  N ++GQ +SIV++   TT   +   +   P   + L DTPG+  
Sbjct: 36  YIVVAGRRNVGKSSFMNALVGQNVSIVSDYAGTTTDPVYKSMELHPIGPVTLVDTPGL-- 93
Query: 176 KKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKD-KLPILLVLN 234
             +  L  + ++  R     ADC +++ D+   P   D      V   K+ ++P ++V+N
Sbjct: 94  DDVGELGRLRVEKARRVFYRADCGILVTDSAPTPYEDDV-----VNLFKEMEIPFVVVVN 148
Query: 235 KKDLIKPGEIAKKLE 249
           K D++  GE A++L+
Sbjct: 149 KIDVL--GEKAEELK 161

>pdb|1XZP|A Chain A, Structure Of The Gtp-Binding Protein Trme From Thermotoga Maritima Length = 482

Iteration: 1
 Score = 50.8 bits (120), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 34/125 (27%), Positives = 70/125 (56%), Gaps = 8/125 (6%)
Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILG--ICSGPEYQMILYDTPGIIE 175
           + ++GKPNVGKSTL N+++ +  +IVT+ P TTR  I    +  G  ++++  DT G+  
Sbjct: 246 MVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRGILFRIV--DTAGVRS 303
Query: 176 KKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNK 235
           +   +++ + ++        AD ++ ++DA    +  D  + E + + +     L+V+NK
Sbjct: 304 ETNDLVERLGIERTLQEIEKADIVLFVLDASSPLDEEDRKILERIKNKR----YLVVINK 359
Query: 236 KDLIK 240
            D+++
Sbjct: 360 VDVVE 364

>pdb|2E87|A Chain A, Crystal Structure Of Hypothetical Gtp-Binding Protein Ph1320 From Pyrococcus Horikoshii Ot3, In Complex With Gdp Length = 357

Iteration: 1
 Score = 50.1 bits (118), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 43/136 (31%), Positives = 68/136 (50%), Gaps = 7/136 (5%)
Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
           V + G PNVGKSTL   +   K  I +  P TTR   +G      ++  + DTPG++++ 
Sbjct: 170 VVIAGHPNVGKSTLLKALTTAKPEIASY-PFTTRGINVGQFEDGYFRYQIIDTPGLLDRP 228
Query: 178 IHMLDSMMMKNVRSAGINADCIVVLVDA---CKAP-ERIDEILEEGVGDHKDKLPILLVL 233
           I   + +  + + +     + I+ + D    C  P E    + EE  G+ KD LP L+V+
Sbjct: 229 ISERNEIEKQAILALRYLGNLIIYIFDPSEHCGFPLEEQIHLFEEVHGEFKD-LPFLVVI 287
Query: 234 NKKDLIKPGEIAKKLE 249
           NK D+     I K+LE
Sbjct: 288 NKIDVADEENI-KRLE 302

>pdb|1MKY|A Chain A, Structural Analysis Of The Domain Interactions In Der, A Switch Protein Containing Two Gtpase Domains Length = 439

Iteration: 1
 Score = 49.7 bits (117), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 38/127 (29%), Positives = 67/127 (52%), Gaps = 9/127 (7%)
Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILG--ICSGPEYQMILYDTPGIIE 175
           VA++G+PNVGKSTL N ++ ++ ++V+  P TTR  +       G +Y  +  DT G+  
Sbjct: 183 VAIVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFIDGRKY--VFVDTAGLRR 240
Query: 176 K-KIHMLDSMMMKNVRSAGI--NADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLV 232
           K ++         N R       AD +V+++DA +   R D+    G+ + + +  + +V
Sbjct: 241 KSRVEPRTVEKYSNYRVVDSIEKADVVVIVLDATQGITRQDQ-RXAGLXERRGRASV-VV 298
Query: 233 LNKKDLI 239
            NK DL+
Sbjct: 299 FNKWDLV 305

>pdb|3GEE|A Chain A, Crystal Structure Of Mnme From Chlorobium Tepidum In Complex With Gdp And Folinic Acid Length = 476

Iteration: 1
 Score = 49.7 bits (117), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 35/99 (35%), Positives = 52/99 (52%), Gaps = 3/99 (3%)
Query: 120 VLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIH 179
           + GKPN GKSTL N ++GQ+ +IV++ P TTR  I       +    L DT G+ E    
Sbjct: 238 IAGKPNAGKSTLLNTLLGQERAIVSHMPGTTRDYIEECFIHDKTMFRLTDTAGLREAG-E 296
Query: 180 MLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEE 218
            ++   ++  R     AD I+ L+D     ER+D+ L E
Sbjct: 297 EIEHEGIRRSRMKMAEADLILYLLDL--GTERLDDELTE 333

>pdb|3T5G|A Chain A, Structure Of Fully Modified Farnesylated Rheb In Complex With Pde6d Length = 181

Iteration: 1
 Score = 48.5 bits (114), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 46/132 (34%), Positives = 66/132 (50%), Gaps = 14/132 (10%)
Query: 111 PNHKSGYVAVLGKPNVGKSTLANQMI-GQKLSIVTNKPQTTRHRILGICSGPEYQMILYD 169
           P  KS  +A+LG  +VGKS+L  Q + GQ +       + T  +++ + +G EY + L D
Sbjct: 2   PQSKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFTKLITV-NGQEYHLQLVD 60
Query: 170 TPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEI---LEEGVGDHKDK 226
           T G  E  I            S  IN   +V  V + K+ E I  I   L + VG  K +
Sbjct: 61  TAGQDEYSI-------FPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVG--KVQ 111
Query: 227 LPILLVLNKKDL 238
           +PI+LV NKKDL
Sbjct: 112 IPIMLVGNKKDL 123

>pdb|1XTQ|A Chain A, Structure Of Small Gtpase Human Rheb In Complex With Gdp Length = 177

Iteration: 1
 Score = 48.5 bits (114), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 46/132 (34%), Positives = 66/132 (50%), Gaps = 14/132 (10%)
Query: 111 PNHKSGYVAVLGKPNVGKSTLANQMI-GQKLSIVTNKPQTTRHRILGICSGPEYQMILYD 169
           P  KS  +A+LG  +VGKS+L  Q + GQ +       + T  +++ + +G EY + L D
Sbjct: 2   PQSKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFTKLITV-NGQEYHLQLVD 60
Query: 170 TPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEI---LEEGVGDHKDK 226
           T G  E  I            S  IN   +V  V + K+ E I  I   L + VG  K +
Sbjct: 61  TAGQDEYSI-------FPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVG--KVQ 111
Query: 227 LPILLVLNKKDL 238
           +PI+LV NKKDL
Sbjct: 112 IPIMLVGNKKDL 123

>pdb|2DYK|A Chain A, Crystal Structure Of N-Terminal Gtp-Binding Domain Of Enga From Thermus Thermophilus Hb8 Length = 161

Iteration: 1
 Score = 46.6 bits (109), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 35/125 (28%), Positives = 62/125 (49%), Gaps = 14/125 (11%)
Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGI---- 173
           V ++G+PNVGKS+L N+++ ++ ++V + P  TR    G+      + +L DT G+    
Sbjct: 4   VVIVGRPNVGKSSLFNRLLKKRSAVVADVPGVTRDLKEGVVETDRGRFLLVDTGGLWSGD 63
Query: 174 -IEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLV 232
             EKKI        + V  A  +A+ ++  VD      + D  + E +   +   P++LV
Sbjct: 64  KWEKKIQ-------EKVDRALEDAEVVLFAVDGRAELTQADYEVAEYL--RRKGKPVILV 114
Query: 233 LNKKD 237
             K D
Sbjct: 115 ATKVD 119

>pdb|3SEA|A Chain A, Structure Of Rheb-Y35a Mutant In Gdp- And Gmppnp-Bound Forms Length = 167

Iteration: 1
 Score = 45.8 bits (107), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 45/129 (34%), Positives = 65/129 (50%), Gaps = 14/129 (10%)
Query: 114 KSGYVAVLGKPNVGKSTLANQMI-GQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPG 172
           KS  +A+LG  +VGKS+L  Q + GQ +       + T  +++ + +G EY + L DT G
Sbjct: 3   KSRKIAILGYRSVGKSSLTIQFVEGQFVDSADPTIENTFTKLITV-NGQEYHLQLVDTAG 61
Query: 173 IIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEI---LEEGVGDHKDKLPI 229
             E  I            S  IN   +V  V + K+ E I  I   L + VG  K ++PI
Sbjct: 62  QDEYSI-------FPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVG--KVQIPI 112
Query: 230 LLVLNKKDL 238
           +LV NKKDL
Sbjct: 113 MLVGNKKDL 121

>pdb|3A1T|A Chain A, Crystal Structue Of The Cytosolic Domain Of T. Maritima Feob Iron Iransporter In Gdp Form Ii Length = 258

Iteration: 1
 Score = 45.1 bits (105), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 29/100 (29%), Positives = 50/100 (50%), Gaps = 2/100 (2%)
Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
           VA+ G PNVGK++L N + G K   V N P  T  +  G+ +   Y + L D PG     
Sbjct: 8   VALAGCPNVGKTSLFNALTGTK-QYVANWPGVTVEKKEGVFTYKGYTINLIDLPGTYSLG 66
Query: 178 IHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILE 217
              +D  + ++    G +AD ++++ D+    + +  +LE
Sbjct: 67  YSSIDEKIARDYLLKG-DADLVILVADSVNPEQSLYLLLE 105

>pdb|3A1S|A Chain A, Crystal Structue Of The Cytosolic Domain Of T. Maritima Feob Iron Iransporter In Gdp Form I Length = 258

Iteration: 1
 Score = 44.7 bits (104), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 29/94 (30%), Positives = 48/94 (51%), Gaps = 3/94 (3%)
Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
           VA+ G PNVGK++L N + G K   V N P  T  +  G+ +   Y + L D PG     
Sbjct: 8   VALAGCPNVGKTSLFNALTGTK-QYVANWPGVTVEKKEGVFTYKGYTINLIDLPGTYSLG 66
Query: 178 IHMLDSMMMKNVRSAGINADCIVVLVDACKAPER 211
              +D  + ++    G +AD ++++ D+   PE+
Sbjct: 67  YSSIDEKIARDYLLKG-DADLVILVADSVN-PEQ 98

>pdb|3A1W|A Chain A, Crystal Structue Of The G Domain Of T. Maritima Feob Iron Iransporter Length = 168

Iteration: 1
 Score = 44.7 bits (104), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 29/100 (29%), Positives = 50/100 (50%), Gaps = 2/100 (2%)
Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
           VA+ G PNVGK++L N + G K   V N P  T  +  G+ +   Y + L D PG     
Sbjct: 8   VALAGCPNVGKTSLFNALTGTK-QYVANWPGVTVEKKEGVFTYKGYTINLIDLPGTYSLG 66
Query: 178 IHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILE 217
              +D  + ++    G +AD ++++ D+    + +  +LE
Sbjct: 67  YSSIDEKIARDYLLKG-DADLVILVADSVNPEQSLYLLLE 105

>pdb|2L0X|A Chain A, Solution Structure Of The 21 Kda Gtpase Rheb Bound To Gdp Length = 169

Iteration: 1
 Score = 44.3 bits (103), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 43/125 (34%), Positives = 63/125 (50%), Gaps = 14/125 (11%)
Query: 118 VAVLGKPNVGKSTLANQMI-GQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEK 176
           +A+LG  +VGKS+L  Q + GQ +       + T  +++ + +G EY + L DT G  E 
Sbjct: 4   IAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFTKLITV-NGQEYHLQLVDTAGQDEY 62
Query: 177 KIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEI---LEEGVGDHKDKLPILLVL 233
            I            S  IN   +V  V + K+ E I  I   L + VG  K ++PI+LV 
Sbjct: 63  SI-------FPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVG--KVQIPIMLVG 113
Query: 234 NKKDL 238
           NKKDL
Sbjct: 114 NKKDL 118

>pdb|2GJ9|A Chain A, Structure Of The Mnme G-Domain In Complex With GdpAlf4-, Mg2+ And Rb+ Length = 172

Iteration: 1
 Score = 44.3 bits (103), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 39/135 (28%), Positives = 63/135 (46%), Gaps = 28/135 (20%)
Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
           V + G+PN GKS+L N + G++ +IVT+   TTR              +L +   I    
Sbjct: 7   VVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRD-------------VLREHIHIDGMP 53
Query: 178 IHMLDSMMMK----NVRSAGI--------NADCIVVLVDACKAPERID--EILEEGVGDH 223
           +H++D+  ++     V   GI         AD ++ +VD     + +D  EI  E +   
Sbjct: 54  LHIIDTAGLREASDEVERIGIERAWQEIEQADRVLFMVDGTTT-DAVDPAEIWPEFIARL 112
Query: 224 KDKLPILLVLNKKDL 238
             KLPI +V NK D+
Sbjct: 113 PAKLPITVVRNKADI 127

>pdb|1RFL|A Chain A, Nmr Data Driven Structural Model Of G-Domain Of Mnme Protein Length = 172

Iteration: 1
 Score = 43.9 bits (102), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 39/135 (28%), Positives = 63/135 (46%), Gaps = 28/135 (20%)
Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
           V + G+PN GKS+L N + G++ +IVT+   TTR              +L +   I    
Sbjct: 10  VVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRD-------------VLREHIHIDGMP 56
Query: 178 IHMLDSMMMK----NVRSAGI--------NADCIVVLVDACKAPERID--EILEEGVGDH 223
           +H++D+  ++     V   GI         AD ++ +VD     + +D  EI  E +   
Sbjct: 57  LHIIDTAGLREASDEVERIGIERAWQEIEQADRVLFMVDGTTT-DAVDPAEIWPEFIARL 115
Query: 224 KDKLPILLVLNKKDL 238
             KLPI +V NK D+
Sbjct: 116 PAKLPITVVRNKADI 130

>pdb|2GJ8|A Chain A, Structure Of The Mnme G-domain In Complex With Gdp*alf4-, Mg2+ And K+ Length = 172

Iteration: 1
 Score = 43.9 bits (102), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 39/135 (28%), Positives = 62/135 (45%), Gaps = 28/135 (20%)
Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
           V + G+PN GKS+L N + G++ +IVT+   TTR              +L +   I    
Sbjct: 7   VVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRD-------------VLREHIHIDGXP 53
Query: 178 IHMLDSMMMK----NVRSAGI--------NADCIVVLVDACKAPERID--EILEEGVGDH 223
           +H++D+  ++     V   GI         AD ++  VD     + +D  EI  E +   
Sbjct: 54  LHIIDTAGLREASDEVERIGIERAWQEIEQADRVLFXVDGTTT-DAVDPAEIWPEFIARL 112
Query: 224 KDKLPILLVLNKKDL 238
             KLPI +V NK D+
Sbjct: 113 PAKLPITVVRNKADI 127

>pdb|2WJG|A Chain A, Structure And Function Of The Feob G-Domain From Methanococcus Jannaschii Length = 188

Iteration: 1
 Score = 43.1 bits (100), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 44/135 (32%), Positives = 69/135 (51%), Gaps = 22/135 (16%)
Query: 114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGIC--SGPEYQMILYDTP 171
           KS  +A++G PNVGKST+ N + G+ + I  N P  T  +  G    +G +++++  D P
Sbjct: 6   KSYEIALIGNPNVGKSTIFNALTGENVYI-GNWPGVTVEKKEGEFEYNGEKFKVV--DLP 62
Query: 172 GIIEKKIHMLDSMMMKNVRSAGINA--DCIVVLVDACKAPER----IDEILEEGVGDHKD 225
           G+     + +D ++    R   IN   D +V +VDA  A ER      +++E G      
Sbjct: 63  GVYSLTANSIDEII---ARDYIINEKPDLVVNIVDAT-ALERNLYLTLQLMEMGAN---- 114
Query: 226 KLPILLVLNKKDLIK 240
              +LL LNK DL K
Sbjct: 115 ---LLLALNKMDLAK 126

>pdb|2WJJ|A Chain A, Structure And Function Of The Feob G-Domain From Methanococcus Jannaschii Length = 168

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 44/135 (32%), Positives = 68/135 (50%), Gaps = 22/135 (16%)
Query: 114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGIC--SGPEYQMILYDTP 171
           KS  +A++G PNVGKST+ N + G+ + I  N P  T  +  G    +G +++++  D P
Sbjct: 3   KSYEIALIGNPNVGKSTIFNALTGENVYI-GNWPGVTVEKKEGEFEYNGEKFKVV--DLP 59
Query: 172 GIIEKKIHMLDSMMMKNVRSAGINA--DCIVVLVDACKAPER----IDEILEEGVGDHKD 225
           G+     + +D ++    R   IN   D +V +VDA  A ER      ++ E G      
Sbjct: 60  GVYSLTANSIDEII---ARDYIINEKPDLVVNIVDAT-ALERNLYLTLQLXEXGAN---- 111
Query: 226 KLPILLVLNKKDLIK 240
              +LL LNK DL K
Sbjct: 112 ---LLLALNKXDLAK 123

>pdb|2WJI|A Chain A, Structure And Function Of The Feob G-Domain From Methanococcus Jannaschii Length = 165

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 44/135 (32%), Positives = 69/135 (51%), Gaps = 22/135 (16%)
Query: 114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGIC--SGPEYQMILYDTP 171
           KS  +A++G PNVGKST+ N + G+ + I  N P  T  +  G    +G +++++  D P
Sbjct: 2   KSYEIALIGNPNVGKSTIFNALTGENVYI-GNWPGVTVEKKEGEFEYNGEKFKVV--DLP 58
Query: 172 GIIEKKIHMLDSMMMKNVRSAGINA--DCIVVLVDACKAPER----IDEILEEGVGDHKD 225
           G+     + +D ++    R   IN   D +V +VDA  A ER      +++E G      
Sbjct: 59  GVYSLTANSIDEII---ARDYIINEKPDLVVNIVDAT-ALERNLYLTLQLMEMGAN---- 110
Query: 226 KLPILLVLNKKDLIK 240
              +LL LNK DL K
Sbjct: 111 ---LLLALNKMDLAK 122

>pdb|2WJH|A Chain A, Structure And Function Of The Feob G-Domain From Methanococcus Jannaschii Length = 166

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 44/135 (32%), Positives = 69/135 (51%), Gaps = 22/135 (16%)
Query: 114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGIC--SGPEYQMILYDTP 171
           KS  +A++G PNVGKST+ N + G+ + I  N P  T  +  G    +G +++++  D P
Sbjct: 2   KSYEIALIGNPNVGKSTIFNALTGENVYI-GNWPGVTVEKKEGEFEYNGEKFKVV--DLP 58
Query: 172 GIIEKKIHMLDSMMMKNVRSAGINA--DCIVVLVDACKAPER----IDEILEEGVGDHKD 225
           G+     + +D ++    R   IN   D +V +VDA  A ER      +++E G      
Sbjct: 59  GVYSLTANSIDEII---ARDYIINEKPDLVVNIVDAT-ALERNLYLTLQLMEMGAN---- 110
Query: 226 KLPILLVLNKKDLIK 240
              +LL LNK DL K
Sbjct: 111 ---LLLALNKMDLAK 122

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	254
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	2e-55
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	9e-55
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	1e-53
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	2e-41
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	5e-23
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	1e-19
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	2e-19
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	7e-14
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	2e-18
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	4e-14
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	2e-17
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	6e-16
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	5e-14
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	9e-14
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	2e-13
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	3e-13
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	8e-13
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	2e-11
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	3e-11
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	8e-11
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	3e-10
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	8e-10
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	1e-08
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	3e-08
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	4e-08
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	7e-08
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	1e-07
2wji_A	165	Ferrous iron transport protein B homolog; membrane	2e-07
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	2e-07
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	4e-07
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	4e-07
1nrj_B	218	SR-beta, signal recognition particle receptor beta	4e-07
2ged_A	193	SR-beta, signal recognition particle receptor beta	5e-07
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	6e-07
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	9e-07
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	5e-04
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	3e-06
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	4e-06
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	4e-06
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	5e-06
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	7e-06
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	8e-06
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	9e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-05
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	2e-05
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	1e-04
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	2e-04
2fh5_B	214	SR-beta, signal recognition particle receptor beta	5e-04

>1wf3_A GTP-binding protein; GTPase, riken structural genomics/prote initiative, RSGI, structural genomics, hydrolase; HET: GNP; 1.88A {Thermus thermophilus} SCOP: c.37.1.8 d.52.3.1 Length = 301

 Score =  178 bits (455), Expect = 2e-55
 Identities = 51/132 (38%), Positives = 76/132 (57%), Gaps = 1/132 (0%)

Query: 112 NHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTP 171
              SG+VA++GKPNVGKSTL N ++G K++ ++ +PQTTR R+ GI +    Q++  DTP
Sbjct: 4   KTYSGFVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTEGRRQIVFVDTP 63

Query: 172 GIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILL 231
           G+ +     L   M + V  A  + + +V +VD    P   DE++   +     K+PILL
Sbjct: 64  GLHKPM-DALGEFMDQEVYEALADVNAVVWVVDLRHPPTPEDELVARALKPLVGKVPILL 122

Query: 232 VLNKKDLIKPGE 243
           V NK D  K  E
Sbjct: 123 VGNKLDAAKYPE 134

>1ega_A Protein (GTP-binding protein ERA); GTPase, RNA-binding, RAS-like, hydrolase; 2.40A {Escherichia coli} SCOP: c.37.1.8 d.52.3.1 PDB: 1x1l_X 3ieu_A* 1x18_X Length = 301

 Score =  177 bits (451), Expect = 9e-55
 Identities = 46/135 (34%), Positives = 81/135 (60%), Gaps = 3/135 (2%)

Query: 109 SHPNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILY 168
           S      G++A++G+PNVGKSTL N+++GQK+SI + K QTTRHRI+GI +   YQ I  
Sbjct: 2   SIDKSYCGFIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEGAYQAIYV 61

Query: 169 DTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLP 228
           DTPG+  ++   ++ +M K   S+  + + ++ +V+  +     + +L +     + K P
Sbjct: 62  DTPGLHMEEKRAINRLMNKAASSSIGDVELVIFVVEGTRWTPDDEMVLNKLR---EGKAP 118

Query: 229 ILLVLNKKDLIKPGE 243
           ++L +NK D ++   
Sbjct: 119 VILAVNKVDNVQEKA 133

>3iev_A GTP-binding protein ERA; ERA, GTPase, KH domain, anti-SD, 16S rRNA, 30S ribosome ASSE GTP-binding, nucleotide-binding; HET: GNP; 1.90A {Aquifex aeolicus} PDB: 3r9w_A* 3r9x_A* Length = 308

 Score =  174 bits (444), Expect = 1e-53
 Identities = 57/143 (39%), Positives = 85/143 (59%), Gaps = 5/143 (3%)

Query: 109 SHPNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPE-YQMIL 167
            H + K GYVA++GKPNVGKSTL N ++G K+SI++ K  TTR R+LG+ + P   Q+I 
Sbjct: 4   HHHHMKVGYVAIVGKPNVGKSTLLNNLLGTKVSIISPKAGTTRMRVLGVKNIPNEAQIIF 63

Query: 168 YDTPGIIE-KKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDE-ILEEGVGDHKD 225
            DTPGI E KK  +L   M++  + +   AD I+ ++DA +     DE I +  +     
Sbjct: 64  LDTPGIYEPKKSDVLGHSMVEIAKQSLEEADVILFMIDATEGWRPRDEEIYQNFIK--PL 121

Query: 226 KLPILLVLNKKDLIKPGEIAKKL 248
             P+++V+NK D I P +    L
Sbjct: 122 NKPVIVVINKIDKIGPAKNVLPL 144

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana} Length = 423

 Score =  145 bits (369), Expect = 2e-41
 Identities = 35/132 (26%), Positives = 65/132 (49%), Gaps = 7/132 (5%)

Query: 111 PNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICS-GPEYQMILYD 169
                 Y+ V G+ NVGKS+  N ++GQ +SIV++   TT   +       P   + L D
Sbjct: 30  DAGFRRYIVVAGRRNVGKSSFMNALVGQNVSIVSDYAGTTTDPVYKSMELHPIGPVTLVD 89

Query: 170 TPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPI 229
           TPG+    +  L  + ++  R     ADC +++ D+   P   D+++       + ++P 
Sbjct: 90  TPGL--DDVGELGRLRVEKARRVFYRADCGILVTDSAPTPYE-DDVVNL---FKEMEIPF 143

Query: 230 LLVLNKKDLIKP 241
           ++V+NK D++  
Sbjct: 144 VVVVNKIDVLGE 155

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8 Length = 190

 Score = 91.6 bits (228), Expect = 5e-23
 Identities = 34/146 (23%), Positives = 58/146 (39%), Gaps = 20/146 (13%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGI---- 173
           +   G+ NVGKSTL  ++ G+K+     +P  TR  I            + D PG     
Sbjct: 4   IIFAGRSNVGKSTLIYRLTGKKV-RRGKRPGVTRKIIEIEWKN----HKIIDMPGFGFMM 58

Query: 174 -IEKKI-HMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGD--------- 222
            + K++   +   ++  +     N D  V++VD   APE I    + G            
Sbjct: 59  GLPKEVQERIKDEIVHFIEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFL 118

Query: 223 HKDKLPILLVLNKKDLIKPGEIAKKL 248
            +  +P ++ +NK D IK  +     
Sbjct: 119 RELDIPTIVAVNKLDKIKNVQEVINF 144

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus} Length = 161

 Score = 82.2 bits (204), Expect = 1e-19
 Identities = 32/124 (25%), Positives = 60/124 (48%), Gaps = 12/124 (9%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
           V ++G+PNVGKS+L N+++ ++ ++V + P  TR    G+      + +L DT G+    
Sbjct: 4   VVIVGRPNVGKSSLFNRLLKKRSAVVADVPGVTRDLKEGVVETDRGRFLLVDTGGLWSGD 63

Query: 178 IHMLDSMMMKNVRSAGINADCIVVLVDA----CKAPERIDEILEEGVGDHKDKLPILLVL 233
               +  + + V  A  +A+ ++  VD      +A   + E L       +   P++LV 
Sbjct: 64  K--WEKKIQEKVDRALEDAEVVLFAVDGRAELTQADYEVAEYL------RRKGKPVILVA 115

Query: 234 NKKD 237
            K D
Sbjct: 116 TKVD 119

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1 Length = 439

 Score = 85.2 bits (212), Expect = 2e-19
 Identities = 33/126 (26%), Positives = 62/126 (49%), Gaps = 14/126 (11%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICS--GPEYQMILYDTPGIIE 175
           V ++G+PNVGKSTL N+++ +K +IV ++   TR  +       G  ++++  DT G+ +
Sbjct: 4   VLIVGRPNVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEWYGKTFKLV--DTCGVFD 61

Query: 176 KKIHMLDSMMMKNVRSAGINADCIVVLVDA----CKAPERIDEILEEGVGDHKDKLPILL 231
               ++   M +   +    AD ++ +VD      K  E + + L       K  +  +L
Sbjct: 62  NPQDIISQKMKEVTLNMIREADLVLFVVDGKRGITKEDESLADFL------RKSTVDTIL 115

Query: 232 VLNKKD 237
           V NK +
Sbjct: 116 VANKAE 121

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1 Length = 439

 Score = 69.5 bits (171), Expect = 7e-14
 Identities = 41/161 (25%), Positives = 70/161 (43%), Gaps = 31/161 (19%)

Query: 97  PDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRI-- 154
               ++E     +        VA++G+PNVGKSTL N ++ ++ ++V+  P TTR  +  
Sbjct: 166 EKGLDLESKPEITDAIK----VAIVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDD 221

Query: 155 LGICSGPEYQMILYDTPGIIEKKIHMLDSMMMK--NVRS-AGI-NADCIVVLVDACKAPE 210
                G +Y  +  DT G + +K  +    + K  N R    I  AD +V+++D   A +
Sbjct: 222 EVFIDGRKYVFV--DTAG-LRRKSRVEPRTVEKYSNYRVVDSIEKADVVVIVLD---ATQ 275

Query: 211 RIDE--------ILEEGVGDHKDKLPILLVLNKKDLIKPGE 243
            I          +   G          ++V NK DL+   E
Sbjct: 276 GITRQDQRMAGLMERRGRA-------SVVVFNKWDLVVHRE 309

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis} Length = 436

 Score = 82.5 bits (205), Expect = 2e-18
 Identities = 40/126 (31%), Positives = 67/126 (53%), Gaps = 15/126 (11%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICS--GPEYQMILYDTPGIIE 175
           VA++G+PNVGKST+ N++ G+++SIV + P  TR RI         ++ +I  DT G I+
Sbjct: 6   VAIVGRPNVGKSTIFNRIAGERISIVEDTPGVTRDRIYSSAEWLNYDFNLI--DTGG-ID 62

Query: 176 KKIHMLDSMMMKNVRSAGINADCIVVLVDA----CKAPERIDEILEEGVGDHKDKLPILL 231
                  + + +    A   AD I+ +V+       A E + +IL      ++ K P++L
Sbjct: 63  IGDEPFLAQIRQQAEIAMDEADVIIFMVNGREGVTAADEEVAKIL------YRTKKPVVL 116

Query: 232 VLNKKD 237
            +NK D
Sbjct: 117 AVNKLD 122

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis} Length = 436

 Score = 70.2 bits (173), Expect = 4e-14
 Identities = 34/139 (24%), Positives = 70/139 (50%), Gaps = 32/139 (23%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRI--LGICSGPEYQMILYDTPGIIE 175
             ++G+PNVGKS+L N M+G++  IV+N   TTR  +      +  E+ ++  DT G + 
Sbjct: 178 FCLIGRPNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQQEFVIV--DTAG-MR 234

Query: 176 KKIHMLDSM----MMKNVRSAGI-NADCIVVLVDACKAPERIDEILEEGVGD-------- 222
           KK  + ++     +++ +++  I  ++ + V++D            EEG+ +        
Sbjct: 235 KKGKVYETTEKYSVLRALKA--IDRSEVVAVVLDG-----------EEGIIEQDKRIAGY 281

Query: 223 -HKDKLPILLVLNKKDLIK 240
            H+    +++V+NK D + 
Sbjct: 282 AHEAGKAVVIVVNKWDAVD 300

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A Length = 172

 Score = 76.4 bits (189), Expect = 2e-17
 Identities = 39/153 (25%), Positives = 61/153 (39%), Gaps = 42/153 (27%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRH------RILGICSGPEYQMILYDTP 171
           V + G+PN GKS+L N + G++ +IVT+   TTR        I G+       + + DT 
Sbjct: 7   VVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDGM------PLHIIDTA 60

Query: 172 GI------IEKKIHMLDSMMMKNVRSAGI--------NADCIVVLVDACKAPERID-EIL 216
           G+      +E+                GI         AD ++ +VD          EI 
Sbjct: 61  GLREASDEVERI---------------GIERAWQEIEQADRVLFMVDGTTTDAVDPAEIW 105

Query: 217 EEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLE 249
            E +     KLPI +V NK D+        ++ 
Sbjct: 106 PEFIARLPAKLPITVVRNKADITGETLGMSEVN 138

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A* Length = 262

 Score = 74.1 bits (182), Expect = 6e-16
 Identities = 33/151 (21%), Positives = 62/151 (41%), Gaps = 12/151 (7%)

Query: 102 IEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGP 161
           IE F      +  S  V VLGK  VGKS+  N +IG+++  V+         ++   +  
Sbjct: 23  IEFFGKLKQKDMNSMTVLVLGKGGVGKSSTVNSLIGEQVVRVSPFQAEGLRPVMVSRTMG 82

Query: 162 EYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGIN--ADCIVVLVDACKAPERIDEILEEG 219
            + + + DTPG++E      +   ++ ++   +N   D ++ +         +DE+ ++ 
Sbjct: 83  GFTINIIDTPGLVEAGYV--NHQALELIKGFLVNRTIDVLLYVDRL--DVYAVDELDKQV 138

Query: 220 VGDHKDKL------PILLVLNKKDLIKPGEI 244
           V               LLVL       P E+
Sbjct: 139 VIAITQTFGKEIWCKTLLVLTHAQFSPPDEL 169

>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* Length = 413

 Score = 69.7 bits (170), Expect = 5e-14
 Identities = 22/136 (16%), Positives = 42/136 (30%), Gaps = 13/136 (9%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKL----SIVTNKPQTTRHRILGICSGPEYQMILYDTPGI 173
           VAV G+   GKS+  N + G       +  T   + T  R           ++ +D PGI
Sbjct: 72  VAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHP-YKHPNIPNVVFWDLPGI 130

Query: 174 IEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVL 233
                     +            +    ++ +    ++ D  + + +     K     V 
Sbjct: 131 GSTNFPPDTYLEKMK------FYEYDFFIIISATRFKKNDIDIAKAI--SMMKKEFYFVR 182

Query: 234 NKKDLIKPGEIAKKLE 249
            K D     E   + +
Sbjct: 183 TKVDSDITNEADGEPQ 198

>3gee_A MNME, tRNA modification GTPase MNME; G protein, cytoplasm, GTP- binding, hydrolase, magnesium, metal-binding, nucleotide- binding, potassium; HET: GDP FON; 2.95A {Chlorobium tepidum} PDB: 3gei_A* Length = 476

 Score = 69.5 bits (171), Expect = 9e-14
 Identities = 33/138 (23%), Positives = 47/138 (34%), Gaps = 35/138 (25%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRH------RILGICSGPEYQMILYDTP 171
             + GKPN GKSTL N ++GQ+ +IV++ P TTR                     L DT 
Sbjct: 236 TVIAGKPNAGKSTLLNTLLGQERAIVSHMPGTTRDYIEECFIHDKTM------FRLTDTA 289

Query: 172 GI-----------IEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGV 220
           G+           I +    +              AD I+ L+D        +      +
Sbjct: 290 GLREAGEEIEHEGIRRSRMKMAE------------ADLILYLLDLGTERLDDELTEIREL 337

Query: 221 GDHKDKLPILLVLNKKDL 238
                    L V NK D 
Sbjct: 338 KAAHPAAKFLTVANKLDR 355

>1xzp_A Probable tRNA modification GTPase TRME; GTP-binding, THF-binding, hydrolase; 2.30A {Thermotoga maritima} SCOP: a.24.25.1 c.37.1.8 d.250.1.2 PDB: 1xzq_A* 1xzp_B 1xzq_B* Length = 482

 Score = 68.3 bits (168), Expect = 2e-13
 Identities = 37/147 (25%), Positives = 66/147 (44%), Gaps = 40/147 (27%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRH------RILGICSGPEYQMILYDTP 171
           + ++GKPNVGKSTL N+++ +  +IVT+ P TTR        I GI         + DT 
Sbjct: 246 MVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRGIL------FRIVDTA 299

Query: 172 GI------------IEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEG 219
           G+            IE+ +  ++             AD ++ ++DA    +  D  + E 
Sbjct: 300 GVRSETNDLVERLGIERTLQEIEK------------ADIVLFVLDASSPLDEEDRKILER 347

Query: 220 VGDHKDKLPILLVLNKKDLIKPGEIAK 246
           + +       L+V+NK D+++     +
Sbjct: 348 IKNK----RYLVVINKVDVVEKINEEE 370

>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} Length = 462

 Score = 67.9 bits (167), Expect = 3e-13
 Identities = 41/146 (28%), Positives = 65/146 (44%), Gaps = 39/146 (26%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRH------RILGICSGPEYQMILYDTP 171
           VA++G+PNVGKS+L N       +IVT+ P TTR        + GI   P   + + DT 
Sbjct: 227 VAIVGRPNVGKSSLLNAWSQSDRAIVTDLPGTTRDVVESQLVVGGI---P---VQVLDTA 280

Query: 172 GI-----------IEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGV 220
           GI           +E+     ++            AD +++ +DA       D+ + E V
Sbjct: 281 GIRETSDQVEKIGVERSRQAANT------------ADLVLLTIDAATGWTTGDQEIYEQV 328

Query: 221 GDHKDKLPILLVLNKKDLIKPGEIAK 246
                  P++LV+NK DL++   I  
Sbjct: 329 KHR----PLILVMNKIDLVEKQLITS 350

>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria, structural genomics, structural genomics consortium, SGC, unknown function; HET: GDP; 2.01A {Plasmodium falciparum} Length = 228

 Score = 64.8 bits (158), Expect = 8e-13
 Identities = 26/142 (18%), Positives = 54/142 (38%), Gaps = 18/142 (12%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEK- 176
           + + G PNVGKS+  N +       V +   TT++  +G       +  + DTPG++++ 
Sbjct: 32  IILSGAPNVGKSSFMNIVSRAN-VDVQSYSFTTKNLYVGHFDHKLNKYQIIDTPGLLDRA 90

Query: 177 -----KIHMLDSMMMKNVRSAGINADCIVVLVDA---C-KAPERIDEILEEGVGDHKDKL 227
                 I M     + ++         I+ ++D    C    +    +         +K 
Sbjct: 91  FENRNTIEMTTITALAHIN------GVILFIIDISEQCGLTIKEQINLFYSIKSVFSNK- 143

Query: 228 PILLVLNKKDLIKPGEIAKKLE 249
            I++  NK D      ++   +
Sbjct: 144 SIVIGFNKIDKCNMDSLSIDNK 165

>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} Length = 239

 Score = 61.2 bits (148), Expect = 2e-11
 Identities = 30/165 (18%), Positives = 68/165 (41%), Gaps = 15/165 (9%)

Query: 95  ASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQT-TRHR 153
           +  ++   +       P +    + ++GK   GKS   N ++G+K+       ++ T+  
Sbjct: 9   SGRENLYFQGGPGRQEPRNSQLRIVLVGKTGAGKSATGNSILGRKVFHSGTAAKSITKKC 68

Query: 154 ILGICSGPEYQMILYDTPGIIEKKIHM--LDSMMMKNVRSA--GINADCIVVLVDAC--- 206
                S  E ++++ DTPGI + ++        +++ +     G +A  +VV +      
Sbjct: 69  EKRSSSWKETELVVVDTPGIFDTEVPNAETSKEIIRCILLTSPGPHALLLVVPLGRYTEE 128

Query: 207 --KAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLE 249
             KA E+I ++  E          ++L+  +KD +    +   L 
Sbjct: 129 EHKATEKILKMFGERARSF-----MILIFTRKDDLGDTNLHDYLR 168

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A* Length = 270

 Score = 60.7 bits (147), Expect = 3e-11
 Identities = 27/135 (20%), Positives = 54/135 (40%), Gaps = 12/135 (8%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
           + V+GK  VGKS+  N +IG+++  ++         ++   S   + + + DTPG+IE  
Sbjct: 42  ILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSRAGFTLNIIDTPGLIEGG 101

Query: 178 IH--MLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKL------PI 229
               M  +++   +    I+    V  +DA     R+D + +       D          
Sbjct: 102 YINDMALNIIKSFLLDKTIDVLLYVDRLDAY----RVDNLDKLVAKAITDSFGKGIWNKA 157

Query: 230 LLVLNKKDLIKPGEI 244
           ++ L       P  +
Sbjct: 158 IVALTHAQFSPPDGL 172

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii} Length = 357

 Score = 60.2 bits (146), Expect = 8e-11
 Identities = 39/133 (29%), Positives = 64/133 (48%), Gaps = 6/133 (4%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
           V + G PNVGKSTL   +   K  I  + P TTR   +G      ++  + DTPG++++ 
Sbjct: 170 VVIAGHPNVGKSTLLKALTTAKPEI-ASYPFTTRGINVGQFEDGYFRYQIIDTPGLLDRP 228

Query: 178 IHMLDSMMMKNVRSAGINADCIVVLVDA---CKAP-ERIDEILEEGVGDHKDKLPILLVL 233
           I   + +  + + +     + I+ + D    C  P E    + EE  G+ KD  P L+V+
Sbjct: 229 ISERNEIEKQAILALRYLGNLIIYIFDPSEHCGFPLEEQIHLFEEVHGEFKDL-PFLVVI 287

Query: 234 NKKDLIKPGEIAK 246
           NK D+     I +
Sbjct: 288 NKIDVADEENIKR 300

>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 Length = 282

 Score = 58.5 bits (142), Expect = 3e-10
 Identities = 21/61 (34%), Positives = 33/61 (54%), Gaps = 3/61 (4%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
             ++G PNVGKSTL N++  + ++   ++P  T      +  G E  + L DTPGI+  K
Sbjct: 123 ALIIGIPNVGKSTLINRLAKKNIAKTGDRPGITTS-QQWVKVGKE--LELLDTPGILWPK 179

Query: 178 I 178
            
Sbjct: 180 F 180

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A* Length = 262

 Score = 56.5 bits (137), Expect = 8e-10
 Identities = 26/110 (23%), Positives = 43/110 (39%), Gaps = 12/110 (10%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
           V ++G PN GKST+ N++ G++ S V  +P  T+  I          + + DTPGI+ K 
Sbjct: 102 VLIVGVPNTGKSTIINKLKGKRASSVGAQPGITKG-IQWFSLEN--GVKILDTPGILYKN 158

Query: 178 IHMLDSMMM---------KNVRSAGINADCIVVLVDACKAPERIDEILEE 218
           I   D             + +    I      +   +        E  E+
Sbjct: 159 IFSEDLAAKLLLVGSLPVERIEDQRIFERAFEIFARSIGIESSFSEFFED 208

>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 Length = 260

 Score = 52.0 bits (124), Expect = 3e-08
 Identities = 24/142 (16%), Positives = 54/142 (38%), Gaps = 15/142 (10%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQT-TRHRILGICSGPEYQMILYDTPGIIEK 176
           + ++GK   GKS   N ++ ++        QT T+       S    ++++ DTP +   
Sbjct: 25  IILVGKTGTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSWGNREIVIIDTPDMFSW 84

Query: 177 KIHM--LDSMMMKNVRSAGINADCIVVLVDACK-------APERIDEILEEGVGDHKDKL 227
           K H   L   + +    +      ++++    +       A +R+ EI  E    H    
Sbjct: 85  KDHCEALYKEVQRCYLLSAPGPHVLLLVTQLGRYTSQDQQAAQRVKEIFGEDAMGH---- 140

Query: 228 PILLVLNKKDLIKPGEIAKKLE 249
             +++   K+ +  G +   + 
Sbjct: 141 -TIVLFTHKEDLNGGSLMDYMH 161

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A Length = 195

 Score = 51.0 bits (123), Expect = 4e-08
 Identities = 37/147 (25%), Positives = 60/147 (40%), Gaps = 27/147 (18%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRH----RILGICSGPEYQMILYDTPG- 172
           VA +G+ NVGKS+L N +  +K++ V+  P  TR      +         +    D PG 
Sbjct: 26  VAFVGRSNVGKSSLLNALFNRKIAFVSKTPGKTRSINFYLV-------NSKYYFVDLPGY 78

Query: 173 --------IIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHK 224
                          +++       R    +   + +LVD    P+  D ++ E +    
Sbjct: 79  GYAKVSKKERMLWKRLVEDYFKN--RW---SLQMVFLLVDGRIPPQDSDLMMVEWMKSL- 132

Query: 225 DKLPILLVLNKKDLIKPGEIAKKLEVT 251
             +P  +VL K D +K  E AKKLE  
Sbjct: 133 -NIPFTIVLTKMDKVKMSERAKKLEEH 158

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A* Length = 198

 Score = 50.1 bits (120), Expect = 7e-08
 Identities = 28/155 (18%), Positives = 56/155 (36%), Gaps = 31/155 (20%)

Query: 118 VAVLGKPNVGKSTL--------ANQMIGQKLSIVTNKPQT----TRHRILGICSGPEYQM 165
           +   G    GK+T              G+ +S+ T   +T         +G   G + + 
Sbjct: 17  IVYYGPGLSGKTTNLKWIYSKVPEGRKGEMVSLATEDERTLFFDFLPLDIGEVKGFKTRF 76

Query: 166 ILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDAC-----KAPERIDEILE--E 218
            LY  PG  +   +    ++++         D IV + D+         E +  + E   
Sbjct: 77  HLYTVPG--QVFYNASRKLILRG-------VDGIVFVADSAPNRLRANAESMRNMRENLA 127

Query: 219 GVGDHKDKLPILLVLNKKDL---IKPGEIAKKLEV 250
             G   D +PI++ +NK+DL   +    +   ++ 
Sbjct: 128 EYGLTLDDVPIVIQVNKRDLPDALPVEMVRAVVDP 162

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus} Length = 369

 Score = 50.7 bits (121), Expect = 1e-07
 Identities = 27/87 (31%), Positives = 39/87 (44%), Gaps = 10/87 (11%)

Query: 110 HPNHKSGYVAVLGKPNVGKSTLANQMIGQ-----KLSIVTNKPQTTRHRILGICSGPEYQ 164
           +   + G V V+G  NVGKST  N++I +      +   +  P TT   I          
Sbjct: 157 NRYREGGDVYVVGCTNVGKSTFINRIIEEATGKGNVITTSYFPGTTLDMIEIPLES---G 213

Query: 165 MILYDTPGIIEKK--IHMLDSMMMKNV 189
             LYDTPGII      H +D+  +K +
Sbjct: 214 ATLYDTPGIINHHQMAHFVDARDLKII 240

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A* Length = 165

 Score = 48.6 bits (117), Expect = 2e-07
 Identities = 41/138 (29%), Positives = 59/138 (42%), Gaps = 36/138 (26%)

Query: 118 VAVLGKPNVGKSTLANQMIG--QKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGI-- 173
           +A++G PNVGKST+ N + G       + N P  T  +  G       +  + D PG+  
Sbjct: 6   IALIGNPNVGKSTIFNALTGENVY---IGNWPGVTVEKKEGEFEYNGEKFKVVDLPGVYS 62

Query: 174 -----IEKKIHMLDSMMMKNVRSAGIN--ADCIVVLVDACKAPER----IDEILEEGVGD 222
                I++ I           R   IN   D +V +VDA  A ER      +++E G   
Sbjct: 63  LTANSIDEII----------ARDYIINEKPDLVVNIVDAT-ALERNLYLTLQLMEMGA-- 109

Query: 223 HKDKLPILLVLNKKDLIK 240
                 +LL LNK DL K
Sbjct: 110 -----NLLLALNKMDLAK 122

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii} Length = 188

 Score = 49.1 bits (118), Expect = 2e-07
 Identities = 43/143 (30%), Positives = 64/143 (44%), Gaps = 32/143 (22%)

Query: 111 PNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDT 170
            + KS  +A++G PNVGKST+ N + G+ +  + N P  T  +  G       +  + D 
Sbjct: 3   SHMKSYEIALIGNPNVGKSTIFNALTGENVY-IGNWPGVTVEKKEGEFEYNGEKFKVVDL 61

Query: 171 PGI-------IEKKIHMLDSMMMKNVRSAGIN--ADCIVVLVDACKAPER----IDEILE 217
           PG+       I++ I           R   IN   D +V +VDA  A ER      +++E
Sbjct: 62  PGVYSLTANSIDEII----------ARDYIINEKPDLVVNIVDAT-ALERNLYLTLQLME 110

Query: 218 EGVGDHKDKLPILLVLNKKDLIK 240
            G         +LL LNK DL K
Sbjct: 111 MGA-------NLLLALNKMDLAK 126

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis} Length = 223

 Score = 48.5 bits (116), Expect = 4e-07
 Identities = 34/145 (23%), Positives = 53/145 (36%), Gaps = 18/145 (12%)

Query: 118 VAVLGKPNVGKSTLANQMIGQK-LSIVTNKPQTTRHRIL-GICSGPEYQMILYDTPG--- 172
           +A  G+ N GKST  N +  QK L+  +  P  T+H     +    E    L D PG   
Sbjct: 32  IAFAGRSNAGKSTAINVLCNQKRLAFASKTPGRTQHINYFSVGPAAEPVAHLVDLPGYGY 91

Query: 173 ------IIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDK 226
                        +L S +    R        +++++DA +    +D  + E        
Sbjct: 92  AEVPGAAKAHWEQLLSSYLQT--RP---QLCGMILMMDARRPLTELDRRMIEWFAPT--G 144

Query: 227 LPILLVLNKKDLIKPGEIAKKLEVT 251
            PI  +L K D +   E    L  T
Sbjct: 145 KPIHSLLTKCDKLTRQESINALRAT 169

>3a1s_A Iron(II) transport protein B; FEOB, iron transporter, small GTPase, G protein, GDI; HET: GDP; 1.50A {Thermotoga maritima} PDB: 3a1t_A* 3a1u_A* 3a1v_A* 3a1w_A Length = 258

 Score = 48.8 bits (117), Expect = 4e-07
 Identities = 38/136 (27%), Positives = 59/136 (43%), Gaps = 32/136 (23%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGI---- 173
           VA+ G PNVGK++L N + G K   V N P  T  +  G+ +   Y + L D PG     
Sbjct: 8   VALAGCPNVGKTSLFNALTGTKQY-VANWPGVTVEKKEGVFTYKGYTINLIDLPGTYSLG 66

Query: 174 ---IEKKIHMLDSMMMKNVRSAGIN--ADCIVVLVDACKAPER----IDEILEEGVGDHK 224
              I++KI           R   +   AD ++++ D+   PE+    + EILE       
Sbjct: 67  YSSIDEKI----------ARDYLLKGDADLVILVADSV-NPEQSLYLLLEILEMEK---- 111

Query: 225 DKLPILLVLNKKDLIK 240
               ++L +   D  K
Sbjct: 112 ---KVILAMTAIDEAK 124

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 218

 Score = 48.2 bits (115), Expect = 4e-07
 Identities = 26/149 (17%), Positives = 56/149 (37%), Gaps = 24/149 (16%)

Query: 113 HKSGYVAVLGKPNVGKSTLANQMIGQKLS--IVTNKPQTTRHRILGICSGPEYQMILYDT 170
                + + G  N GK++L   +    +   +V+ +P +          G    ++  D 
Sbjct: 10  SYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAADY-----DGSGVTLV--DF 62

Query: 171 PGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDE-------ILEEGVGDH 223
           PG    K+      +   +++       ++ +VD+   P+++         IL       
Sbjct: 63  PG--HVKLR---YKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSC 117

Query: 224 KDKLPILLVLNKKDL---IKPGEIAKKLE 249
           ++ + IL+  NK +L     P +I   LE
Sbjct: 118 ENGIDILIACNKSELFTARPPSKIKDALE 146

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae} Length = 193

 Score = 47.8 bits (114), Expect = 5e-07
 Identities = 25/147 (17%), Positives = 51/147 (34%), Gaps = 30/147 (20%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKL-----SIVTNKPQTTRHRILGICSGPEYQMILYDTPG 172
           + + G  N GK++L   +    +     S                  G    ++  D PG
Sbjct: 51  IIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAADYD--------GSGVTLV--DFPG 100

Query: 173 IIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDE-------ILEEGVGDHKD 225
               K+      +   +++       ++ +VD+   P+++         IL       ++
Sbjct: 101 --HVKLR---YKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCEN 155

Query: 226 KLPILLVLNKKDL---IKPGEIAKKLE 249
            + IL+  NK +L     P +I   LE
Sbjct: 156 GIDILIACNKSELFTARPPSKIKDALE 182

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus} Length = 271

 Score = 48.1 bits (115), Expect = 6e-07
 Identities = 44/136 (32%), Positives = 64/136 (47%), Gaps = 31/136 (22%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGI---- 173
           VA++G PNVGK+T+ N + G +   V N P  T  +  GI    E + ++ D PGI    
Sbjct: 6   VALVGNPNVGKTTIFNALTGLRQH-VGNWPGVTVEKKEGIMEYREKEFLVVDLPGIYSLT 64

Query: 174 ---IEKKIHMLDSMMMKNVRSAGIN--ADCIVVLVDACKAPER----IDEILEEGVGDHK 224
              I++ I           R+  ++  AD IV +VD+     R      E+ E  V    
Sbjct: 65  AHSIDELI----------ARNFILDGNADVIVDIVDST-CLMRNLFLTLELFEMEVK--- 110

Query: 225 DKLPILLVLNKKDLIK 240
               I+LVLNK DL+K
Sbjct: 111 ---NIILVLNKFDLLK 123

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str} Length = 368

 Score = 48.0 bits (114), Expect = 9e-07
 Identities = 26/85 (30%), Positives = 39/85 (45%), Gaps = 13/85 (15%)

Query: 114 KSGYVAVLGKPNVGKSTLANQMIGQ------KLSIVTNKPQTTRHRI-LGICSGPEYQMI 166
               V V+G  NVGKST  N+MI +       +   ++ P TT   I + +    + +  
Sbjct: 159 GGKDVYVVGCTNVGKSTFINRMIKEFSDETENVITTSHFPGTTLDLIDIPL----DEESS 214

Query: 167 LYDTPGIIEKK--IHMLDSMMMKNV 189
           LYDTPGII      H +    +K +
Sbjct: 215 LYDTPGIINHHQMAHYVGKQSLKLI 239

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str} Length = 368

 Score = 40.0 bits (93), Expect = 5e-04
 Identities = 16/64 (25%), Positives = 27/64 (42%), Gaps = 4/64 (6%)

Query: 186 MKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIA 245
           ++ +   G +   +V +VD           L   VG++     +LLV NK DLI      
Sbjct: 60  LRILNGIGKSDALVVKIVDIFDFNGSWLPGLHRFVGNN----KVLLVGNKADLIPKSVKH 115

Query: 246 KKLE 249
            K++
Sbjct: 116 DKVK 119

>2qtf_A Protein HFLX, GTP-binding protein; beta-alpha-barrels, nucleotide-binding, nucleotide binding protein; 2.00A {Sulfolobus solfataricus P2} PDB: 2qth_A* 3kxi_A* 3kxl_A 3kxk_A Length = 364

 Score = 46.5 bits (111), Expect = 3e-06
 Identities = 33/146 (22%), Positives = 54/146 (36%), Gaps = 32/146 (21%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNK------PQTTRHRILGICSGPEYQMILYDTP 171
           + ++G  N GK++L N + G     V  K      P       +        +++L DT 
Sbjct: 182 IGIVGYTNSGKTSLFNSLTGLTQ-KVDTKLFTTMSP-KRYAIPI-----NNRKIMLVDTV 234

Query: 172 GIIEKKIHMLDSMMMKNVRSA---GINADCIVVLVDAC----KAPERID---EILEE-GV 220
           G I      +    +            +D +++++D+        E +    EIL E GV
Sbjct: 235 GFIRGIPPQI----VDAFFVTLSEAKYSDALILVIDSTFSENLLIETLQSSFEILREIGV 290

Query: 221 GDHKDKLPILLVLNKKDLIKPGEIAK 246
                  PIL+ LNK D I      K
Sbjct: 291 SG----KPILVTLNKIDKINGDLYKK 312

>3i8s_A Ferrous iron transport protein B; GTPase, GPCR, iron uptake, FEO, cell inner membrane, cell ME GTP-binding, ION transport, membrane; 1.80A {Escherichia coli} PDB: 3i8x_A* 3i92_A* 3hyr_A 3hyt_A* 2wic_A* 2wib_A* 2wia_A* Length = 274

 Score = 46.2 bits (110), Expect = 4e-06
 Identities = 39/133 (29%), Positives = 62/133 (46%), Gaps = 22/133 (16%)

Query: 118 VAVLGKPNVGKSTLANQMIG--QKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGI-- 173
           + ++G PN GK+TL NQ+ G  Q+   V N    T  R  G  S  ++Q+ L D PG   
Sbjct: 6   IGLIGNPNSGKTTLFNQLTGSRQR---VGNWAGVTVERKEGQFSTTDHQVTLVDLPGTYS 62

Query: 174 --IEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPER----IDEILEEGVGDHKDKL 227
                    LD  +  +   +G +AD ++ +VDA    ER      ++LE G+       
Sbjct: 63  LTTISSQTSLDEQIACHYILSG-DADLLINVVDAS-NLERNLYLTLQLLELGI------- 113

Query: 228 PILLVLNKKDLIK 240
           P ++ LN  D+ +
Sbjct: 114 PCIVALNMLDIAE 126

>1udx_A The GTP-binding protein OBG; TGS domain, riken structural genomics/proteomics initiative, RSGI, structural genomics; 2.07A {Thermus thermophilus} SCOP: b.117.1.1 c.37.1.8 d.242.1.1 Length = 416

 Score = 46.0 bits (110), Expect = 4e-06
 Identities = 39/154 (25%), Positives = 63/154 (40%), Gaps = 49/154 (31%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTN-KPQ------TTRHRILGICSGPEYQ-MILYD 169
           V ++G PN GKS+L        L+ +T   P+      TT    LG+    E +   L D
Sbjct: 160 VGLVGYPNAGKSSL--------LAAMTRAHPKIAPYPFTTLSPNLGVVEVSEEERFTLAD 211

Query: 170 TPGIIE-------------KKIHMLDSMMMKNVRSAGINADCIVVLVDACKAP-ERIDEI 215
            PGIIE             + I           R+       ++ ++DA   P + ++ +
Sbjct: 212 IPGIIEGASEGKGLGLEFLRHIA----------RTR-----VLLYVLDAADEPLKTLETL 256

Query: 216 LEEGVGDHKDKL---PILLVLNKKDLIKPGEIAK 246
            +E VG +   L   P L+ LNK DL++   +  
Sbjct: 257 RKE-VGAYDPALLRRPSLVALNKVDLLEEEAVKA 289

>3b1v_A Ferrous iron uptake transporter protein B; G protein, iron transport, GTPase, transmembrane, potassium; HET: GGM; 1.85A {Streptococcus thermophilus} PDB: 3b1w_A* 3lx5_A* 3lx8_A* 3ss8_A* 3b1z_A 3b1y_A* 3b1x_A* 3tah_A* Length = 272

 Score = 45.8 bits (109), Expect = 5e-06
 Identities = 36/136 (26%), Positives = 58/136 (42%), Gaps = 33/136 (24%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGI---- 173
           +A++G PN GK++L N + G     V N P  T  R  G+       + + D PGI    
Sbjct: 6   IALIGNPNSGKTSLFNLITGHNQR-VGNWPGVTVERKSGLVKK-NKDLEIQDLPGIYSMS 63

Query: 174 ---IEKKIHMLDSMMMKNVRSAGIN--ADCIVVLVDACKAPER----IDEILEEGVGDHK 224
               E K+           R   ++  AD I+ +VDA    ER      +++E G+    
Sbjct: 64  PYSPEAKV----------ARDYLLSQRADSILNVVDAT-NLERNLYLTTQLIETGI---- 108

Query: 225 DKLPILLVLNKKDLIK 240
              P+ + LN  D++ 
Sbjct: 109 ---PVTIALNMIDVLD 121

>3iby_A Ferrous iron transport protein B; G protein, G domain, iron uptake, cell inner membrane, cell GTP-binding, ION transport, membrane; 2.50A {Legionella pneumophila} Length = 256

 Score = 45.0 bits (107), Expect = 7e-06
 Identities = 33/140 (23%), Positives = 57/140 (40%), Gaps = 36/140 (25%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGI---- 173
             ++G PN GK+TL N +       V N P  T  +  G     E+ + + D PG+    
Sbjct: 4   ALLIGNPNCGKTTLFNALTNANQR-VGNWPGVTVEKKTGEFLLGEHLIEITDLPGVYSLV 62

Query: 174 -------IEKKIHMLDSMMMKNVRSAGIN--ADCIVVLVDACKAPER----IDEILEEGV 220
                   +++I             + I+   DCI+ ++DAC   ER      ++ E G 
Sbjct: 63  ANAEGISQDEQI----------AAQSVIDLEYDCIINVIDAC-HLERHLYLTSQLFELGK 111

Query: 221 GDHKDKLPILLVLNKKDLIK 240
                  P+++ LN  D+ +
Sbjct: 112 -------PVVVALNMMDIAE 124

>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 Length = 210

 Score = 44.5 bits (106), Expect = 8e-06
 Identities = 34/148 (22%), Positives = 57/148 (38%), Gaps = 28/148 (18%)

Query: 118 VAVLGKPNVGKSTLANQMIGQK-LSIVTNKPQTTRH----RILGICSGPEYQMILYDTPG 172
           VA  G+ N GKS+  N +  QK L+  +  P  T+      +            L D PG
Sbjct: 29  VAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEV-------ADGKRLVDLPG 81

Query: 173 ---------IIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDH 223
                    +  K    L   + K  R    +   +VVL+D     + +D+ + E   D 
Sbjct: 82  YGYAEVPEEMKRKWQRALGEYLEK--RQ---SLQGLVVLMDIRHPLKDLDQQMIEWAVDS 136

Query: 224 KDKLPILLVLNKKDLIKPGEIAKKLEVT 251
              + +L++L K D +  G    +L + 
Sbjct: 137 --NIAVLVLLTKADKLASGARKAQLNMV 162

>1lnz_A SPO0B-associated GTP-binding protein; GTPase, OBG, stringent factor, stress response, sporulation, large G-protein, structural genomics, PSI; HET: G4P; 2.60A {Bacillus subtilis} SCOP: b.117.1.1 c.37.1.8 Length = 342

 Score = 44.9 bits (107), Expect = 9e-06
 Identities = 38/161 (23%), Positives = 66/161 (40%), Gaps = 53/161 (32%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTN-KPQ------TTRHRILGICSGPEYQ-MILYD 169
           V ++G P+VGKSTL        LS+V++ KP+      TT    LG+    + +  ++ D
Sbjct: 161 VGLVGFPSVGKSTL--------LSVVSSAKPKIADYHFTTLVPNLGMVETDDGRSFVMAD 212

Query: 170 TPGIIE-------------KKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPER----- 211
            PG+IE             + I           R+       IV ++D      R     
Sbjct: 213 LPGLIEGAHQGVGLGHQFLRHIE----------RTR-----VIVHVIDMSGLEGRDPYDD 257

Query: 212 IDEILEEGVGDHKDKL---PILLVLNKKDLIKPGEIAKKLE 249
              I +E + ++  +L   P ++V NK D+ +  E  +  +
Sbjct: 258 YLTINQE-LSEYNLRLTERPQIIVANKMDMPEAAENLEAFK 297

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 44.8 bits (105), Expect = 2e-05
 Identities = 32/208 (15%), Positives = 71/208 (34%), Gaps = 44/208 (21%)

Query: 60  LWSNQREMDLDDGDEME---------FDDASSFLSLSEKPDRNMASPDDY-EIEEFDYAS 109
           L S  +                    ++D   F         N++    Y ++ +     
Sbjct: 94  LMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVF------AKYNVSRLQPYLKLRQALLEL 147

Query: 110 HPNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRI----LGICSGPEYQM 165
            P      V + G    GK+ +A  +      +          +I    L  C+ PE  +
Sbjct: 148 RPA---KNVLIDGVLGSGKTWVALDVC-LSYKVQCKMD----FKIFWLNLKNCNSPETVL 199

Query: 166 ILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKD 225
                  +++K ++ +D     N  S   ++  I + + + +    +  +L+     +++
Sbjct: 200 E------MLQKLLYQID----PNWTSRSDHSSNIKLRIHSIQ--AELRRLLKS--KPYEN 245

Query: 226 KLPILL-VLNKKDLIKPGEIAKKLEVTT 252
            L +LL V N K       ++ K+ +TT
Sbjct: 246 CLLVLLNVQNAK-AWNAFNLSCKILLTT 272

>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* Length = 195

 Score = 42.9 bits (102), Expect = 2e-05
 Identities = 35/148 (23%), Positives = 63/148 (42%), Gaps = 28/148 (18%)

Query: 118 VAVLGKPNVGKSTLANQMIGQK-LSIVTNKPQTTRH----RILGICSGPEYQMILYDTPG 172
           +A+ G+ NVGKS+  N +I +K L+  ++KP  T+      I         ++   D PG
Sbjct: 26  IALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYII-------NDELHFVDVPG 78

Query: 173 ---------IIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDH 223
                      E    M+++ +    R        +V +VD   AP   D  + E +  +
Sbjct: 79  YGFAKVSKSEREAWGRMIETYITT--RE---ELKAVVQIVDLRHAPSNDDVQMYEFLKYY 133

Query: 224 KDKLPILLVLNKKDLIKPGEIAKKLEVT 251
              +P++++  K D I  G+  K  +V 
Sbjct: 134 --GIPVIVIATKADKIPKGKWDKHAKVV 159

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus} Length = 550

 Score = 41.7 bits (97), Expect = 1e-04
 Identities = 34/174 (19%), Positives = 61/174 (35%), Gaps = 48/174 (27%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQ------------- 164
           V V G+ + GK++    ++ Q++      P+ T    + +  G                 
Sbjct: 68  VLVAGQYSTGKTSFIQYLLEQEVPGSRVGPEPTTDCFVAVMHGETEGTVPGNALVVDPEK 127

Query: 165 ----------------------------MILYDTPGIIEKKIHMLDSM--MMKNVRSAGI 194
                                       + + DTPGI+      +         +R    
Sbjct: 128 PFRKLNPFGNTFLNRFMCAQLPNQVLESISIIDTPGILSGAKQRVSRGYDFPAVLRWFAE 187

Query: 195 NADCIVVLVDACKAPERIDEILE--EGVGDHKDKLPILLVLNKKDLIKPGEIAK 246
             D I++L DA K  E  DE  E    +  H+DK  I +VLNK D+++  ++ +
Sbjct: 188 RVDLIILLFDAHK-LEISDEFSEAIGALRGHEDK--IRVVLNKADMVETQQLMR 238

>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* Length = 262

 Score = 40.4 bits (94), Expect = 2e-04
 Identities = 18/92 (19%), Positives = 31/92 (33%), Gaps = 7/92 (7%)

Query: 161 PEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDA--CKAPER-IDEILE 217
            E   +L DTPG +E  +          +    +    +V + D    K P         
Sbjct: 107 KENDYVLIDTPGQMETFLF---HEFGVRLMEN-LPYPLVVYISDPEILKKPNDYCFVRFF 162

Query: 218 EGVGDHKDKLPILLVLNKKDLIKPGEIAKKLE 249
             + D +     +  LNK DL+   E  +  +
Sbjct: 163 ALLIDLRLGATTIPALNKVDLLSEEEKERHRK 194

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2 Length = 214

 Score = 39.3 bits (92), Expect = 5e-04
 Identities = 26/146 (17%), Positives = 55/146 (37%), Gaps = 28/146 (19%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKL-----SIVTNKPQTTRHRILGICSGPEYQMILYDTPG 172
           V  +G  + GK+ L  +++  +      SI  +      +   G        + L D PG
Sbjct: 10  VLFVGLCDSGKTLLFVRLLTGQYRDTQTSITDSSAIYKVNNNRGN------SLTLIDLPG 63

Query: 173 IIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEE------GVGDHKDK 226
              + +      ++   +S   +A  +V +VD+      + ++ E            K+ 
Sbjct: 64  --HESLR---FQLLDRFKS---SARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNS 115

Query: 227 LPILLVLNKKDL---IKPGEIAKKLE 249
             +L+  NK+D+        I ++LE
Sbjct: 116 PSLLIACNKQDIAMAKSAKLIQQQLE 141

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	254
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	99.85
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	99.82
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	99.81
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	99.8
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	99.8
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	99.79
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.78
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	99.78
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	99.77
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	99.77
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	99.77
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	99.77
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	99.76
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	99.76
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.76
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	99.76
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	99.75
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	99.75
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	99.75
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	99.75
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.75
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	99.75
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	99.74
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	99.74
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	99.74
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	99.74
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	99.74
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	99.74
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	99.74
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	99.74
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	99.74
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	99.74
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	99.74
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	99.74
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	99.73
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	99.73
2fh5_B	214	SR-beta, signal recognition particle receptor beta	99.73
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	99.73
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	99.73
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	99.73
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	99.73
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	99.73
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	99.73
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	99.73
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	99.73
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	99.73
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	99.73
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	99.73
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	99.73
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	99.73
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	99.73
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	99.73
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	99.73
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	99.73
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	99.73
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	99.72
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	99.72
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	99.72
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	99.72
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	99.72
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	99.72
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	99.72
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	99.72
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	99.72
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	99.72
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	99.72
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	99.72
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	99.72
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	99.72
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	99.71
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	99.71
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	99.71
3llu_A	196	RAS-related GTP-binding protein C; structural geno	99.71
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	99.71
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	99.71
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	99.71
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	99.71
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	99.71
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	99.71
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	99.71
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	99.71
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	99.71
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.7
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	99.7
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	99.7
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	99.7
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	99.7
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	99.7
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	99.7
2wji_A	165	Ferrous iron transport protein B homolog; membrane	99.7
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	99.7
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	99.7
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	99.7
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	99.7
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	99.7
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	99.7
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	99.7
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	99.7
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	99.7
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	99.7
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.7
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	99.7
1nrj_B	218	SR-beta, signal recognition particle receptor beta	99.69
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	99.69
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	99.69
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	99.69
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	99.69
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	99.69
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	99.69
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	99.69
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	99.69
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	99.69
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	99.69
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	99.69
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	99.69
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	99.69
2ged_A	193	SR-beta, signal recognition particle receptor beta	99.68
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	99.68
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	99.68
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	99.68
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	99.67
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	99.67
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	99.67
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	99.67
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	99.66
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	99.66
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	99.66
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.66
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	99.66
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	99.66
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	99.65
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	99.64
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	99.63
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	99.63
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.63
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	99.63
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	99.62
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	99.62
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	99.61
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	99.61
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	99.61
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	99.6
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.39
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	99.6
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	99.59
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	99.59
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	99.59
1wb1_A	482	Translation elongation factor SELB; selenocysteine	99.57
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	99.56
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	99.56
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	99.54
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	99.54
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	99.54
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	99.54
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	99.54
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	99.52
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	99.51
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	99.51
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	99.51
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	99.5
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	99.5
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	99.49
1wxq_A	397	GTP-binding protein; structural genomics, riken st	99.49
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	99.49
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	99.48
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	99.48
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	99.48
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	99.48
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	99.47
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	99.47
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	99.45
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	99.44
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	99.44
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	99.44
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	99.43
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	99.42
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	99.42
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	99.41
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	99.38
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	99.37
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	99.37
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	99.35
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	99.34
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	99.34
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	99.32
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	99.31
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	99.3
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	99.3
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	99.24
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	99.24
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	99.22
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	99.21
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	99.2
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	99.2
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	99.2
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	99.18
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	99.15
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	99.15
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	99.09
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	99.08
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	99.08
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	99.02
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	99.01
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	98.97
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	98.96
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	98.94
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	98.93
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	98.92
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.74
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	98.73
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	98.6
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	98.48
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	98.48
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.47
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	98.45
2hf9_A	226	Probable hydrogenase nickel incorporation protein	98.44
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	98.35
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	98.35
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	98.34
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	98.34
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	98.26
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	98.09
3q5d_A	447	Atlastin-1; G protein, GTPase, GDP/GTP binding, hy	97.87
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	97.85
2xxa_A	433	Signal recognition particle protein; protein trans	97.81
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	97.65
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	97.57
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	97.55
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	97.54
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	97.46
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	97.44
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	97.27
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	97.24
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	97.2
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	97.18
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	97.13
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	97.08
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	97.07
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	96.99
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	96.91
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	96.89
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	96.8
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	96.76
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	96.68
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	96.68
4ido_A	457	Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HE	96.67
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	96.62
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	96.62
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	96.61
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	96.56
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	96.56
3end_A	307	Light-independent protochlorophyllide reductase ir	96.47
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	96.43
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	96.42
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.34
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	96.33
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	96.32
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	96.32
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	96.3
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	96.28
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	96.27
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	96.22
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	96.19
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	96.18
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	96.13
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	96.12
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	96.04
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	95.99
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	95.97
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	95.97
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	95.94
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	95.94
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	95.91
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	95.88
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	95.88
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	95.86
1b0u_A	262	Histidine permease; ABC transporter, transport pro	95.84
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	95.84
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	95.81
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	95.8
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	95.79
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	95.78
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	95.77
2ghi_A	260	Transport protein; multidrug resistance protein, M	95.75
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	95.75
1g6h_A	257	High-affinity branched-chain amino acid transport	95.74
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	95.74
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	95.72
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	95.72
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	95.71
2eyu_A	261	Twitching motility protein PILT; pilus retraction	95.71
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	95.69
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	95.68
1sgw_A	214	Putative ABC transporter; structural genomics, P p	95.68
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	95.67
1ji0_A	240	ABC transporter; ATP binding protein, structural g	95.64
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	95.63
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	95.61
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	95.6
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	95.6
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	95.59
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	95.58
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	95.55
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	95.54
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	95.54
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	95.52
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	95.51
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	95.51
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	95.5
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	95.48
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	95.47
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	95.46
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	95.46
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	95.43
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	95.42
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	95.42
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	95.41
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	95.4
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	95.39
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	95.38
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	95.36
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	95.34
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	95.34
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	95.32
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	95.32
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	95.31
2chg_A	226	Replication factor C small subunit; DNA-binding pr	95.3
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	95.29
4a74_A	231	DNA repair and recombination protein RADA; hydrola	95.25
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	95.25
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	95.23
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	95.23
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	95.21
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	95.2
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	95.2
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	95.19
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	95.17
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	95.16
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	95.15
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	95.14
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	95.14
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	95.14
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	95.1
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	95.09
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	95.08
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	95.08
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	95.08
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	95.07
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	95.05
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	95.04
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	95.02
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	95.01
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	95.0
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	94.99
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	94.98
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	94.97
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	94.96
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	94.95
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	94.95
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	94.94
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	94.91
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	94.91
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	94.89
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	94.89
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	94.87
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	94.86
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	94.83
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	94.82
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	94.82
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	94.81
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	94.79
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	94.79
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	94.78
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	94.77
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	94.74
2ewv_A	372	Twitching motility protein PILT; pilus retraction	94.72
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	94.71
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	94.69
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	94.65
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	94.64
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	94.64
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	94.64
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	94.64
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	94.64
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	94.64
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	94.63
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	94.62
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	94.6
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	94.59
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	94.58
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	94.58
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	94.55
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	94.53
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	94.45
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	94.45
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	94.42
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	94.38
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	94.34
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	94.34
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	94.32
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	94.31
2vli_A	183	Antibiotic resistance protein; transferase, tunica	94.29
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	94.29
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	94.28
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	94.28
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	94.27
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	94.26
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	94.25
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	94.22
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	94.18
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	94.15
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	94.14
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	94.13
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	94.13
1p9r_A	418	General secretion pathway protein E; bacterial typ	94.13
2og2_A	359	Putative signal recognition particle receptor; nuc	94.12
2cvh_A	220	DNA repair and recombination protein RADB; filamen	94.11
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	94.06
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	94.04
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	94.04
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	94.02
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	94.01
1via_A	175	Shikimate kinase; structural genomics, transferase	94.0
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	93.98
3bos_A	242	Putative DNA replication factor; P-loop containing	93.95
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	93.86
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	93.85
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	93.84
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	93.81
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	93.8
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	93.8
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	93.79
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	93.79
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	93.77
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	93.76
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	93.76
3kta_A	182	Chromosome segregation protein SMC; structural mai	93.75
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	93.72
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	93.68
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	93.67
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	93.67
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	93.67
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	93.62
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	93.61
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	93.6
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	93.56
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	93.54
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	93.51
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	93.51
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	93.44
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	93.35
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	93.29
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	93.26
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	93.24
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	93.17
3qf7_A	365	RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.	93.07
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	93.03
3k9g_A	267	PF-32 protein; ssgcid, SBRI, decode biostructures,	93.01
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	92.92
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	92.91
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	92.85
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	92.83
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	92.81
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	92.74
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	92.71
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	92.68
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	92.68
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	92.68
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	92.65
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	92.64
1tue_A	212	Replication protein E1; helicase, replication, E1E	92.53
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	92.52
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	92.51
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	92.47
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	92.41
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	92.36
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	92.35
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	92.33
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	92.21
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	92.21
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	92.17
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	92.11
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	92.08
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	92.05
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	91.99
3cwq_A	209	Para family chromosome partitioning protein; alpha	91.92
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	91.91
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	91.86
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	91.82
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	91.79
3co5_A	143	Putative two-component system transcriptional RES	91.78
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	91.76
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	91.7
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	91.62
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	91.62
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	91.57
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	91.56
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	91.54
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	91.27
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	91.26

>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=99.85  E-value=2.2e-20  Score=160.74  Aligned_cols=133  Identities=39%  Similarity=0.567  Sum_probs=107.0

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      .+..+++++|.+|+|||||+|++++.++..+++.++||+....+.....+.++.+|||||+.... ..+...+......+
T Consensus         5 ~~~g~V~ivG~~nvGKSTLln~l~g~~~~ivs~~~~tTr~~i~~i~~~~~~~l~l~DTpG~~~~~-~~l~~~~~~~~~~~   83 (301)
T 1wf3_A            5 TYSGFVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTEGRRQIVFVDTPGLHKPM-DALGEFMDQEVYEA   83 (301)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETTEEEEEEECCCCCCCC-SHHHHHHHHHHHHH
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHhCCceeeecCCCCceeEEEEEEEEeCCcEEEEecCccccchh-hHHHHHHHHHHHHH
Confidence            34568999999999999999999999988788888899887777777888999999999986543 34555566677788


Q ss_pred             ccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh-HHH
Q 025346          193 GINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE-IAK  246 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~-~~~  246 (254)
                      +..+|++++|+|+++.......++...+.....+.|+++|+||+|+...+. +.+
T Consensus        84 l~~ad~il~VvD~~~~~~~~~~~i~~~l~~~~~~~p~ilV~NK~Dl~~~~~~~~~  138 (301)
T 1wf3_A           84 LADVNAVVWVVDLRHPPTPEDELVARALKPLVGKVPILLVGNKLDAAKYPEEAMK  138 (301)
T ss_dssp             TSSCSEEEEEEETTSCCCHHHHHHHHHHGGGTTTSCEEEEEECGGGCSSHHHHHH
T ss_pred             HhcCCEEEEEEECCCCCChHHHHHHHHHHhhcCCCCEEEEEECcccCCchHHHHH
Confidence            999999999999998776666666544443334799999999999987665 433

>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=99.82  E-value=1.6e-19  Score=155.88  Aligned_cols=137  Identities=39%  Similarity=0.584  Sum_probs=105.4

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecC-CeeEEEEecCCCcccc-hhhhhHHHHHH
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGP-EYQMILYDTPGIIEKK-IHMLDSMMMKN  188 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~-~~~~~liDtpG~~~~~-~~~~~~~~~~~  188 (254)
                      +.++...|+++|.+|+|||||+|++++.++..+++.+++|+....+..... +.++.+|||||+.+.. ...+...+...
T Consensus         6 ~~~~~g~v~ivG~~nvGKSTLin~l~g~~~~i~s~~~~tT~~~~~~~~~~~~~~~i~lvDTPG~~~~~~~~~l~~~~~~~   85 (308)
T 3iev_A            6 HHMKVGYVAIVGKPNVGKSTLLNNLLGTKVSIISPKAGTTRMRVLGVKNIPNEAQIIFLDTPGIYEPKKSDVLGHSMVEI   85 (308)
T ss_dssp             -CCEEEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETTTEEEEEEECCCCCCCCTTCHHHHHHHHH
T ss_pred             CCCCCCEEEEECCCCCcHHHHHHHHhCCCccccCCCCCceeeEEEEEEecCCCCeEEEEECcCCCccccchhHHHHHHHH
Confidence            455667999999999999999999999998888899999998888888887 8999999999986543 13344555566


Q ss_pred             HHHHccCccEEEEEEeCCCCchhHHHHH-HHhhcccCCCCCEEEEEecCCCC-ChHhHHHHHH
Q 025346          189 VRSAGINADCIVVLVDACKAPERIDEIL-EEGVGDHKDKLPILLVLNKKDLI-KPGEIAKKLE  249 (254)
Q Consensus       189 ~~~~~~~~d~iv~vid~~~~~~~~~~~~-~~~~~~~~~~~piivV~nK~Dl~-~~~~~~~~~~  249 (254)
                      ...++..+|++++|+|+++......... ...+..  .+.|+++|+||+|+. +.+...+...
T Consensus        86 ~~~~l~~aD~il~VvD~~~~~~~~~~~~~~~~l~~--~~~pvilV~NK~Dl~~~~~~~~~~~~  146 (308)
T 3iev_A           86 AKQSLEEADVILFMIDATEGWRPRDEEIYQNFIKP--LNKPVIVVINKIDKIGPAKNVLPLID  146 (308)
T ss_dssp             HHHHHHHCSEEEEEEETTTBSCHHHHHHHHHHTGG--GCCCEEEEEECGGGSSSGGGGHHHHH
T ss_pred             HHHHhhcCCEEEEEEeCCCCCCchhHHHHHHHHHh--cCCCEEEEEECccCCCCHHHHHHHHH
Confidence            7778899999999999998544333322 333332  468999999999998 5555444433

>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=99.81  E-value=1.4e-21  Score=177.85  Aligned_cols=222  Identities=23%  Similarity=0.219  Sum_probs=115.0

Q ss_pred             CCccccccCCcchhhhccccccCCceeeeeeccc---ccccccch------------HHHHHHHHhhhcccccCCCCCCC
Q 025346           11 FGSLFPHYSTLTAYREIKFGFQGRSSSITCRSNE---HQSLVLSE------------KEVQQQKLWSNQREMDLDDGDEM   75 (254)
Q Consensus        11 ~~~~~p~~~~l~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~------------~~~~~~~~~~~~~~~~~~d~~~~   75 (254)
                      .|-.-|.+++.+||+|.+.|+.+......-+...   .+....+.            .+....-++.-+..++|++| +.
T Consensus       120 ~r~A~pGEFt~RAflngk~dL~qaEav~dli~a~t~~~~~~a~~~l~G~ls~~i~~lr~~L~~~~a~iea~iDf~ee-di  198 (476)
T 3gee_A          120 CRLAEPGEFTRRAFLNGRIDLLQAEAIGEMIHARTESAYRTAVSQMKGDLSVRLGGLREQLIRSCALIELELDFSEE-DV  198 (476)
T ss_dssp             CEECCTTHHHHHHHHTTSSCHHHHHHHHHHHHCCSHHHHHHHHHHHHTHHHHHHHHHHTHHHHHHHTTTTCSSCCSS-CC
T ss_pred             CeecCCcchhhhhhccCcCcHHHHHHHHHHHhCCCHHHHHHHHHhhCCcHHHHHHHHHHHHHHHHHHhheecCCCcc-cc
Confidence            4667799999999999999988754433322221   11111100            01111112223445778874 55


Q ss_pred             CccChHhhhhhccCCcCCCC-CCCchhhhhccccCCCCCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEE
Q 025346           76 EFDDASSFLSLSEKPDRNMA-SPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRI  154 (254)
Q Consensus        76 ~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~~~~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~  154 (254)
                      +...+..+..........+. ++.......      ....+.+|+++|.+|+|||||+|++++.+...+++.+++|++..
T Consensus       199 ~~~~~~~l~~~i~~l~~~l~~~~~~~~~~~------~~r~~~kV~ivG~~nvGKSSLln~L~~~~~a~vs~~~gtT~d~~  272 (476)
T 3gee_A          199 EFQSRDELTMQIETLRSEVNRLIDSYQHGR------IVSEGVSTVIAGKPNAGKSTLLNTLLGQERAIVSHMPGTTRDYI  272 (476)
T ss_dssp             SSSCHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHCEEEEEECCTTSSHHHHHHHCC------------------
T ss_pred             cchhHHHHHHHHHHHHHHHHHHHHHHHhhH------hhcCCCEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCceEEEE
Confidence            55555444443333322221 111111111      11234679999999999999999999988777889999999988


Q ss_pred             EEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchh-----HHHHHHHhhcccCCCCCE
Q 025346          155 LGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPER-----IDEILEEGVGDHKDKLPI  229 (254)
Q Consensus       155 ~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~-----~~~~~~~~~~~~~~~~pi  229 (254)
                      ...+...+..+.+|||||+.+.. ..++.........++..+|++++|+|+++....     ...++..    .. +.|+
T Consensus       273 ~~~i~~~g~~l~liDT~G~~~~~-~~ve~~gi~~~~~~~~~aD~vl~VvD~s~~~s~~~~~~~~~~l~~----l~-~~pi  346 (476)
T 3gee_A          273 EECFIHDKTMFRLTDTAGLREAG-EEIEHEGIRRSRMKMAEADLILYLLDLGTERLDDELTEIRELKAA----HP-AAKF  346 (476)
T ss_dssp             CEEEEETTEEEEEEC---------------------CCCSSCSEEEEEEETTTCSSGGGHHHHHHHHHH----CT-TSEE
T ss_pred             EEEEEECCeEEEEEECCCCCcch-hHHHHHHHHHHHhhcccCCEEEEEEECCCCcchhhhHHHHHHHHh----cC-CCCE
Confidence            88888889999999999975421 222333334455678999999999999985432     2223222    22 6899


Q ss_pred             EEEEecCCCCChHhHH
Q 025346          230 LLVLNKKDLIKPGEIA  245 (254)
Q Consensus       230 ivV~nK~Dl~~~~~~~  245 (254)
                      ++|+||+|+.......
T Consensus       347 IvV~NK~Dl~~~~~~~  362 (476)
T 3gee_A          347 LTVANKLDRAANADAL  362 (476)
T ss_dssp             EEEEECTTSCTTTHHH
T ss_pred             EEEEECcCCCCccchh
Confidence            9999999998776553

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=99.80  E-value=7.5e-19  Score=143.86  Aligned_cols=135  Identities=22%  Similarity=0.231  Sum_probs=97.2

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCc-cccccCCCCceEEEEEEEEe-cCCeeEEEEecCCCcccchhhh-hH---HH
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQK-LSIVTNKPQTTRHRILGICS-GPEYQMILYDTPGIIEKKIHML-DS---MM  185 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~-~~~~~~~~~tt~~~~~~~~~-~~~~~~~liDtpG~~~~~~~~~-~~---~~  185 (254)
                      ....++|+++|.+|+|||||+|++++.. ...+...+++|......... ..+..+.+|||||+........ ..   ..
T Consensus        26 ~~~~~~i~v~G~~~~GKSslin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~~~~  105 (223)
T 4dhe_A           26 PTVQPEIAFAGRSNAGKSTAINVLCNQKRLAFASKTPGRTQHINYFSVGPAAEPVAHLVDLPGYGYAEVPGAAKAHWEQL  105 (223)
T ss_dssp             CCCSCEEEEEESCHHHHHHHHHHHTTCSSSSCTTCCCCSCCCEEEEEESCTTSCSEEEEECCCCCSSCCCSTHHHHHHHH
T ss_pred             CCCCCEEEEEcCCCCCHHHHHHHHhCCCcceeecCCCCcccceEEEEecCCCCCcEEEEcCCCCCcccCChhhHHHHHHH
Confidence            3456799999999999999999999987 45677888888876655555 6678999999999765321111 11   12


Q ss_pred             HHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHHHH
Q 025346          186 MKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKL  248 (254)
Q Consensus       186 ~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~~~  248 (254)
                      ...+......+|++++|+|++++.......+...+..  .+.|+++|+||+|+...+++....
T Consensus       106 ~~~~~~~~~~~d~vi~v~d~~~~~~~~~~~~~~~l~~--~~~p~i~v~nK~Dl~~~~~~~~~~  166 (223)
T 4dhe_A          106 LSSYLQTRPQLCGMILMMDARRPLTELDRRMIEWFAP--TGKPIHSLLTKCDKLTRQESINAL  166 (223)
T ss_dssp             HHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHGG--GCCCEEEEEECGGGSCHHHHHHHH
T ss_pred             HHHHHhcCcCcCEEEEEEeCCCCCCHHHHHHHHHHHh--cCCCEEEEEeccccCChhhHHHHH
Confidence            2233334556899999999998766555544444443  568999999999999877654433

>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=99.80  E-value=1.3e-18  Score=143.35  Aligned_cols=132  Identities=18%  Similarity=0.249  Sum_probs=89.0

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHH
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVR  190 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~  190 (254)
                      ......+|+++|.+|+|||||+|++++..+. +...+++|...........+..+.+|||||+.+.............+.
T Consensus        25 ~~~~~~kI~vvG~~~vGKSsLin~l~~~~~~-~~~~~~~t~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~~~~~  103 (228)
T 2qu8_A           25 INPHKKTIILSGAPNVGKSSFMNIVSRANVD-VQSYSFTTKNLYVGHFDHKLNKYQIIDTPGLLDRAFENRNTIEMTTIT  103 (228)
T ss_dssp             CCTTSEEEEEECSTTSSHHHHHHHHTTTCEE-EECC-----CEEEEEEEETTEEEEEEECTTTTTSCGGGCCHHHHHHHH
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHhCCCCc-cCCCCCcceeeeeeeeecCCCeEEEEECCCCcCcccchhhhHHHHHHH
Confidence            3456789999999999999999999998876 667778888777777777788999999999754332222222123334


Q ss_pred             HHccCccEEEEEEeCCCCc--h--hHHHHHHHhhcccCCCCCEEEEEecCCCCChHhH
Q 025346          191 SAGINADCIVVLVDACKAP--E--RIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEI  244 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~~~~--~--~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~  244 (254)
                      .+...+|++++|+|+++..  .  ....++..+.. ...+.|+++|+||+|+...+++
T Consensus       104 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~l~~-~~~~~piilv~nK~Dl~~~~~~  160 (228)
T 2qu8_A          104 ALAHINGVILFIIDISEQCGLTIKEQINLFYSIKS-VFSNKSIVIGFNKIDKCNMDSL  160 (228)
T ss_dssp             HHHTSSEEEEEEEETTCTTSSCHHHHHHHHHHHHT-CC-CCCEEEEEECGGGCC--CC
T ss_pred             HhhccccEEEEEEecccccCcchHHHHHHHHHHHH-hhcCCcEEEEEeCcccCCchhh
Confidence            4578899999999998742  2  12234433332 2347999999999999876543

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=99.79  E-value=5.4e-19  Score=136.87  Aligned_cols=122  Identities=26%  Similarity=0.370  Sum_probs=87.1

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccC
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGIN  195 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~  195 (254)
                      ++++++|.+|+|||||++++.+..+......+++|...........+..+.+|||||.....  .........+..++..
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~--~~~~~~~~~~~~~~~~   79 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKKRSAVVADVPGVTRDLKEGVVETDRGRFLLVDTGGLWSGD--KWEKKIQEKVDRALED   79 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHCCC-----------CCEEEEEEETTEEEEEEECGGGCSSS--SCCHHHHHHHHHHTTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCeeeccCCCCceecceEEEEEeCCceEEEEECCCCCCcc--chHHHHHHHHHHHHHh
Confidence            58999999999999999999998866566777777766666667777899999999965432  1233344556677899


Q ss_pred             ccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          196 ADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       196 ~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      +|++++|+|+++.......++...+..  .+.|+++|+||+|+.+.
T Consensus        80 ~~~~i~v~d~~~~~~~~~~~~~~~~~~--~~~p~ilv~nK~Dl~~~  123 (161)
T 2dyk_A           80 AEVVLFAVDGRAELTQADYEVAEYLRR--KGKPVILVATKVDDPKH  123 (161)
T ss_dssp             CSEEEEEEESSSCCCHHHHHHHHHHHH--HTCCEEEEEECCCSGGG
T ss_pred             CCEEEEEEECCCcccHhHHHHHHHHHh--cCCCEEEEEECcccccc
Confidence            999999999998766665555555443  46899999999999765

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=99.78  E-value=6e-19  Score=159.39  Aligned_cols=123  Identities=26%  Similarity=0.364  Sum_probs=88.6

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccC
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGIN  195 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~  195 (254)
                      ++|+++|.+|+|||||+|++++.+.+.+.+.+++|++.......+.+..+.+|||||+.......+...+...+..++..
T Consensus         2 ~~v~ivG~pnvGKStL~nrl~~~~~~~v~~~~g~T~d~~~~~~~~~~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~~   81 (439)
T 1mky_A            2 ATVLIVGRPNVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEWYGKTFKLVDTCGVFDNPQDIISQKMKEVTLNMIRE   81 (439)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHC--------------CCSEEEEEETTEEEEEEECTTTTSSGGGCCCHHHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCceecCCCCCccceeeEEEEECCeEEEEEECCCccccccchHHHHHHHHHHHHHHh
Confidence            57999999999999999999999877789999999988888888888999999999986543333444555667778999


Q ss_pred             ccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          196 ADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       196 ~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      +|++++|+|++.+....+.++..+++.  .+.|+++|+||+|+..
T Consensus        82 ad~il~V~D~~~~~~~~d~~i~~~l~~--~~~p~ilv~NK~D~~~  124 (439)
T 1mky_A           82 ADLVLFVVDGKRGITKEDESLADFLRK--STVDTILVANKAENLR  124 (439)
T ss_dssp             CSEEEEEEETTTCCCHHHHHHHHHHHH--HTCCEEEEEESCCSHH
T ss_pred             CCEEEEEEECCCCCCHHHHHHHHHHHH--cCCCEEEEEeCCCCcc
Confidence            999999999998776666555555542  3689999999999864

>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=99.78  E-value=1.1e-18  Score=137.74  Aligned_cols=126  Identities=28%  Similarity=0.356  Sum_probs=90.7

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      +..+++++|.+|+|||||+|++.+.....+.+.+++|.+.....+...+..+.+|||||+.... ...+.........++
T Consensus         3 ~~~ki~ivG~~g~GKStLl~~l~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~l~Dt~G~~~~~-~~~~~~~~~~~~~~~   81 (172)
T 2gj8_A            3 HGMKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDGMPLHIIDTAGLREAS-DEVERIGIERAWQEI   81 (172)
T ss_dssp             -CEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETTEEEEEEECCCCSCCS-SHHHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcceeeCCCCceeceeeEEEEECCeEEEEEECCCcccch-hHHHHHHHHHHHHHH
Confidence            3468999999999999999999998766567788888777666677777889999999975432 122222122233457


Q ss_pred             cCccEEEEEEeCCCCch-hHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          194 INADCIVVLVDACKAPE-RIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       194 ~~~d~iv~vid~~~~~~-~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      ..+|++++|+|+++... ....++..+......++|+++|+||+|+..
T Consensus        82 ~~ad~~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~  129 (172)
T 2gj8_A           82 EQADRVLFMVDGTTTDAVDPAEIWPEFIARLPAKLPITVVRNKADITG  129 (172)
T ss_dssp             HTCSEEEEEEETTTCCCCSHHHHCHHHHHHSCTTCCEEEEEECHHHHC
T ss_pred             HhCCEEEEEEECCCCCCHHHHHHHHHHHHhcccCCCEEEEEECccCCc
Confidence            89999999999987332 233444444443345799999999999853

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=99.77  E-value=9.2e-19  Score=143.69  Aligned_cols=121  Identities=19%  Similarity=0.241  Sum_probs=87.4

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCce-EE--EEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTT-RH--RILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNV  189 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt-~~--~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~  189 (254)
                      .+..||+++|.+|+|||||++++....+.  ..+.+|. .+  ......+...+.+.+|||+|  +..+..+..      
T Consensus        11 ~k~~KivlvGd~~VGKTsLi~r~~~~~f~--~~~~~Tig~d~~~k~~~~~~~~v~l~iwDtaG--qe~~~~l~~------   80 (216)
T 4dkx_A           11 LRKFKLVFLGEQSVGKTSLITRFMYDSFD--NTYQATIGIDFLSKTMYLEDRTIRLQLWDTAG--LERFRSLIP------   80 (216)
T ss_dssp             --CEEEEEECSTTSSHHHHHHHHHHSCCC------------CEEEEEECSSCEEEEEEECCSC--TTTCGGGHH------
T ss_pred             CCcEEEEEECcCCcCHHHHHHHHHhCCCC--CCcCCccceEEEEEEEEecceEEEEEEEECCC--chhhhhHHH------
Confidence            45579999999999999999999988774  2332222 22  22233445567899999999  444444433      


Q ss_pred             HHHccCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhH
Q 025346          190 RSAGINADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEI  244 (254)
Q Consensus       190 ~~~~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~  244 (254)
                       .+++.++++++|+|+++  ++..+..|+..+......+.|++||+||+|+.+.+++
T Consensus        81 -~~~~~a~~~ilv~di~~~~Sf~~i~~~~~~i~~~~~~~~piilVgNK~Dl~~~r~V  136 (216)
T 4dkx_A           81 -SYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQV  136 (216)
T ss_dssp             -HHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCGGGCCS
T ss_pred             -HHhccccEEEEEeecchhHHHHHHHHHHHHHHHhcCCCCeEEEEeeccchHhcCcc
Confidence             45899999999999988  5677888888877766788999999999999766543

>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=99.77  E-value=9.2e-18  Score=134.29  Aligned_cols=132  Identities=25%  Similarity=0.315  Sum_probs=81.6

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCc-cccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhh-hHHHHHH
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQK-LSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHML-DSMMMKN  188 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~-~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~-~~~~~~~  188 (254)
                      +.....+|+++|.+|+|||||+|++++.. ...+.+.+++|........   +..+.+|||||+........ ...+...
T Consensus        19 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~---~~~~~l~Dt~G~~~~~~~~~~~~~~~~~   95 (195)
T 1svi_A           19 PEGGLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYII---NDELHFVDVPGYGFAKVSKSEREAWGRM   95 (195)
T ss_dssp             CCSCCCEEEEEEBTTSSHHHHHHHHHTC-------------CCEEEEEE---TTTEEEEECCCBCCCSSCHHHHHHHHHH
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHhCCCCccccCCCCCceeeEEEEEE---CCcEEEEECCCCCccccCHHHHHHHHHH
Confidence            34456899999999999999999999887 3445556666655443333   23799999999765432111 1112222


Q ss_pred             HHHHc---cCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHHH
Q 025346          189 VRSAG---INADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKK  247 (254)
Q Consensus       189 ~~~~~---~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~~  247 (254)
                      +..++   ..+|++++|+|+++........+...+..  .+.|+++|+||+|+.+.+++...
T Consensus        96 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~--~~~p~i~v~nK~Dl~~~~~~~~~  155 (195)
T 1svi_A           96 IETYITTREELKAVVQIVDLRHAPSNDDVQMYEFLKY--YGIPVIVIATKADKIPKGKWDKH  155 (195)
T ss_dssp             HHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHH--TTCCEEEEEECGGGSCGGGHHHH
T ss_pred             HHHHHhhhhcCCEEEEEEECCCCCCHHHHHHHHHHHH--cCCCEEEEEECcccCChHHHHHH
Confidence            23333   44599999999988655544433333332  57899999999999988766543

>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=99.77  E-value=1.2e-20  Score=171.05  Aligned_cols=220  Identities=23%  Similarity=0.237  Sum_probs=124.0

Q ss_pred             CCccccccCCcchhhhccccccCCceeeeeecccc--------cc-------cccchHHHHHHHHhhhcccccCCCCCCC
Q 025346           11 FGSLFPHYSTLTAYREIKFGFQGRSSSITCRSNEH--------QS-------LVLSEKEVQQQKLWSNQREMDLDDGDEM   75 (254)
Q Consensus        11 ~~~~~p~~~~l~~~~~~~~~~~~~~~~~~~~~~~~--------~~-------~~~~~~~~~~~~~~~~~~~~~~~d~~~~   75 (254)
                      .|-.-|.+++.+||+|-+.++.+......-+...-        ++       ......+....-++.-+..++|++  +.
T Consensus       112 ~r~A~pGEFt~RAflngk~dL~qaEav~dli~a~t~~~~~~a~~~l~g~~~~~~~~~r~~l~~~~a~iEa~iDf~e--d~  189 (462)
T 3geh_A          112 ARLAQPGEFTLRAFLNGRLDLTQAESIADLVGARSPQAAQTALAGLQGKLAHPIRQLRANCLDILAEIEARIDFEE--DL  189 (462)
T ss_dssp             CEECCTTHHHHHHHHTTSCCHHHHHHHHHHHHCCSHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHHHHTTSSS--SS
T ss_pred             CeecCCchhhhhHHhcCCcCHHHHHHHHHHHhCCCHHHHHHHHHHhchhHHHHHHHHHHHHHHHHHHHHhhccccc--cC
Confidence            35677999999999999998877543333322111        00       000111111112223344467766  33


Q ss_pred             CccChHhhhhhccCCcCCC-CCCCchhhhhccccCCCCCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEE
Q 025346           76 EFDDASSFLSLSEKPDRNM-ASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRI  154 (254)
Q Consensus        76 ~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~~~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~  154 (254)
                      +......+..........+ .++........      ...+.+|+++|.+|+|||||+|++++.+...+++.+++|++..
T Consensus       190 ~~~~~~~~~~~i~~l~~~l~~~~~~~~~~~~------~r~~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~  263 (462)
T 3geh_A          190 PPLDDEAIISDIENIAAEISQLLATKDKGEL------LRTGLKVAIVGRPNVGKSSLLNAWSQSDRAIVTDLPGTTRDVV  263 (462)
T ss_dssp             CCCCTTTHHHHHHHHHHHHHHHTTTHHHHHH------HHHCEEEEEEECTTSSHHHHHHHHHHHHBSCCSCCTTCCHHHH
T ss_pred             ChhhHHHHHHHHHHHHHHHHHHHHHhhhhhh------hcCCCEEEEEcCCCCCHHHHHHHHhCCCcccccCCCCeeEEEE
Confidence            3333322222211111111 11111111111      1234679999999999999999999988777888899998766


Q ss_pred             EEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEe
Q 025346          155 LGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLN  234 (254)
Q Consensus       155 ~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~n  234 (254)
                      ...+..++..+.+|||||+.+. ...++.........++..+|++++|+|++++.......+...+.    +.|+++|+|
T Consensus       264 ~~~i~~~g~~v~liDT~G~~~~-~~~ve~~gi~~~~~~~~~aD~vl~VvD~s~~~~~~~~~i~~~l~----~~piivV~N  338 (462)
T 3geh_A          264 ESQLVVGGIPVQVLDTAGIRET-SDQVEKIGVERSRQAANTADLVLLTIDAATGWTTGDQEIYEQVK----HRPLILVMN  338 (462)
T ss_dssp             HHEEEETTEEEEECC---------------------CCCCSCSEEEEEEETTTCSCHHHHHHHHHHT----TSCEEEEEE
T ss_pred             EEEEEECCEEEEEEECCccccc-hhHHHHHHHHHHhhhhhcCCEEEEEeccCCCCCHHHHHHHHhcc----CCcEEEEEE
Confidence            6666677889999999997542 22233333344556788999999999999876555444433332    369999999


Q ss_pred             cCCCCChHh
Q 025346          235 KKDLIKPGE  243 (254)
Q Consensus       235 K~Dl~~~~~  243 (254)
                      |+|+.....
T Consensus       339 K~Dl~~~~~  347 (462)
T 3geh_A          339 KIDLVEKQL  347 (462)
T ss_dssp             CTTSSCGGG
T ss_pred             CCCCCcchh
Confidence            999987654

>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=99.77  E-value=3.1e-18  Score=134.36  Aligned_cols=122  Identities=23%  Similarity=0.231  Sum_probs=79.0

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      ..+|+++|.+|+|||||++++.+..+....+.++++........++....+.+|||||.......       .....++.
T Consensus         4 ~~ki~i~G~~~vGKSsl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~-------~~~~~~~~   76 (175)
T 2nzj_A            4 LYRVVLLGDPGVGKTSLASLFAGKQERDLHEQLGEDVYERTLTVDGEDTTLVVVDTWEAEKLDKS-------WSQESCLQ   76 (175)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHCC-----CCCSSSSEEEEEEEETTEEEEEEEECCC-------C-------HHHHHTTT
T ss_pred             EEEEEEECCCCccHHHHHHHHhcCCCccccCccccceeEEEEEECCEEEEEEEEecCCCCccchh-------hhHHhhcc
Confidence            46899999999999999999999887655555555544443344444568999999995432111       12234578


Q ss_pred             CccEEEEEEeCCC--CchhHHHHHHHhhccc-CCCCCEEEEEecCCCCChHh
Q 025346          195 NADCIVVLVDACK--APERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       195 ~~d~iv~vid~~~--~~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~~  243 (254)
                      .+|++++|+|+++  ++.....++..+.... ..+.|+++|+||+|+.+.++
T Consensus        77 ~~~~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~piilv~NK~Dl~~~~~  128 (175)
T 2nzj_A           77 GGSAYVIVYSIADRGSFESASELRIQLRRTHQADHVPIILVGNKADLARCRE  128 (175)
T ss_dssp             SCSEEEEEEETTCHHHHHHHHHHHHHHHHCC----CCEEEEEECTTCTTTCC
T ss_pred             cCCEEEEEEECCCHHHHHHHHHHHHHHHHhhccCCCCEEEEEEChhhccccc
Confidence            8999999999987  3445556665554432 35799999999999986543

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=99.76  E-value=1.9e-17  Score=132.02  Aligned_cols=133  Identities=29%  Similarity=0.376  Sum_probs=90.6

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhh----hHHHHH
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHML----DSMMMK  187 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~----~~~~~~  187 (254)
                      ....++|+++|.+|+|||||++++++.......+.+++|........   +..+.+|||||+........    ......
T Consensus        20 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~t~~~~~~~~---~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~   96 (195)
T 3pqc_A           20 PPLKGEVAFVGRSNVGKSSLLNALFNRKIAFVSKTPGKTRSINFYLV---NSKYYFVDLPGYGYAKVSKKERMLWKRLVE   96 (195)
T ss_dssp             CCTTCEEEEEEBTTSSHHHHHHHHHTSCCSCCCSSCCCCCCEEEEEE---TTTEEEEECCCBSSSCCCHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHcCccccccCCCCCccCeEEEEE---CCcEEEEECCCCccccCChhhHHHHHHHHH
Confidence            34567999999999999999999999886666777777765544333   34688999999754322111    111223


Q ss_pred             HHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHHHHH
Q 025346          188 NVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLE  249 (254)
Q Consensus       188 ~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~~~~  249 (254)
                      .+......++++++|+|++.........+...+..  .+.|+++|+||+|+.++++.....+
T Consensus        97 ~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~--~~~p~i~v~nK~Dl~~~~~~~~~~~  156 (195)
T 3pqc_A           97 DYFKNRWSLQMVFLLVDGRIPPQDSDLMMVEWMKS--LNIPFTIVLTKMDKVKMSERAKKLE  156 (195)
T ss_dssp             HHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHH--TTCCEEEEEECGGGSCGGGHHHHHH
T ss_pred             HHHhcCcCceEEEEEecCCCCCCHHHHHHHHHHHH--cCCCEEEEEEChhcCChHHHHHHHH
Confidence            33334456799999999988655444433333332  3689999999999987766554433

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=99.76  E-value=4.7e-18  Score=136.35  Aligned_cols=122  Identities=18%  Similarity=0.183  Sum_probs=85.0

Q ss_pred             CCCCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHH
Q 025346          110 HPNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNV  189 (254)
Q Consensus       110 ~~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~  189 (254)
                      .+.....+|+++|.+|+|||||++++.+..+..+. +.+|.. .....++.....+.+|||||...  +..+       +
T Consensus        12 ~~~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~-~~~t~~-~~~~~~~~~~~~~~i~Dt~G~~~--~~~~-------~   80 (199)
T 4bas_A           12 GQSKTKLQVVMCGLDNSGKTTIINQVKPAQSSSKH-ITATVG-YNVETFEKGRVAFTVFDMGGAKK--FRGL-------W   80 (199)
T ss_dssp             ----CEEEEEEECCTTSCHHHHHHHHSCCC----C-CCCCSS-EEEEEEEETTEEEEEEEECCSGG--GGGG-------G
T ss_pred             cCCCCCcEEEEECCCCCCHHHHHHHHhcCCCcccc-cccccc-eeEEEEEeCCEEEEEEECCCCHh--HHHH-------H
Confidence            34556679999999999999999999998876322 222222 23334567889999999999533  2222       2


Q ss_pred             HHHccCccEEEEEEeCCCC--chhHHHHHHHhhcccC--------CCCCEEEEEecCCCCChH
Q 025346          190 RSAGINADCIVVLVDACKA--PERIDEILEEGVGDHK--------DKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       190 ~~~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~--------~~~piivV~nK~Dl~~~~  242 (254)
                      ..++..+|++|+|+|+++.  +.....++..++....        .+.|+++|+||+|+....
T Consensus        81 ~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~  143 (199)
T 4bas_A           81 ETYYDNIDAVIFVVDSSDHLRLCVVKSEIQAMLKHEDIRRELPGGGRVPFLFFANKMDAAGAK  143 (199)
T ss_dssp             GGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTSHHHHSBCTTSCBCCEEEEEECTTSTTCC
T ss_pred             HHHHhcCCEEEEEEECCcHHHHHHHHHHHHHHHhChhhhhcccccCCCCEEEEEECcCCCCCC
Confidence            3557899999999999984  4566677776655411        379999999999998773

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.76  E-value=1.9e-18  Score=156.03  Aligned_cols=123  Identities=32%  Similarity=0.422  Sum_probs=85.0

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccC
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGIN  195 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~  195 (254)
                      ++|+++|.+|+|||||+|++++.....+.+.+++|++.......+.+..+.+|||||+..... .+...+...+..++..
T Consensus         4 ~~V~ivG~~nvGKStL~n~l~~~~~~~v~~~~g~T~d~~~~~~~~~~~~~~l~DT~G~~~~~~-~~~~~~~~~~~~~~~~   82 (436)
T 2hjg_A            4 PVVAIVGRPNVGKSTIFNRIAGERISIVEDTPGVTRDRIYSSAEWLNYDFNLIDTGGIDIGDE-PFLAQIRQQAEIAMDE   82 (436)
T ss_dssp             CEEEEECSTTSSHHHHHHHHEEEECC-----------CEEEECTTCSSCCEEEC----------CHHHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeecCCCCCccceEEEEEEECCceEEEEECCCCCCcch-hHHHHHHHHHHHHHHh
Confidence            689999999999999999999998887899999999988888888889999999999753322 2444555666777899


Q ss_pred             ccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          196 ADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       196 ~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      +|++++|+|++++....+.++...++  ..+.|+++|+||+|+...
T Consensus        83 ad~il~vvD~~~~~~~~d~~~~~~l~--~~~~pvilv~NK~D~~~~  126 (436)
T 2hjg_A           83 ADVIIFMVNGREGVTAADEEVAKILY--RTKKPVVLAVNKLDNTEM  126 (436)
T ss_dssp             CSEEEEEEETTTCSCHHHHHHHHHHT--TCCSCEEEEEECCCC---
T ss_pred             CCEEEEEEeCCCCCCHHHHHHHHHHH--HcCCCEEEEEECccCccc
Confidence            99999999999877777776666665  357899999999999754

>1ega_A Protein (GTP-binding protein ERA); GTPase, RNA-binding, RAS-like, hydrolase; 2.40A {Escherichia coli} SCOP: c.37.1.8 d.52.3.1 PDB: 1x1l_X 3ieu_A* 1x18_X

Probab=99.76  E-value=2.8e-18  Score=147.65  Aligned_cols=135  Identities=35%  Similarity=0.596  Sum_probs=100.6

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      .+..+++++|++|+|||||+|++++.++..+++.+++|+....+.+...+.++.+|||||+.......+...+.......
T Consensus         6 ~r~~~VaIvG~~nvGKSTLln~L~g~~~~i~s~~~~tTr~~~~gi~~~~~~~i~~iDTpG~~~~~~~~l~~~~~~~~~~~   85 (301)
T 1ega_A            6 SYCGFIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEGAYQAIYVDTPGLHMEEKRAINRLMNKAASSS   85 (301)
T ss_dssp             CEEEEEEEECSSSSSHHHHHHHHHTCSEEECCCCSSCCSSCEEEEEEETTEEEEEESSSSCCHHHHHHHHHHHTCCTTSC
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHHCCCccccCCCCCcceeeEEEEEEECCeeEEEEECcCCCccchhhHHHHHHHHHHHH
Confidence            34568999999999999999999999887778888888877777778888999999999975122222322332333456


Q ss_pred             ccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCC-hHhHHHHHHH
Q 025346          193 GINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIK-PGEIAKKLEV  250 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~-~~~~~~~~~~  250 (254)
                      +..+|++++|+|+++ ......++...+.  ..+.|+++|+||+|+.. ...+.+....
T Consensus        86 l~~~D~vl~Vvd~~~-~~~~~~~i~~~l~--~~~~P~ilvlNK~D~~~~~~~~~~~l~~  141 (301)
T 1ega_A           86 IGDVELVIFVVEGTR-WTPDDEMVLNKLR--EGKAPVILAVNKVDNVQEKADLLPHLQF  141 (301)
T ss_dssp             CCCEEEEEEEEETTC-CCHHHHHHHHHHH--SSSSCEEEEEESTTTCCCHHHHHHHHHH
T ss_pred             HhcCCEEEEEEeCCC-CCHHHHHHHHHHH--hcCCCEEEEEECcccCccHHHHHHHHHH
Confidence            789999999999988 6655555554443  34689999999999997 4555444443

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=99.75  E-value=6.4e-18  Score=135.20  Aligned_cols=120  Identities=19%  Similarity=0.155  Sum_probs=87.1

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCC--eeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPE--YQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      ...+|+++|.+|+|||||++++.+..+. ....++++.......+...+  ..+.+|||||..  .+..+       +..
T Consensus        15 ~~~ki~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~--~~~~~-------~~~   84 (196)
T 3tkl_A           15 YLFKLLLIGDSGVGKSCLLLRFADDTYT-ESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQE--RFRTI-------TSS   84 (196)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCC-SCCCCCSSEEEEEEEEEETTEEEEEEEEEECCSG--GGCTT-------HHH
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcCCCC-CCCCCcccceEEEEEEEECCEEEEEEEEECCCcH--hhhhh-------HHH
Confidence            4568999999999999999999988765 33344555444444444443  679999999943  22222       334


Q ss_pred             HccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          192 AGINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      ++..+|++++|+|+++.  +.....++..+......+.|+++|+||+|+.+.+.
T Consensus        85 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~~~~~  138 (196)
T 3tkl_A           85 YYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKV  138 (196)
T ss_dssp             HHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCC
T ss_pred             HHhhCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccc
Confidence            57899999999999883  45566676666555556899999999999986643

>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=99.75  E-value=6.7e-18  Score=131.43  Aligned_cols=119  Identities=25%  Similarity=0.233  Sum_probs=72.8

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      ..+++++|.+|+|||||++++.+.......+.++++.. .....+.....+.+|||||...  +.       .....++.
T Consensus         2 ~~ki~~vG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~i~D~~g~~~--~~-------~~~~~~~~   71 (166)
T 3q72_A            2 VYKVLLLGAPGVGKSALARIFGGVEDGPEAEAAGHTYD-RSIVVDGEEASLMVYDIWEQDG--GR-------WLPGHCMA   71 (166)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHCCC----------CEEE-EEEEETTEEEEEEEEECC-----------------------
T ss_pred             eEEEEEECCCCCCHHHHHHHHcCccccCCCCccccceE-EEEEECCEEEEEEEEECCCCcc--ch-------hhhhhhhh
Confidence            45899999999999999999998877655566666653 2334455667899999999432  22       22334578


Q ss_pred             CccEEEEEEeCCCC--chhHHHHHHHhhccc-CCCCCEEEEEecCCCCChHh
Q 025346          195 NADCIVVLVDACKA--PERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       195 ~~d~iv~vid~~~~--~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~~  243 (254)
                      .+|++++|+|+++.  +.....++..+.... ..+.|+++|+||+|+.+.++
T Consensus        72 ~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~  123 (166)
T 3q72_A           72 MGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSRE  123 (166)
T ss_dssp             -CCEEEEEEETTCHHHHHHHHHHHHHHHHCC---CCCEEEEEECTTCCSSCC
T ss_pred             hCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccccccccc
Confidence            99999999999873  455666666655432 36799999999999986543

>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=99.75  E-value=6.2e-18  Score=133.38  Aligned_cols=121  Identities=17%  Similarity=0.140  Sum_probs=83.4

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEe--cCCeeEEEEecCCCcccchhhhhHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICS--GPEYQMILYDTPGIIEKKIHMLDSMMMKNVR  190 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~--~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~  190 (254)
                      ....+|+++|.+|+|||||++++.+..+......+.++.........  +....+.+|||||....         ...+.
T Consensus         8 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~---------~~~~~   78 (180)
T 2g6b_A            8 DVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERF---------RSVTH   78 (180)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC-----------------
T ss_pred             CcceEEEEECcCCCCHHHHHHHHHhCCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCcHHH---------HHHHH
Confidence            44568999999999999999999988775333344444443333333  33458999999994321         12344


Q ss_pred             HHccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          191 SAGINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      .++..+|++++|+|+++.  +..+..++..+......+.|+++|+||+|+.+++
T Consensus        79 ~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~  132 (180)
T 2g6b_A           79 AYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHER  132 (180)
T ss_dssp             CCGGGCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTTSCC
T ss_pred             HHccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccCccc
Confidence            567899999999999883  3445566666554444679999999999998643

>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=99.75  E-value=1.9e-17  Score=129.40  Aligned_cols=117  Identities=18%  Similarity=0.229  Sum_probs=85.1

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      .+..+|+++|.+|+|||||++++.+..+..  ..+ +. ......+...+..+.+|||||...  +..       .+..+
T Consensus         5 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~~--~~~-t~-~~~~~~~~~~~~~~~~~Dt~G~~~--~~~-------~~~~~   71 (171)
T 1upt_A            5 TREMRILILGLDGAGKTTILYRLQVGEVVT--TIP-TI-GFNVETVTYKNLKFQVWDLGGLTS--IRP-------YWRCY   71 (171)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHSSCCC--CCC-CS-SEEEEEEEETTEEEEEEEECCCGG--GGG-------GGGGG
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCCC--cCC-cC-ccceEEEEECCEEEEEEECCCChh--hhH-------HHHHH
Confidence            345789999999999999999999877642  222 22 223334555688999999999533  222       23355


Q ss_pred             ccCccEEEEEEeCCCC--chhHHHHHHHhhccc-CCCCCEEEEEecCCCCChH
Q 025346          193 GINADCIVVLVDACKA--PERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~  242 (254)
                      +..+|++++|+|+++.  +.....++..++... ..+.|+++|+||+|+.+..
T Consensus        72 ~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~  124 (171)
T 1upt_A           72 YSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAM  124 (171)
T ss_dssp             CTTCSEEEEEEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC
T ss_pred             hccCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhCCCEEEEEEECCCCcCCC
Confidence            7899999999999874  566667776665542 2679999999999998763

>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=99.75  E-value=3.7e-18  Score=154.92  Aligned_cols=126  Identities=31%  Similarity=0.395  Sum_probs=88.8

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      ...++|+++|.+|+|||||+|++.+.++..+.+.+++|++.......+.+..+.+|||||+... .......+...+..+
T Consensus        21 m~~~~V~lvG~~nvGKSTL~n~l~~~~~~~v~~~~g~t~~~~~~~~~~~~~~~~liDT~G~~~~-~~~~~~~~~~~~~~~   99 (456)
T 4dcu_A           21 MGKPVVAIVGRPNVGKSTIFNRIAGERISIVEDTPGVTRDRIYSSAEWLNYDFNLIDTGGIDIG-DEPFLAQIRQQAEIA   99 (456)
T ss_dssp             --CCEEEEECSSSSSHHHHHHHHEEEEEC-----------CEEEECTTCSSCCEEECCCC-------CCHHHHHHHHHHH
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCcceeEEEEEEEECCceEEEEECCCCCCc-chHHHHHHHHHHHhh
Confidence            3457999999999999999999999998888899999999888888888999999999997632 233445555667778


Q ss_pred             ccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          193 GINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      +..+|++++|+|+..+......++...++.  .+.|+++|+||+|+...
T Consensus       100 ~~~ad~il~VvD~~~~~~~~d~~l~~~l~~--~~~pvilV~NK~D~~~~  146 (456)
T 4dcu_A          100 MDEADVIIFMVNGREGVTAADEEVAKILYR--TKKPVVLAVNKLDNTEM  146 (456)
T ss_dssp             HHHCSEEEEEEESSSCSCHHHHHHHHHHTT--CCSCEEEEEECC-----
T ss_pred             HhhCCEEEEEEeCCCCCChHHHHHHHHHHH--cCCCEEEEEECccchhh
Confidence            899999999999998888877777777663  57899999999998754

>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=99.75  E-value=1e-17  Score=132.92  Aligned_cols=119  Identities=21%  Similarity=0.134  Sum_probs=84.6

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecC--CeeEEEEecCCCcccchhhhhHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGP--EYQMILYDTPGIIEKKIHMLDSMMMKNVR  190 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~--~~~~~liDtpG~~~~~~~~~~~~~~~~~~  190 (254)
                      ....+|+++|.+|+|||||++++.+..+.. ...+..+...........  ...+.+|||||....  .       ..+.
T Consensus         8 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~--~-------~~~~   77 (186)
T 2bme_A            8 DFLFKFLVIGNAGTGKSCLLHQFIEKKFKD-DSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERF--R-------SVTR   77 (186)
T ss_dssp             SEEEEEEEEESTTSSHHHHHHHHHHSSCCT-TCCCCSEEEEEEEEEEETTEEEEEEEEEECCSGGG--H-------HHHH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHcCCCCC-CCCCccceEEEEEEEEECCEEEEEEEEeCCCcHHH--H-------HHHH
Confidence            345689999999999999999999887652 333444433333333333  368999999994322  1       3345


Q ss_pred             HHccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          191 SAGINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      .++..+|++++|+|+++.  +.....++..+......+.|+++|+||+|+...
T Consensus        78 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  130 (186)
T 2bme_A           78 SYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDAD  130 (186)
T ss_dssp             TTSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGG
T ss_pred             HHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccc
Confidence            678899999999999873  344556665555444568999999999999754

>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=99.74  E-value=5.3e-18  Score=132.27  Aligned_cols=120  Identities=16%  Similarity=0.171  Sum_probs=84.2

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCcccc-ccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSI-VTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~-~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      ..+|+++|.+|+|||||++++.+..+.. ..+..+++..............+.+|||||...  +...       ...++
T Consensus         6 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~--~~~~-------~~~~~   76 (170)
T 1z0j_A            6 ELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLER--FRAL-------APMYY   76 (170)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGG--GGGG-------THHHH
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCeEEEEEEEcCCCchh--hhcc-------cHhhC
Confidence            4689999999999999999999887542 122233333333334444557899999999532  2222       23457


Q ss_pred             cCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          194 INADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       194 ~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      ..+|++++|+|+++.  ......++..+.....++.|+++|+||+|+.+.++
T Consensus        77 ~~~~~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~~~  128 (170)
T 1z0j_A           77 RGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVRE  128 (170)
T ss_dssp             TTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCGGGCC
T ss_pred             cCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECCccccccc
Confidence            889999999999884  34455566655554456799999999999976533

>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=99.74  E-value=3.9e-17  Score=129.74  Aligned_cols=119  Identities=23%  Similarity=0.337  Sum_probs=85.7

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      ....+++++|.+|+|||||++++.+..+....+..+.+    ...+...+..+.+|||||...  +.       ..+..+
T Consensus        14 ~~~~ki~ivG~~~vGKSsL~~~l~~~~~~~~~~t~g~~----~~~~~~~~~~l~i~Dt~G~~~--~~-------~~~~~~   80 (181)
T 1fzq_A           14 DQEVRILLLGLDNAGKTTLLKQLASEDISHITPTQGFN----IKSVQSQGFKLNVWDIGGQRK--IR-------PYWRSY   80 (181)
T ss_dssp             SSCEEEEEEESTTSSHHHHHHHHCCSCCEEEEEETTEE----EEEEEETTEEEEEEECSSCGG--GH-------HHHHHH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhcCCCCcccCcCCeE----EEEEEECCEEEEEEECCCCHH--HH-------HHHHHH
Confidence            45679999999999999999999988654333333322    223344578999999999432  21       234456


Q ss_pred             ccCccEEEEEEeCCCC--chhHHHHHHHhhccc-CCCCCEEEEEecCCCCChHhH
Q 025346          193 GINADCIVVLVDACKA--PERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPGEI  244 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~~~  244 (254)
                      +..+|++++|+|+++.  +.....++..++... ..+.|+++|+||+|+.+....
T Consensus        81 ~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~  135 (181)
T 1fzq_A           81 FENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAAPA  135 (181)
T ss_dssp             HTTCSEEEEEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTCCCH
T ss_pred             hCCCCEEEEEEECcCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcCcccCCCH
Confidence            7899999999999874  455566666665542 367999999999999876443

>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=99.74  E-value=5.4e-18  Score=140.81  Aligned_cols=133  Identities=17%  Similarity=0.270  Sum_probs=85.8

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCC--CceEEEEEEEEecCCeeEEEEecCCCcccchh--hhhHHHHH
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKP--QTTRHRILGICSGPEYQMILYDTPGIIEKKIH--MLDSMMMK  187 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~--~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~--~~~~~~~~  187 (254)
                      .....+|+++|.+|+|||||+|++++..+. ....+  ++|...........+..+.+|||||+.+....  .....+..
T Consensus        26 ~~~~~~i~lvG~~g~GKStlin~l~g~~~~-~~~~~~~~~t~~~~~~~~~~~~~~i~liDTpG~~~~~~~~~~~~~~~~~  104 (239)
T 3lxx_A           26 RNSQLRIVLVGKTGAGKSATGNSILGRKVF-HSGTAAKSITKKCEKRSSSWKETELVVVDTPGIFDTEVPNAETSKEIIR  104 (239)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHTSCCS-CC-------CCSCEEEEEEETTEEEEEEECCSCC-----CHHHHHHHHH
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHcCCCcC-ccCCCCCceeeeEEEEEEEeCCceEEEEECCCccCCCCCHHHHHHHHHH
Confidence            345679999999999999999999998874 33333  56666666667778889999999998764322  12233445


Q ss_pred             HHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccC--CCCCEEEEEecCCCCChHhHH
Q 025346          188 NVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHK--DKLPILLVLNKKDLIKPGEIA  245 (254)
Q Consensus       188 ~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~--~~~piivV~nK~Dl~~~~~~~  245 (254)
                      .+...+..+|++++|+|+++.......++..+.....  ...|+++|+||+|+...+.+.
T Consensus       105 ~~~~~~~~~~~~l~v~d~~~~~~~~~~~l~~~~~~~~~~~~~~~iiv~nK~D~~~~~~~~  164 (239)
T 3lxx_A          105 CILLTSPGPHALLLVVPLGRYTEEEHKATEKILKMFGERARSFMILIFTRKDDLGDTNLH  164 (239)
T ss_dssp             HHHHTTTCCSEEEEEEETTCCSSHHHHHHHHHHHHHHHHHGGGEEEEEECGGGC------
T ss_pred             HHHhcCCCCcEEEEEeeCCCCCHHHHHHHHHHHHHhhhhccceEEEEEeCCccCCcccHH
Confidence            5556678899999999998644444444444433221  235999999999998776555

>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=99.74  E-value=1.9e-17  Score=131.35  Aligned_cols=118  Identities=17%  Similarity=0.182  Sum_probs=85.0

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHH
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVR  190 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~  190 (254)
                      ...+..+|+++|.+|+|||||++++.+.++....+..+.+..    .+...+..+.+|||||...  +...       +.
T Consensus        17 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~t~~~~~~----~~~~~~~~~~i~Dt~G~~~--~~~~-------~~   83 (181)
T 2h17_A           17 RGSQEHKVIIVGLDNAGKTTILYQFSMNEVVHTSPTIGSNVE----EIVINNTRFLMWDIGGQES--LRSS-------WN   83 (181)
T ss_dssp             ----CEEEEEEEETTSSHHHHHHHHHTTSCEEEECCSSSSCE----EEEETTEEEEEEEESSSGG--GTCG-------GG
T ss_pred             CCCceeEEEEECCCCCCHHHHHHHHhcCCCCccCCcCceeeE----EEEECCEEEEEEECCCCHh--HHHH-------HH
Confidence            345567999999999999999999999887544444443322    2334578999999999533  2222       23


Q ss_pred             HHccCccEEEEEEeCCCC--chhHHHHHHHhhccc-CCCCCEEEEEecCCCCCh
Q 025346          191 SAGINADCIVVLVDACKA--PERIDEILEEGVGDH-KDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~  241 (254)
                      .++..+|++++|+|+++.  +.....++..+.... ..+.|+++|+||+|+...
T Consensus        84 ~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~  137 (181)
T 2h17_A           84 TYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKEC  137 (181)
T ss_dssp             GGGTTCCEEEEEEETTCTTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC
T ss_pred             HHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhCCCeEEEEEECCCcccC
Confidence            557899999999999874  566667777666542 367999999999999764

>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=99.74  E-value=2.9e-17  Score=131.09  Aligned_cols=116  Identities=19%  Similarity=0.224  Sum_probs=83.8

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      +..+|+++|.+|+|||||++++.+..+.  ..+.+|... ....+...+..+.+|||||..  .+.       ..+..++
T Consensus        21 ~~~ki~v~G~~~~GKSsli~~l~~~~~~--~~~~~t~~~-~~~~~~~~~~~~~l~Dt~G~~--~~~-------~~~~~~~   88 (188)
T 1zd9_A           21 EEMELTLVGLQYSGKTTFVNVIASGQFN--EDMIPTVGF-NMRKITKGNVTIKLWDIGGQP--RFR-------SMWERYC   88 (188)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCC--CSCCCCCSE-EEEEEEETTEEEEEEEECCSH--HHH-------TTHHHHH
T ss_pred             CccEEEEECCCCCCHHHHHHHHHcCCCC--CccCCCCce-eEEEEEeCCEEEEEEECCCCH--hHH-------HHHHHHH
Confidence            3568999999999999999999987764  122222221 223356678899999999942  211       2344557


Q ss_pred             cCccEEEEEEeCCC--CchhHHHHHHHhhccc-CCCCCEEEEEecCCCCCh
Q 025346          194 INADCIVVLVDACK--APERIDEILEEGVGDH-KDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       194 ~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~  241 (254)
                      ..+|++++|+|+++  ++.....++..+.... ..+.|+++|+||+|+...
T Consensus        89 ~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~  139 (188)
T 1zd9_A           89 RGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGA  139 (188)
T ss_dssp             TTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTC
T ss_pred             ccCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCCEEEEEECCCCccC
Confidence            89999999999987  3456666776665542 267999999999999865

>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=99.74  E-value=2.6e-17  Score=131.40  Aligned_cols=121  Identities=21%  Similarity=0.204  Sum_probs=85.9

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      .+..+|+++|.+|+|||||++++.+...... .+..|. ......+...+..+.+|||||....  ...       +..+
T Consensus        19 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~-~~~~t~-~~~~~~~~~~~~~~~l~Dt~G~~~~--~~~-------~~~~   87 (190)
T 2h57_A           19 SKEVHVLCLGLDNSGKTTIINKLKPSNAQSQ-NILPTI-GFSIEKFKSSSLSFTVFDMSGQGRY--RNL-------WEHY   87 (190)
T ss_dssp             --CEEEEEEECTTSSHHHHHHHTSCGGGCCS-SCCCCS-SEEEEEEECSSCEEEEEEECCSTTT--GGG-------GGGG
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCCCC-CcCCcc-ceeEEEEEECCEEEEEEECCCCHHH--HHH-------HHHH
Confidence            4567999999999999999999998873212 222222 2344455666789999999995432  222       2345


Q ss_pred             ccCccEEEEEEeCCCC--chhHHHHHHHhhcccC---CCCCEEEEEecCCCCChHhH
Q 025346          193 GINADCIVVLVDACKA--PERIDEILEEGVGDHK---DKLPILLVLNKKDLIKPGEI  244 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~---~~~piivV~nK~Dl~~~~~~  244 (254)
                      +..+|++++|+|+++.  +.....++..+.....   .+.|+++|+||+|+......
T Consensus        88 ~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~  144 (190)
T 2h57_A           88 YKEGQAIIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIPILFFANKMDLRDAVTS  144 (190)
T ss_dssp             GGGCSEEEEEEETTCHHHHHHHHHHHHHHHHSTTTTTSCCCEEEEEECTTSTTCCCH
T ss_pred             HhcCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhccCCCeEEEEEeCcCcccCCCH
Confidence            7899999999999884  5566667766665433   57999999999999865333

>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=99.74  E-value=1.9e-17  Score=133.63  Aligned_cols=115  Identities=24%  Similarity=0.256  Sum_probs=79.2

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      .+..+|+++|++|+|||||++++.+.++....+..+.+    ...+..++..+.+|||||....  ..+       +..+
T Consensus        23 ~~~~ki~lvG~~~vGKSsLi~~l~~~~~~~~~~t~~~~----~~~~~~~~~~l~i~Dt~G~~~~--~~~-------~~~~   89 (198)
T 1f6b_A           23 KKTGKLVFLGLDNAGKTTLLHMLKDDRLGQHVPTLHPT----SEELTIAGMTFTTFDLGGHIQA--RRV-------WKNY   89 (198)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHHSCC------CCCCCS----CEEEEETTEEEEEEEECC------CCG-------GGGG
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhcCCCCccCCCCCce----eEEEEECCEEEEEEECCCcHhh--HHH-------HHHH
Confidence            44568999999999999999999988765333222222    2344455689999999995332  221       2345


Q ss_pred             ccCccEEEEEEeCCCC--chhHHHHHHHhhcc-cCCCCCEEEEEecCCCCC
Q 025346          193 GINADCIVVLVDACKA--PERIDEILEEGVGD-HKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~-~~~~~piivV~nK~Dl~~  240 (254)
                      +..+|++++|+|+++.  +.....++..+.+. ...+.|+++|+||+|+.+
T Consensus        90 ~~~~d~~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~  140 (198)
T 1f6b_A           90 LPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPE  140 (198)
T ss_dssp             GGGCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTT
T ss_pred             HhcCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCcEEEEEECCCccc
Confidence            7899999999999874  45566777766554 235799999999999975

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=99.74  E-value=9.1e-18  Score=134.59  Aligned_cols=121  Identities=17%  Similarity=0.181  Sum_probs=79.6

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEe--cCCeeEEEEecCCCcccchhhhhHHHHHHH
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICS--GPEYQMILYDTPGIIEKKIHMLDSMMMKNV  189 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~--~~~~~~~liDtpG~~~~~~~~~~~~~~~~~  189 (254)
                      .....+|+++|.+|+|||||++++.+..+.. ...+..+.+.....+.  .....+.+|||||...  +.       ..+
T Consensus        23 ~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~--~~-------~~~   92 (192)
T 2il1_A           23 ADFKLQVIIIGSRGVGKTSLMERFTDDTFCE-ACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQER--FN-------SIT   92 (192)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHCC---------CCTTEEEEEEEEEETTEEEEEEEEEECCSGG--GH-------HHH
T ss_pred             cCCceEEEEECCCCCCHHHHHHHHhcCCCCc-CCCCccceeEEEEEEEECCeEEEEEEEeCCCcHH--HH-------HHH
Confidence            3445689999999999999999999887652 2233333333333333  3346899999999432  22       223


Q ss_pred             HHHccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          190 RSAGINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       190 ~~~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      ..++..+|++++|+|+++.  +..+..|+..+......+.|+++|+||+|+...+
T Consensus        93 ~~~~~~~d~iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~piilV~NK~Dl~~~~  147 (192)
T 2il1_A           93 SAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDR  147 (192)
T ss_dssp             HHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGC
T ss_pred             HHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccccccc
Confidence            4557789999999999883  4445555555444444679999999999997653

>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=99.74  E-value=1.9e-17  Score=130.23  Aligned_cols=121  Identities=20%  Similarity=0.165  Sum_probs=83.2

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccC-CCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTN-KPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~-~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      ....+|+++|.+|+|||||++++.+..+..... ..+.+........+.....+.+|||||...  +.       ..+..
T Consensus        13 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~--~~-------~~~~~   83 (179)
T 1z0f_A           13 SYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQER--FR-------AVTRS   83 (179)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTGGG--TC-------HHHHH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCChH--hh-------hhHHH
Confidence            345799999999999999999999887642111 112222222233344456899999999432  22       22345


Q ss_pred             HccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          192 AGINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      ++..+|++++|+|+++.  +.....++..+......+.|+++|+||+|+.+.+
T Consensus        84 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~  136 (179)
T 1z0f_A           84 YYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQR  136 (179)
T ss_dssp             HHHTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGC
T ss_pred             HhccCCEEEEEEeCcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccccccc
Confidence            57899999999999873  3455566665555445689999999999997543

>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=99.74  E-value=1.3e-17  Score=129.40  Aligned_cols=118  Identities=21%  Similarity=0.179  Sum_probs=81.2

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEE--EecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGI--CSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~--~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      ..+|+++|.+|+|||||++++.+..+..  .+.+++.......  .+.....+.+|||||....  ..       ....+
T Consensus         3 ~~~i~v~G~~~~GKSsli~~l~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~--~~-------~~~~~   71 (167)
T 1kao_A            3 EYKVVVLGSGGVGKSALTVQFVTGTFIE--KYDPTIEDFYRKEIEVDSSPSVLEILDTAGTEQF--AS-------MRDLY   71 (167)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCS--CCCTTCCEEEEEEEEETTEEEEEEEEECCCTTCC--HH-------HHHHH
T ss_pred             EEEEEEECCCCCCHHHHHHHHHcCCCcc--cCCCCcceeEEEEEEECCEEEEEEEEECCCchhh--HH-------HHHHH
Confidence            4689999999999999999999887642  3333333322333  3333456999999995332  22       23345


Q ss_pred             ccCccEEEEEEeCCC--CchhHHHHHHHhhccc-CCCCCEEEEEecCCCCChHh
Q 025346          193 GINADCIVVLVDACK--APERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       193 ~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~~  243 (254)
                      +..+|++++|+|+++  ++.....++..+.... ..+.|+++|+||+|+.+.++
T Consensus        72 ~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~  125 (167)
T 1kao_A           72 IKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESERE  125 (167)
T ss_dssp             HHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGGCC
T ss_pred             hccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCccccccc
Confidence            678999999999998  3445556665555433 25799999999999976433

>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=99.74  E-value=7e-18  Score=132.66  Aligned_cols=120  Identities=19%  Similarity=0.229  Sum_probs=84.8

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecC--CeeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGP--EYQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~--~~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      +..+|+++|.+|+|||||++++++..+. ....+..+.+.........  ...+.+|||||..  .+...       +..
T Consensus        13 ~~~~i~v~G~~~~GKssli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~--~~~~~-------~~~   82 (179)
T 2y8e_A           13 RKFKLVFLGEQSVGKTSLITRFMYDSFD-NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE--RFRSL-------IPS   82 (179)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHSCCC-SSCCCCCSEEEEEEEEEETTEEEEEEEEEECCSG--GGGGG-------SHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHHcCCCC-CCCCCceeeEEEEEEEEECCeEEEEEEEECCCcH--HHHHH-------HHH
Confidence            3468999999999999999999987765 2334444444444333333  4689999999943  22222       224


Q ss_pred             HccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          192 AGINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      ++..+|++++|+|+++.  +.....++..+......+.|+++|+||+|+.++++
T Consensus        83 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~  136 (179)
T 2y8e_A           83 YIRDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGNKTDLSDKRQ  136 (179)
T ss_dssp             HHHTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECGGGGGGCC
T ss_pred             HhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCcccccCc
Confidence            46789999999999873  45566666666554456799999999999976543

>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=99.74  E-value=7e-18  Score=131.44  Aligned_cols=118  Identities=19%  Similarity=0.174  Sum_probs=83.9

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCC-CCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNK-PQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~-~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      ..+|+++|.+|+|||||++++.+..+...... .+.+..............+.+|||||...  +...       +..++
T Consensus         6 ~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~--~~~~-------~~~~~   76 (170)
T 1r2q_A            6 QFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQER--YHSL-------APMYY   76 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGG--GGGG-------HHHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCcHH--hhhh-------hHHhc
Confidence            46899999999999999999998776432222 22222233333444567899999999432  2222       33457


Q ss_pred             cCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          194 INADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       194 ~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      ..+|++++|+|+++.  +.....++..+......+.|+++|+||+|+.+.
T Consensus        77 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~  126 (170)
T 1r2q_A           77 RGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK  126 (170)
T ss_dssp             TTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGG
T ss_pred             cCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCccc
Confidence            899999999999874  455666666666555568999999999999754

>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=99.73  E-value=3.6e-17  Score=126.99  Aligned_cols=112  Identities=17%  Similarity=0.183  Sum_probs=82.1

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINA  196 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~  196 (254)
                      +|+++|.+|+|||||++++.+..+..  ..|...  .....+...+..+.+|||||...  +.       ..+..++..+
T Consensus         2 ki~~~G~~~~GKssl~~~l~~~~~~~--~~~t~~--~~~~~~~~~~~~~~i~Dt~G~~~--~~-------~~~~~~~~~~   68 (164)
T 1r8s_A            2 RILMVGLDAAGKTTILYKLKLGEIVT--TIPTIG--FNVETVEYKNISFTVWDVGGQDK--IR-------PLWRHYFQNT   68 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHCSSC--CCCCSS--CCEEEEECSSCEEEEEECCCCGG--GH-------HHHHHHTTTC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCcCc--ccCcCc--eeEEEEEECCEEEEEEEcCCChh--hH-------HHHHHHhccC
Confidence            79999999999999999999877642  222222  22334556778999999999532  11       2344568999


Q ss_pred             cEEEEEEeCCCC--chhHHHHHHHhhcc-cCCCCCEEEEEecCCCCCh
Q 025346          197 DCIVVLVDACKA--PERIDEILEEGVGD-HKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       197 d~iv~vid~~~~--~~~~~~~~~~~~~~-~~~~~piivV~nK~Dl~~~  241 (254)
                      |++++|+|+++.  +.....++..+... ...+.|+++|+||+|+.+.
T Consensus        69 d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  116 (164)
T 1r8s_A           69 QGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNA  116 (164)
T ss_dssp             SEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCeEEEEEECcCCcCC
Confidence            999999999874  45566666665543 2357899999999999875

>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=99.73  E-value=3.2e-17  Score=130.28  Aligned_cols=121  Identities=17%  Similarity=0.194  Sum_probs=85.4

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      .+..+|+++|.+|+|||||++++.+...   ..+.+|.. .....+...+..+.+|||||...  +       ...+..+
T Consensus        16 ~~~~~i~v~G~~~~GKssl~~~l~~~~~---~~~~~t~~-~~~~~~~~~~~~~~~~Dt~G~~~--~-------~~~~~~~   82 (186)
T 1ksh_A           16 ERELRLLMLGLDNAGKTTILKKFNGEDV---DTISPTLG-FNIKTLEHRGFKLNIWDVGGQKS--L-------RSYWRNY   82 (186)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHTTCCC---SSCCCCSS-EEEEEEEETTEEEEEEEECCSHH--H-------HTTGGGG
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHhcCCC---CcccccCc-cceEEEEECCEEEEEEECCCCHh--H-------HHHHHHH
Confidence            4567999999999999999999998772   22222222 22334445688999999999522  1       1223456


Q ss_pred             ccCccEEEEEEeCCCC--chhHHHHHHHhhccc-CCCCCEEEEEecCCCCChHhHHH
Q 025346          193 GINADCIVVLVDACKA--PERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPGEIAK  246 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~~~~~  246 (254)
                      +..+|++++|+|+++.  +.....++..+.... ..+.|+++|+||+|+.+.....+
T Consensus        83 ~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~  139 (186)
T 1ksh_A           83 FESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGALSCNA  139 (186)
T ss_dssp             CTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHH
T ss_pred             hcCCCEEEEEEECcCHHHHHHHHHHHHHHHhChhcCCCcEEEEEeCccCCCCCCHHH
Confidence            8899999999999874  455566766665542 35799999999999987644433

>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=99.73  E-value=3.5e-17  Score=133.10  Aligned_cols=123  Identities=18%  Similarity=0.234  Sum_probs=81.8

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecC-CeeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGP-EYQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~-~~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      .+..+|+++|.+|+|||||++++.+..+.  ..+++++........+.. +..+.+|||||...  +..      ..+..
T Consensus         5 ~~~~ki~vvG~~~~GKTsli~~l~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~--~~~------~~~~~   74 (214)
T 2fh5_B            5 SSQRAVLFVGLCDSGKTLLFVRLLTGQYR--DTQTSITDSSAIYKVNNNRGNSLTLIDLPGHES--LRF------QLLDR   74 (214)
T ss_dssp             ---CEEEEECSTTSSHHHHHHHHHHSCCC--CBCCCCSCEEEEEECSSTTCCEEEEEECCCCHH--HHH------HHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCcc--cccCCcceeeEEEEecCCCccEEEEEECCCChh--HHH------HHHHH
Confidence            34578999999999999999999988763  344555544333333333 67899999999532  111      12344


Q ss_pred             HccCccEEEEEEeCCCCc---hhHHHHHHHhhcc---cCCCCCEEEEEecCCCCChHhHH
Q 025346          192 AGINADCIVVLVDACKAP---ERIDEILEEGVGD---HKDKLPILLVLNKKDLIKPGEIA  245 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~~~---~~~~~~~~~~~~~---~~~~~piivV~nK~Dl~~~~~~~  245 (254)
                      ++..+|++++|+|+++..   .....++...+..   ...+.|+++|+||+|+.......
T Consensus        75 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~  134 (214)
T 2fh5_B           75 FKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAKSAK  134 (214)
T ss_dssp             HGGGEEEEEEEEETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTCCCHH
T ss_pred             HHhhCCEEEEEEECCCcCHHHHHHHHHHHHHHhhhhhcccCCCEEEEEECCCCCCcccHH
Confidence            688999999999998732   2233334433322   23578999999999998765443

>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=99.73  E-value=1.3e-17  Score=133.56  Aligned_cols=119  Identities=18%  Similarity=0.223  Sum_probs=85.3

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccc-cccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLS-IVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~-~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      +..+|+++|.+|+|||||++++.+..+. ...+..+++..............+.+|||||..  .+...       +..+
T Consensus        22 ~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~--~~~~~-------~~~~   92 (192)
T 2fg5_A           22 RELKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQE--RFHSL-------APMY   92 (192)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHHCCCCTTCCCCSSEEEEEEEEECSSSEEEEEEEEECCSG--GGGGG-------THHH
T ss_pred             CceEEEEECcCCCCHHHHHHHHhcCCCCCCcCCCcceeEEEEEEEeCCEEEEEEEEcCCCch--hhHhh-------hHHh
Confidence            3568999999999999999999988753 233334444444444445567789999999943  22222       2345


Q ss_pred             ccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          193 GINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      +..+|++++|+|+++.  +..+..++..+......+.|+++|+||+|+.+.
T Consensus        93 ~~~~d~iilV~d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~~  143 (192)
T 2fg5_A           93 YRGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKCDLSDI  143 (192)
T ss_dssp             HTTCSEEEEEEETTCTHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGG
T ss_pred             hccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccc
Confidence            7889999999999874  345556666655544467999999999999753

>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=99.73  E-value=2.2e-17  Score=130.25  Aligned_cols=121  Identities=17%  Similarity=0.210  Sum_probs=84.4

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCC-CCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNK-PQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~-~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      ....+|+++|.+|+|||||++++++..+...... .+.+..............+.+|||||..  .+...       +..
T Consensus        10 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~--~~~~~-------~~~   80 (181)
T 2efe_B           10 SINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQE--RYHSL-------APM   80 (181)
T ss_dssp             CEEEEEEEECCTTSCHHHHHHHHHHCCCTTTSCCCSCCSEEEEEEEETTEEEEEEEEECCCSG--GGGGG-------THH
T ss_pred             ccceEEEEECcCCCCHHHHHHHHHcCCCCCcCCCCceeEEEEEEEEECCEEEEEEEEeCCCCh--hhhhh-------hHH
Confidence            4456899999999999999999998876532211 1222222223334445689999999943  22222       234


Q ss_pred             HccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          192 AGINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      ++..+|++++|+|+++.  +.....++..+......+.|+++|+||+|+.+.+
T Consensus        81 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~  133 (181)
T 2efe_B           81 YYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDLLDAR  133 (181)
T ss_dssp             HHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTC
T ss_pred             HhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCcccccc
Confidence            57889999999999874  4555666666665545689999999999997654

>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=99.73  E-value=4.2e-17  Score=130.63  Aligned_cols=116  Identities=22%  Similarity=0.225  Sum_probs=82.9

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      .+..+|+++|.+|+|||||++++.+..+....+..+.    ....+..++..+.+|||||....  ..+       +..+
T Consensus        21 ~~~~ki~~vG~~~vGKSsli~~l~~~~~~~~~~t~~~----~~~~~~~~~~~~~i~Dt~G~~~~--~~~-------~~~~   87 (190)
T 1m2o_B           21 NKHGKLLFLGLDNAGKTTLLHMLKNDRLATLQPTWHP----TSEELAIGNIKFTTFDLGGHIQA--RRL-------WKDY   87 (190)
T ss_dssp             ---CEEEEEESTTSSHHHHHHHHHHSCCCCCCCCCSC----EEEEEEETTEEEEEEECCCSGGG--TTS-------GGGG
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCCccccCCCC----CeEEEEECCEEEEEEECCCCHHH--HHH-------HHHH
Confidence            3456899999999999999999998876533222222    23445556789999999995432  221       2345


Q ss_pred             ccCccEEEEEEeCCCC--chhHHHHHHHhhccc-CCCCCEEEEEecCCCCCh
Q 025346          193 GINADCIVVLVDACKA--PERIDEILEEGVGDH-KDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~  241 (254)
                      +..+|++++|+|+++.  +.....++..+.... ..+.|+++|+||+|+.+.
T Consensus        88 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~  139 (190)
T 1m2o_B           88 FPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNA  139 (190)
T ss_dssp             CTTCCEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTC
T ss_pred             HhcCCEEEEEEECCChHHHHHHHHHHHHHHcchhhcCCCEEEEEECCCCcCC
Confidence            7899999999999884  455666776665532 367999999999999763

>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=99.73  E-value=1.4e-17  Score=129.33  Aligned_cols=117  Identities=21%  Similarity=0.199  Sum_probs=80.8

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEE--ecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGIC--SGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~--~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      ..+|+++|.+|+|||||++++.+..+.  ..+.+++........  +.....+.+|||||....  .       ..+..+
T Consensus         4 ~~~i~v~G~~~~GKssl~~~l~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~l~D~~G~~~~--~-------~~~~~~   72 (168)
T 1u8z_A            4 LHKVIMVGSGGVGKSALTLQFMYDEFV--EDYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDY--A-------AIRDNY   72 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCC--SCCCTTCCEEEEEEEEETTEEEEEEEEECCC---C--H-------HHHHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhCccC--CCCCCCcceEEEEEEEECCEEEEEEEEECCCcchh--H-------HHHHHH
Confidence            468999999999999999999988753  344444443333333  333468999999994322  2       223445


Q ss_pred             ccCccEEEEEEeCCCC--chhHHHHHHHhhcccC-CCCCEEEEEecCCCCChH
Q 025346          193 GINADCIVVLVDACKA--PERIDEILEEGVGDHK-DKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~-~~~piivV~nK~Dl~~~~  242 (254)
                      +..+|++++|+|+++.  +.....++..+..... .+.|+++|+||+|+.+.+
T Consensus        73 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~  125 (168)
T 1u8z_A           73 FRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKR  125 (168)
T ss_dssp             HHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGGGGC
T ss_pred             hhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccccccC
Confidence            7789999999999973  3445555555544332 479999999999997643

>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=99.73  E-value=2.1e-17  Score=131.90  Aligned_cols=121  Identities=21%  Similarity=0.215  Sum_probs=82.3

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEE--EEecCCeeEEEEecCCCcccchhhhhHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILG--ICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVR  190 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~--~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~  190 (254)
                      .+..+|+++|.+|+|||||++++.+..+... ..+..+.+....  ..+.....+.+|||||..  .+.      ...+.
T Consensus        18 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~-~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~--~~~------~~~~~   88 (189)
T 1z06_A           18 SRIFKIIVIGDSNVGKTCLTYRFCAGRFPDR-TEATIGVDFRERAVDIDGERIKIQLWDTAGQE--RFR------KSMVQ   88 (189)
T ss_dssp             -CEEEEEEECCTTSSHHHHHHHHHHSSCCSS-CCCCCSCCEEEEEEEETTEEEEEEEEECCCSH--HHH------TTTHH
T ss_pred             CceEEEEEECCCCCCHHHHHHHHHcCCCCCC-CCCCcceEEEEEEEEECCEEEEEEEEECCCch--hhh------hhhhH
Confidence            3457999999999999999999998876422 222222222222  233334689999999942  211      02234


Q ss_pred             HHccCccEEEEEEeCCCC--chhHHHHHHHhhccc-CCCCCEEEEEecCCCCChH
Q 025346          191 SAGINADCIVVLVDACKA--PERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~  242 (254)
                      .++..+|++++|+|+++.  +..+..|+..+.... ..+.|+++|+||+|+.+.+
T Consensus        89 ~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~  143 (189)
T 1z06_A           89 HYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAI  143 (189)
T ss_dssp             HHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGGC
T ss_pred             HHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccc
Confidence            557899999999999873  345556666655543 4679999999999997653

>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=99.73  E-value=1.4e-17  Score=131.09  Aligned_cols=122  Identities=22%  Similarity=0.307  Sum_probs=86.4

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecC--CeeEEEEecCCCcccchhhhhHHHHHH
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGP--EYQMILYDTPGIIEKKIHMLDSMMMKN  188 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~--~~~~~liDtpG~~~~~~~~~~~~~~~~  188 (254)
                      +..+..+|+++|.+|+|||||++++++..+  ...+.+++...........  ...+.+|||||...  +..+.      
T Consensus         5 ~~~~~~~i~v~G~~~~GKssli~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~~~Dt~G~~~--~~~~~------   74 (181)
T 2fn4_A            5 PPSETHKLVVVGGGGVGKSALTIQFIQSYF--VSDYDPTIEDSYTKICSVDGIPARLDILDTAGQEE--FGAMR------   74 (181)
T ss_dssp             CSSCEEEEEEEECTTSSHHHHHHHHHHSSC--CSSCCTTCCEEEEEEEEETTEEEEEEEEECCCTTT--TSCCH------
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHHhCcC--ccccCCCcCceEEEEEEECCEEEEEEEEECCCchh--hHHHH------
Confidence            344567999999999999999999998865  3455556555444444444  35789999999533  22222      


Q ss_pred             HHHHccCccEEEEEEeCCC--CchhHHHHHHHhhccc-CCCCCEEEEEecCCCCChHh
Q 025346          189 VRSAGINADCIVVLVDACK--APERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       189 ~~~~~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~~  243 (254)
                       ..++..+|++++|+|+++  ++.....++..+.... ..+.|+++|+||+|+.+.++
T Consensus        75 -~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~  131 (181)
T 2fn4_A           75 -EQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQ  131 (181)
T ss_dssp             -HHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGGCC
T ss_pred             -HHHHhhCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccc
Confidence             234667999999999988  3455666666654432 35789999999999976543

>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=99.73  E-value=2.3e-17  Score=130.61  Aligned_cols=121  Identities=20%  Similarity=0.230  Sum_probs=83.2

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEe--cCCeeEEEEecCCCcccchhhhhHHHHHH
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICS--GPEYQMILYDTPGIIEKKIHMLDSMMMKN  188 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~--~~~~~~~liDtpG~~~~~~~~~~~~~~~~  188 (254)
                      ...+..+|+++|.+|+|||||++++.+..+.  ..+.+++.........  .....+.+|||||..  .+..+.      
T Consensus        14 ~~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~--~~~~~~------   83 (183)
T 3kkq_A           14 ENLPTYKLVVVGDGGVGKSALTIQFFQKIFV--DDYDPTIEDSYLKHTEIDNQWAILDVLDTAGQE--EFSAMR------   83 (183)
T ss_dssp             CCCCEEEEEEECSTTSSHHHHHHHHHHSCCC--SCCCTTCCEEEEEEEEETTEEEEEEEEECCSCG--GGCSSH------
T ss_pred             cCCCceEEEEECCCCCCHHHHHHHHHhCCCC--CCCCCCccceeEEEEEeCCcEEEEEEEECCCch--hhHHHH------
Confidence            3455679999999999999999999987653  3343444333333333  334567789999943  333332      


Q ss_pred             HHHHccCccEEEEEEeCCCC--chhHHHHHHHhhcc-cCCCCCEEEEEecCCCCChH
Q 025346          189 VRSAGINADCIVVLVDACKA--PERIDEILEEGVGD-HKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       189 ~~~~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~-~~~~~piivV~nK~Dl~~~~  242 (254)
                       ..++..+|++++|+|+++.  +..+..++..+... ...+.|+++|+||+|+.+.+
T Consensus        84 -~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~  139 (183)
T 3kkq_A           84 -EQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLR  139 (183)
T ss_dssp             -HHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCSTTC
T ss_pred             -HHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCCchhcc
Confidence             2346779999999999883  45556666655442 23678999999999997643

>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=99.73  E-value=1.3e-17  Score=133.40  Aligned_cols=120  Identities=18%  Similarity=0.190  Sum_probs=84.3

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCC-CceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKP-QTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~-~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      ....+|+++|.+|+|||||++++.+..+......+ +.+..............+.+|||||....  ..+       +..
T Consensus        23 ~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~--~~~-------~~~   93 (193)
T 2oil_A           23 NFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGLERY--RAI-------TSA   93 (193)
T ss_dssp             SEEEEEEEESSTTSSHHHHHHHHHHSCCCSSCCCCSSEEEEEEEEEETTEEEEEEEEEESCCCTT--CTT-------HHH
T ss_pred             CcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCchhh--hhh-------hHH
Confidence            33468999999999999999999988765322222 22222222333445678999999996432  222       334


Q ss_pred             HccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          192 AGINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      ++..+|++++|+|+++.  +.....++..+......+.|+++|+||+|+...
T Consensus        94 ~~~~~d~vi~v~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~  145 (193)
T 2oil_A           94 YYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDLSQA  145 (193)
T ss_dssp             HHTTCCEEEEEEETTCHHHHHTHHHHHHHHHTTSCTTCEEEEEEECGGGGGG
T ss_pred             HhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECCCcccc
Confidence            57899999999999873  344566666665554567999999999999764

>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=99.73  E-value=1.5e-17  Score=129.62  Aligned_cols=117  Identities=21%  Similarity=0.220  Sum_probs=82.7

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEE--EEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRH--RILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~--~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      ..+|+++|.+|+|||||++++.+..+.. ...+..+..  ......+.....+.+|||||...  +...       +..+
T Consensus         3 ~~~i~v~G~~~~GKssli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~--~~~~-------~~~~   72 (170)
T 1ek0_A            3 SIKLVLLGEAAVGKSSIVLRFVSNDFAE-NKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQER--FASL-------APXY   72 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCT-TCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGG--GGGG-------HHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCCCCC-CCCCccceeEEEEEEEECCEEEEEEEEECCCChh--hhhh-------hhhh
Confidence            3589999999999999999999887642 222333222  22233344456899999999432  2222       3345


Q ss_pred             ccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          193 GINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      +..+|++++|+|+++.  +.....++..+......+.|+++|+||+|+...
T Consensus        73 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  123 (170)
T 1ek0_A           73 YRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDXLQE  123 (170)
T ss_dssp             HTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGS
T ss_pred             hccCcEEEEEEecCChHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCcccc
Confidence            7899999999999884  455566666666555568999999999999754

>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=99.73  E-value=1.9e-17  Score=134.12  Aligned_cols=119  Identities=18%  Similarity=0.158  Sum_probs=84.3

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEec--CCeeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSG--PEYQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~--~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      ...+|+++|.+|+|||||++++.+..+. ....+..+.+.....+..  ....+.+|||||..  .+.       ..+..
T Consensus        25 ~~~ki~lvG~~~vGKSsLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~--~~~-------~~~~~   94 (201)
T 2ew1_A           25 FLFKIVLIGNAGVGKTCLVRRFTQGLFP-PGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQE--RFR-------SITQS   94 (201)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHSSCC-TTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSG--GGH-------HHHGG
T ss_pred             cceEEEEECcCCCCHHHHHHHHHhCCCC-CCCCCccceeEEEEEEEECCEEEEEEEEECCCcH--HHH-------HHHHH
Confidence            3468999999999999999999988764 233333333433333333  34689999999942  221       23446


Q ss_pred             HccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          192 AGINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      ++..+|++++|+|+++.  +..+..|+..+......+.|+++|+||+|+.+.+
T Consensus        95 ~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~  147 (201)
T 2ew1_A           95 YYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERR  147 (201)
T ss_dssp             GSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGC
T ss_pred             HHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCcccc
Confidence            68899999999999873  4445666666555445679999999999997543

>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=99.73  E-value=2.6e-17  Score=132.74  Aligned_cols=119  Identities=13%  Similarity=0.101  Sum_probs=83.3

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCcccccc-CCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVT-NKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~-~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      ..+|+++|.+|+|||||++++++..+.... +..+.+..............+.+|||||....  .       ..+..++
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~--~-------~~~~~~~   78 (203)
T 1zbd_A            8 MFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGLERY--R-------TITTAYY   78 (203)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTCCCCSCCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGG--H-------HHHHTTG
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeEEEEEEEECCeEEEEEEEECCCchhh--c-------chHHHhh
Confidence            468999999999999999999998764221 11122222222333444678999999995322  1       2345668


Q ss_pred             cCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          194 INADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       194 ~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      ..+|++++|+|+++.  +.....|+..+......+.|+++|+||+|+.+.+
T Consensus        79 ~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~  129 (203)
T 1zbd_A           79 RGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDER  129 (203)
T ss_dssp             GGCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCSSCEEEEEEECTTCTTSC
T ss_pred             cCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccCccc
Confidence            899999999999873  3445566666554444679999999999997643

>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=99.73  E-value=3.5e-17  Score=128.65  Aligned_cols=117  Identities=18%  Similarity=0.162  Sum_probs=79.9

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecC--CeeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGP--EYQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~--~~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      ...+|+++|.+|+|||||++++++..+. ....+..+.......+...  ...+.+|||||...  +.       ..+..
T Consensus         6 ~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~--~~-------~~~~~   75 (177)
T 1wms_A            6 SLFKVILLGDGGVGKSSLMNRYVTNKFD-TQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQER--FR-------SLRTP   75 (177)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHHSCCC-C----CCSEEEEEEEEEETTEEEEEEEEECCCCGG--GH-------HHHGG
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHcCCCC-CCCCCceeeeEEEEEEEECCEEEEEEEEeCCCchh--hh-------hhHHH
Confidence            3568999999999999999999987764 2333333333333333333  46899999999432  21       23445


Q ss_pred             HccCccEEEEEEeCCCC--chhHHHHHHHhhcccC----CCCCEEEEEecCCCCC
Q 025346          192 AGINADCIVVLVDACKA--PERIDEILEEGVGDHK----DKLPILLVLNKKDLIK  240 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~----~~~piivV~nK~Dl~~  240 (254)
                      ++..+|++++|+|+++.  +.....++..+.....    .+.|+++|+||+|+..
T Consensus        76 ~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~  130 (177)
T 1wms_A           76 FYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISE  130 (177)
T ss_dssp             GGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCSS
T ss_pred             HHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHHccccccCCCcEEEEEECCcccc
Confidence            68899999999999883  3445555555443222    6789999999999974

>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=99.73  E-value=1.3e-17  Score=131.94  Aligned_cols=118  Identities=28%  Similarity=0.335  Sum_probs=82.1

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCC--eeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPE--YQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      +..+|+++|.+|+|||||++++.+..+  ...+.+++...........+  ..+.+|||||....  ..+       ...
T Consensus         5 ~~~ki~~~G~~~~GKSsli~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~--~~~-------~~~   73 (181)
T 3t5g_A            5 KSRKIAILGYRSVGKSSLTIQFVEGQF--VDSYDPTIENTFTKLITVNGQEYHLQLVDTAGQDEY--SIF-------PQT   73 (181)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHSSC--CSCCCTTCCEEEEEEEEETTEEEEEEEEECCCCCTT--CCC-------CGG
T ss_pred             ceEEEEEECcCCCCHHHHHHHHHcCCC--CCCCCCCccccEEEEEEECCEEEEEEEEeCCCchhh--hHH-------HHH
Confidence            456899999999999999999997765  34444554444444444443  67899999995432  221       224


Q ss_pred             HccCccEEEEEEeCCC--CchhHHHHHHHhhccc-CCCCCEEEEEecCCCCChH
Q 025346          192 AGINADCIVVLVDACK--APERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~  242 (254)
                      ++..+|++++|+|+++  ++..+..++..+.... ..+.|+++|+||+|+.+.+
T Consensus        74 ~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~  127 (181)
T 3t5g_A           74 YSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMER  127 (181)
T ss_dssp             GTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHC----CCEEEEEECTTCTTTC
T ss_pred             HHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchhcc
Confidence            5788999999999987  3455556666554433 3578999999999997544

>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=99.73  E-value=2.1e-17  Score=128.78  Aligned_cols=116  Identities=19%  Similarity=0.236  Sum_probs=79.0

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEe--cCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICS--GPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~--~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      ..+|+++|.+|+|||||++++.+.++. ....++.+.........  .....+.+|||||..  .+...       +..+
T Consensus         3 ~~~i~v~G~~~~GKssli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~--~~~~~-------~~~~   72 (170)
T 1g16_A            3 IMKILLIGDSGVGKSCLLVRFVEDKFN-PSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQE--RFRTI-------TTAY   72 (170)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHCCCC-C-------CCEEEEEEESSSCEEEEEEECCTTGG--GTSCC-------CHHH
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhCCCC-CCCCCccceeEEEEEEEECCEEEEEEEEeCCCCh--hhhhh-------HHHH
Confidence            358999999999999999999988764 22333333333333333  334689999999943  22222       2344


Q ss_pred             ccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          193 GINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      +..+|++++|+|+++.  +.....++..+......+.|+++|+||+|+..
T Consensus        73 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~  122 (170)
T 1g16_A           73 YRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMET  122 (170)
T ss_dssp             HTTEEEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTT
T ss_pred             hccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCCc
Confidence            7899999999999873  34556666665554456799999999999954

>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=99.73  E-value=7.4e-17  Score=128.43  Aligned_cols=116  Identities=18%  Similarity=0.201  Sum_probs=82.8

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      .+..+|+++|.+|+|||||++++.+.++....+..+.+.    ..+...+..+.+|||||...  +...       +..+
T Consensus        14 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~t~~~~~----~~~~~~~~~~~i~Dt~G~~~--~~~~-------~~~~   80 (187)
T 1zj6_A           14 HQEHKVIIVGLDNAGKTTILYQFSMNEVVHTSPTIGSNV----EEIVINNTRFLMWDIGGQES--LRSS-------WNTY   80 (187)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHHTTSCEEEECCSCSSC----EEEEETTEEEEEEECCC------CGG-------GHHH
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCCcCcCCCccce----EEEEECCEEEEEEECCCCHh--HHHH-------HHHH
Confidence            446799999999999999999999877653333222221    22334578999999999533  2222       2345


Q ss_pred             ccCccEEEEEEeCCCC--chhHHHHHHHhhccc-CCCCCEEEEEecCCCCCh
Q 025346          193 GINADCIVVLVDACKA--PERIDEILEEGVGDH-KDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~  241 (254)
                      +..+|++++|+|+++.  +.....++..+.... ..+.|+++|+||+|+.+.
T Consensus        81 ~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~  132 (187)
T 1zj6_A           81 YTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKEC  132 (187)
T ss_dssp             HTTCCEEEEEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTC
T ss_pred             hcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhchhhCCCeEEEEEECCCCcCC
Confidence            7899999999999874  566777777766542 257999999999999864

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=99.73  E-value=1.1e-17  Score=131.74  Aligned_cols=119  Identities=18%  Similarity=0.144  Sum_probs=83.7

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCC--eeEEEEecCCCcccchhhhhHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPE--YQMILYDTPGIIEKKIHMLDSMMMKNVR  190 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~  190 (254)
                      ....+|+++|.+|+|||||++++.+..+. ....++.+.......+...+  ..+.+|||||...  +...       +.
T Consensus         7 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~--~~~~-------~~   76 (181)
T 3tw8_B            7 DHLFKLLIIGDSGVGKSSLLLRFADNTFS-GSYITTIGVDFKIRTVEINGEKVKLQIWDTAGQER--FRTI-------TS   76 (181)
T ss_dssp             CEEEEEEEECCTTSCHHHHHHHHCSCC----CCTTTBSEEEEEEEEEETTEEEEEEEEEETTGGG--CSSC-------CG
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhcCCCC-CccCCCceeEEEEEEEEECCEEEEEEEEcCCCchh--hhhh-------HH
Confidence            34578999999999999999999998875 34455555555544444444  7899999999432  2222       23


Q ss_pred             HHccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          191 SAGINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      .++..+|++++|+|+++.  +.....++..+.. ...+.|+++|+||+|+.+.+
T Consensus        77 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~-~~~~~p~ilv~nK~Dl~~~~  129 (181)
T 3tw8_B           77 TYYRGTHGVIVVYDVTSAESFVNVKRWLHEINQ-NCDDVCRILVGNKNDDPERK  129 (181)
T ss_dssp             GGGTTCSEEEEEEETTCHHHHHHHHHHHHHHHH-HCTTSEEEEEEECTTCGGGC
T ss_pred             HHhccCCEEEEEEECCCHHHHHHHHHHHHHHHH-hCCCCCEEEEEECCCCchhc
Confidence            457899999999999883  3444555555443 34579999999999987643

>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=99.73  E-value=1.7e-17  Score=128.92  Aligned_cols=117  Identities=19%  Similarity=0.187  Sum_probs=81.2

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEE--EecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGI--CSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~--~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      ..+|+++|.+|+|||||++++.+..+.  ..+.+++.......  .+.....+.+|||||....  ..+       +..+
T Consensus         3 ~~ki~v~G~~~~GKssli~~l~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~l~D~~G~~~~--~~~-------~~~~   71 (167)
T 1c1y_A            3 EYKLVVLGSGGVGKSALTVQFVQGIFV--EKYDPTIEDSYRKQVEVDCQQCMLEILDTAGTEQF--TAM-------RDLY   71 (167)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHCCCC--CSCCCCSEEEEEEEEESSSCEEEEEEEEECSSCSS--TTH-------HHHH
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcCCCC--CCCCCCccceEEEEEEECCEEEEEEEEECCChHHH--HHH-------HHHH
Confidence            458999999999999999999987663  33334443333332  3344568999999995432  222       2244


Q ss_pred             ccCccEEEEEEeCCCC--chhHHHHHHHhhccc-CCCCCEEEEEecCCCCChH
Q 025346          193 GINADCIVVLVDACKA--PERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~  242 (254)
                      +..+|++++|+|+++.  +.....++..+.... ..+.|+++|+||+|+.+.+
T Consensus        72 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~  124 (167)
T 1c1y_A           72 MKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDER  124 (167)
T ss_dssp             HHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGGC
T ss_pred             hccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCcCCCcEEEEEECccccccc
Confidence            6679999999999873  345555655554432 3579999999999997643

>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=99.73  E-value=9e-18  Score=141.24  Aligned_cols=119  Identities=25%  Similarity=0.352  Sum_probs=88.9

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchh----hhhHHHHHHHHH
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIH----MLDSMMMKNVRS  191 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~----~~~~~~~~~~~~  191 (254)
                      ++|+++|.+|+|||||+|++.+.... +++.|++|.+...+.+...+..+.+|||||+......    ..+...   ...
T Consensus         2 ~kI~lvG~~n~GKSTL~n~L~g~~~~-v~~~pg~Tv~~~~~~~~~~~~~~~lvDtpG~~~~~~~~~~~~~~e~i---~~~   77 (256)
T 3iby_A            2 THALLIGNPNCGKTTLFNALTNANQR-VGNWPGVTVEKKTGEFLLGEHLIEITDLPGVYSLVANAEGISQDEQI---AAQ   77 (256)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTSEE-EEECTTSSSEEEEEEEEETTEEEEEEECCCCSSCC------CHHHHH---HHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCC-ccCCCCceEEEEEEEEEECCeEEEEEeCCCcccccccccCCCHHHHH---HHH
Confidence            57999999999999999999998754 7888999988888888888889999999997654321    222222   222


Q ss_pred             Hc--cCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          192 AG--INADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       192 ~~--~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      ++  ..+|++++|+|+++. +....+...+.   ..+.|+++|+||+|+...+
T Consensus        78 ~~~~~~~d~vi~VvDas~~-~~~~~l~~~l~---~~~~pvilv~NK~Dl~~~~  126 (256)
T 3iby_A           78 SVIDLEYDCIINVIDACHL-ERHLYLTSQLF---ELGKPVVVALNMMDIAEHR  126 (256)
T ss_dssp             HHHHSCCSEEEEEEEGGGH-HHHHHHHHHHT---TSCSCEEEEEECHHHHHHT
T ss_pred             HHhhCCCCEEEEEeeCCCc-hhHHHHHHHHH---HcCCCEEEEEEChhcCCcC
Confidence            33  789999999999883 22223333322   2478999999999986543

>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=99.72  E-value=1.9e-17  Score=133.81  Aligned_cols=119  Identities=16%  Similarity=0.131  Sum_probs=80.7

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecC--CeeEEEEecCCCcccchhhhhHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGP--EYQMILYDTPGIIEKKIHMLDSMMMKNVR  190 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~--~~~~~liDtpG~~~~~~~~~~~~~~~~~~  190 (254)
                      ....+|+++|.+|+|||||++++.+..+.. ...+..+.+.....+...  ...+.+|||||..  .+.       ..+.
T Consensus        27 ~~~~ki~vvG~~~vGKSsli~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~--~~~-------~~~~   96 (201)
T 2hup_A           27 DFLFKLVLVGDASVGKTCVVQRFKTGAFSE-RQGSTIGVDFTMKTLEIQGKRVKLQIWDTAGQE--RFR-------TITQ   96 (201)
T ss_dssp             CEEEEEEEEECTTSSHHHHHHHHHHSCC-----------CEEEEEEEETTEEEEEEEECCTTCG--GGH-------HHHH
T ss_pred             ccceEEEEECcCCCCHHHHHHHHhhCCCCC-CCCCCcceEEEEEEEEECCEEEEEEEEECCCcH--hHH-------HHHH
Confidence            345689999999999999999999877642 222222222223333333  3689999999943  222       2344


Q ss_pred             HHccCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          191 SAGINADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      .++..+|++++|+|+++  ++..+..|+..+......+.|+++|+||+|+...
T Consensus        97 ~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~  149 (201)
T 2hup_A           97 SYYRSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGNKSDLSEL  149 (201)
T ss_dssp             HHHTTCSEEEEEEETTBHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGG
T ss_pred             HHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCccccc
Confidence            56889999999999987  3455666666665544567999999999999764

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=99.72  E-value=2.7e-17  Score=130.56  Aligned_cols=116  Identities=22%  Similarity=0.205  Sum_probs=80.7

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEe--cCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICS--GPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~--~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      ..+|+++|.+|+|||||++++.+..+.  ..+++++.........  +....+.+|||||...  +..+       +..+
T Consensus         4 ~~ki~v~G~~~~GKSsli~~l~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~--~~~~-------~~~~   72 (189)
T 4dsu_A            4 EYKLVVVGADGVGKSALTIQLIQNHFV--DEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEE--YSAM-------RDQY   72 (189)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSSCC--CCCCTTCCEEEEEEEEETTEEEEEEEEECCCC-----CTT-------HHHH
T ss_pred             EEEEEEECCCCCCHHHHHHHHHhCCCC--CCCCCCchheEEEEEEECCcEEEEEEEECCCcHH--HHHH-------HHHH
Confidence            468999999999999999999988763  4445555444444333  3345688899999433  2222       2234


Q ss_pred             ccCccEEEEEEeCCCC--chhHHHHHHHhhccc-CCCCCEEEEEecCCCCCh
Q 025346          193 GINADCIVVLVDACKA--PERIDEILEEGVGDH-KDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~  241 (254)
                      +..+|++++|+|+++.  +.....++..+.... ..+.|+++|+||+|+...
T Consensus        73 ~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~  124 (189)
T 4dsu_A           73 MRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLPSR  124 (189)
T ss_dssp             HHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTSSSC
T ss_pred             HhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccCccc
Confidence            6679999999999883  345556665554432 357999999999999754

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=99.72  E-value=1.7e-16  Score=139.54  Aligned_cols=134  Identities=26%  Similarity=0.389  Sum_probs=99.4

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      ....+++++|.+|+|||||+|++.+.... +...+++|...........+..+.+|||||+...................
T Consensus       165 ~~~~~v~lvG~~gvGKSTLin~L~~~~~~-~~~~~~~t~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~  243 (357)
T 2e87_A          165 LEIPTVVIAGHPNVGKSTLLKALTTAKPE-IASYPFTTRGINVGQFEDGYFRYQIIDTPGLLDRPISERNEIEKQAILAL  243 (357)
T ss_dssp             SSSCEEEEECSTTSSHHHHHHHHCSSCCE-EECCTTCSSCEEEEEEEETTEEEEEEECTTTSSSCSTTSCHHHHHHHHGG
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCc-cCCCCCeeeceeEEEEEecCceEEEEeCCCccccchhhhhHHHHHHHHHH
Confidence            45679999999999999999999998743 66778888777777776678899999999987654433333333444455


Q ss_pred             ccCccEEEEEEeCCCC----chhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHHHH
Q 025346          193 GINADCIVVLVDACKA----PERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKL  248 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~----~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~~~  248 (254)
                      ...+|++++|+|+++.    ......++..+.... .+.|+++|+||+|+....++.+..
T Consensus       244 ~~~ad~illV~D~s~~~~~~~~~~~~~~~~i~~~~-~~~piilV~NK~Dl~~~~~~~~~~  302 (357)
T 2e87_A          244 RYLGNLIIYIFDPSEHCGFPLEEQIHLFEEVHGEF-KDLPFLVVINKIDVADEENIKRLE  302 (357)
T ss_dssp             GGTCSEEEEEECTTCTTSSCHHHHHHHHHHHHHHT-TTSCEEEEECCTTTCCHHHHHHHH
T ss_pred             HhcCCEEEEEEeCCccccCCHHHHHHHHHHHHHhc-CCCCEEEEEECcccCChHHHHHHH
Confidence            6689999999998763    344455555554433 279999999999999877664433

>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=99.72  E-value=3.7e-17  Score=132.58  Aligned_cols=118  Identities=19%  Similarity=0.201  Sum_probs=82.8

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCC--eeEEEEecCCCcccchhhhhHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPE--YQMILYDTPGIIEKKIHMLDSMMMKNVR  190 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~  190 (254)
                      ....+|+++|.+|+|||||++++++..+. ....++.+.......+...+  ..+.+|||||..  .+...       +.
T Consensus        18 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~--~~~~~-------~~   87 (213)
T 3cph_A           18 DSIMKILLIGDSGVGKSCLLVRFVEDKFN-PSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQE--RFRTI-------TT   87 (213)
T ss_dssp             --CEEEEEECSTTSSHHHHHHHHHHCCCC-CSSSCCCSCCEEEEEEEETTEEEEEEEECCTTGG--GGTCC-------CH
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHhCCCC-cccCCcccceEEEEEEEECCEEEEEEEEeCCCcH--HHHHH-------HH
Confidence            44579999999999999999999988764 23334444333333344344  689999999943  22222       23


Q ss_pred             HHccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          191 SAGINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      .++..+|++++|+|+++.  +.....++..+......+.|+++|+||+|+..
T Consensus        88 ~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~  139 (213)
T 3cph_A           88 AYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMET  139 (213)
T ss_dssp             HHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHTTTCSEEEEEEECTTCSS
T ss_pred             HHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCcc
Confidence            457899999999999873  44555666665554455799999999999953

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=99.72  E-value=1.5e-17  Score=134.27  Aligned_cols=122  Identities=28%  Similarity=0.340  Sum_probs=82.6

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEE--ecCCeeEEEEecCCCcccchhhhhHHHHHH
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGIC--SGPEYQMILYDTPGIIEKKIHMLDSMMMKN  188 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~--~~~~~~~~liDtpG~~~~~~~~~~~~~~~~  188 (254)
                      +..+..+|+++|.+|+|||||++++.+..+.  ..+.+++........  ......+.+|||||....  ..+       
T Consensus        20 ~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~--~~~-------   88 (201)
T 3oes_A           20 PLVRYRKVVILGYRCVGKTSLAHQFVEGEFS--EGYDPTVENTYSKIVTLGKDEFHLHLVDTAGQDEY--SIL-------   88 (201)
T ss_dssp             ---CEEEEEEEESTTSSHHHHHHHHHHSCCC--SCCCCCSEEEEEEEEC----CEEEEEEEECCCCTT--CCC-------
T ss_pred             CCCCcEEEEEECCCCcCHHHHHHHHHhCCCC--CCCCCccceEEEEEEEECCEEEEEEEEECCCccch--HHH-------
Confidence            3445679999999999999999999998875  334444443333333  345678899999995432  222       


Q ss_pred             HHHHccCccEEEEEEeCCC--CchhHHHHHHHhhccc-CCCCCEEEEEecCCCCChHh
Q 025346          189 VRSAGINADCIVVLVDACK--APERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       189 ~~~~~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~~  243 (254)
                      +..++..+|++++|+|+++  ++..+..++..+.... ..++|+++|+||+|+.+.++
T Consensus        89 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~  146 (201)
T 3oes_A           89 PYSFIIGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKADLSPERE  146 (201)
T ss_dssp             CGGGTTTCCEEEEEEETTCHHHHHHHHHHHHHHHC-----CCCEEEEEECTTCGGGCC
T ss_pred             HHHHHhcCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCccccc
Confidence            2345789999999999987  3455666666665542 24789999999999976543

>3a1s_A Iron(II) transport protein B; FEOB, iron transporter, small GTPase, G protein, GDI; HET: GDP; 1.50A {Thermotoga maritima} PDB: 3a1t_A* 3a1u_A* 3a1v_A* 3a1w_A

Probab=99.72  E-value=1.8e-17  Score=139.48  Aligned_cols=121  Identities=26%  Similarity=0.317  Sum_probs=90.0

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      ..+|+++|.+|+|||||+|++++..+. +++.+++|.....+.+...+..+.+|||||.........+......+.. ..
T Consensus         5 ~~kI~lvG~~nvGKTsL~n~l~g~~~~-~~~~pg~tv~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~e~v~~~~~~-~~   82 (258)
T 3a1s_A            5 MVKVALAGCPNVGKTSLFNALTGTKQY-VANWPGVTVEKKEGVFTYKGYTINLIDLPGTYSLGYSSIDEKIARDYLL-KG   82 (258)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHTTCEE-EEECTTSCCEEEEEEEEETTEEEEEEECCCCSSCCSSSHHHHHHHHHHH-HS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHCCCCc-ccCCCCceEEEEEEEEEECCeEEEEEECCCcCccCCCCHHHHHHHHHHh-hc
Confidence            468999999999999999999998865 7788999988888888888899999999997554322222222111111 26


Q ss_pred             CccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          195 NADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       195 ~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      .+|++++|+|+++.. ....++..+..   .+.|+++|+||+|+...
T Consensus        83 ~~d~ii~V~D~t~~~-~~~~~~~~l~~---~~~pvilv~NK~Dl~~~  125 (258)
T 3a1s_A           83 DADLVILVADSVNPE-QSLYLLLEILE---MEKKVILAMTAIDEAKK  125 (258)
T ss_dssp             CCSEEEEEEETTSCH-HHHHHHHHHHT---TTCCEEEEEECHHHHHH
T ss_pred             CCCEEEEEeCCCchh-hHHHHHHHHHh---cCCCEEEEEECcCCCCc
Confidence            899999999999843 33344444433   47999999999998654

>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=99.72  E-value=5.9e-17  Score=128.92  Aligned_cols=119  Identities=17%  Similarity=0.099  Sum_probs=81.9

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEE-EEEEecC-----------CeeEEEEecCCCcccchhh
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRI-LGICSGP-----------EYQMILYDTPGIIEKKIHM  180 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~-~~~~~~~-----------~~~~~liDtpG~~~~~~~~  180 (254)
                      ....+|+++|.+|+|||||++++.+..+.. ...+..+.... .......           ...+.+|||||....  . 
T Consensus         9 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~--~-   84 (195)
T 3bc1_A            9 DYLIKFLALGDSGVGKTSVLYQYTDGKFNS-KFITTVGIDFREKRVVYRANGPDGAVGRGQRIHLQLWDTAGLERF--R-   84 (195)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHHSCCCC-SCCCCCSEEEEEEEEEECTTSCCCSSCCCEEEEEEEEEECCSGGG--H-
T ss_pred             ceeEEEEEECCCCCCHHHHHHHHhcCCCCc-CcccccceeeeeEEEEEecCCcccccccCcEEEEEEEeCCCcHHH--H-
Confidence            345799999999999999999999877642 22222222222 2222222           468999999995321  1 


Q ss_pred             hhHHHHHHHHHHccCccEEEEEEeCCCC--chhHHHHHHHhhcccC-CCCCEEEEEecCCCCCh
Q 025346          181 LDSMMMKNVRSAGINADCIVVLVDACKA--PERIDEILEEGVGDHK-DKLPILLVLNKKDLIKP  241 (254)
Q Consensus       181 ~~~~~~~~~~~~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~-~~~piivV~nK~Dl~~~  241 (254)
                            ..+..++..+|++++|+|+++.  ...+..++..+..... .+.|+++|+||+|+.+.
T Consensus        85 ------~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~  142 (195)
T 3bc1_A           85 ------SLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDIVLCGNKSDLEDQ  142 (195)
T ss_dssp             ------HHHHHTTTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSSSSSCCEEEEEECTTCGGG
T ss_pred             ------HHHHHHHcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccc
Confidence                  3345668899999999999873  3445566655544333 57999999999999764

>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=99.72  E-value=6.1e-17  Score=125.29  Aligned_cols=115  Identities=23%  Similarity=0.209  Sum_probs=78.5

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEE--ecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGIC--SGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~--~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .+|+++|.+|+|||||++++.+..+.  ....+++........  ......+.+|||||....  ..       .+..++
T Consensus         4 ~~i~v~G~~~~GKssl~~~l~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~--~~-------~~~~~~   72 (166)
T 2ce2_X            4 YKLVVVGAGGVGKSALTIQLIQNHFV--DECDPTIEDSYRKQVVIDGETCLLDILDTAGQEEY--SA-------MRDQYM   72 (166)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSSCC--SCCCTTCCEEEEEEEEETTEEEEEEEEECCCCSSC--CH-------HHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCcCc--cccCCccceEEEEEEEECCEEEEEEEEECCCchhh--hH-------HHHHhh
Confidence            57999999999999999999987654  233334333333323  333467899999995432  22       223446


Q ss_pred             cCccEEEEEEeCCCC--chhHHHHHHHhhccc-CCCCCEEEEEecCCCCCh
Q 025346          194 INADCIVVLVDACKA--PERIDEILEEGVGDH-KDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       194 ~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~  241 (254)
                      ..+|++++|+|+++.  ......++..+.... ..+.|+++|+||+|+.+.
T Consensus        73 ~~~~~~i~v~d~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~nK~Dl~~~  123 (166)
T 2ce2_X           73 RTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDLAAR  123 (166)
T ss_dssp             HHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCSCC
T ss_pred             ccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEchhhhhc
Confidence            789999999999873  344455555544332 247999999999999763

>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=99.72  E-value=2.7e-17  Score=130.24  Aligned_cols=119  Identities=20%  Similarity=0.190  Sum_probs=82.9

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEe--cCCeeEEEEecCCCcccchhhhhHHHHHHH
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICS--GPEYQMILYDTPGIIEKKIHMLDSMMMKNV  189 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~--~~~~~~~liDtpG~~~~~~~~~~~~~~~~~  189 (254)
                      ..+..+|+++|.+|+|||||++++.+..+.  ..+.+++.......+.  .....+.+|||||....  .       ..+
T Consensus        15 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~--~-------~~~   83 (187)
T 2a9k_A           15 SLALHKVIMVGSGGVGKSALTLQFMYDEFV--EDYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDY--A-------AIR   83 (187)
T ss_dssp             --CEEEEEEECSTTSSHHHHHHHHHHSCCC--CSCCTTCCEEEEEEEEETTEEEEEEEEECCCTTCC--H-------HHH
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHhhCCCC--CcCCCccceEEEEEEEECCEEEEEEEEECCCCccc--H-------HHH
Confidence            345679999999999999999999988763  3444454444433333  33457999999995432  2       223


Q ss_pred             HHHccCccEEEEEEeCCCC--chhHHHHHHHhhcccC-CCCCEEEEEecCCCCCh
Q 025346          190 RSAGINADCIVVLVDACKA--PERIDEILEEGVGDHK-DKLPILLVLNKKDLIKP  241 (254)
Q Consensus       190 ~~~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~-~~~piivV~nK~Dl~~~  241 (254)
                      ..++..+|++++|+|+++.  +.....++..+..... .+.|+++|+||+|+.+.
T Consensus        84 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~  138 (187)
T 2a9k_A           84 DNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDK  138 (187)
T ss_dssp             HHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTCCEEEEEECGGGGGG
T ss_pred             HHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccc
Confidence            3456789999999999873  3455556555554333 47999999999999764

>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=99.72  E-value=5.5e-17  Score=130.17  Aligned_cols=116  Identities=16%  Similarity=0.168  Sum_probs=81.9

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      .+..+|+++|.+|+|||||++++.+..+...  .|  |.......+...+..+.+|||||...  +..       .+..+
T Consensus        27 ~~~~ki~v~G~~~vGKSsLi~~l~~~~~~~~--~~--t~~~~~~~~~~~~~~~~i~Dt~G~~~--~~~-------~~~~~   93 (192)
T 2b6h_A           27 KKQMRILMVGLDAAGKTTILYKLKLGEIVTT--IP--TIGFNVETVEYKNICFTVWDVGGQDK--IRP-------LWRHY   93 (192)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHCSSCCEEE--EE--ETTEEEEEEEETTEEEEEEECC-------CT-------THHHH
T ss_pred             CCccEEEEECCCCCCHHHHHHHHHhCCcccc--CC--cCceeEEEEEECCEEEEEEECCCCHh--HHH-------HHHHH
Confidence            4567999999999999999999998776422  22  22233344566788999999999532  222       23345


Q ss_pred             ccCccEEEEEEeCCCC--chhHHHHHHHhhccc-CCCCCEEEEEecCCCCCh
Q 025346          193 GINADCIVVLVDACKA--PERIDEILEEGVGDH-KDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~  241 (254)
                      +..+|++++|+|+++.  +.....++..+.... ..+.|+++|+||+|+.+.
T Consensus        94 ~~~~d~iilv~D~~~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~  145 (192)
T 2b6h_A           94 FQNTQGLIFVVDSNDRERVQESADELQKMLQEDELRDAVLLVFANKQDMPNA  145 (192)
T ss_dssp             HHTCCEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC
T ss_pred             hccCCEEEEEEECCCHHHHHHHHHHHHHHhcccccCCCeEEEEEECCCCCCC
Confidence            7899999999999874  455666666655432 357999999999999775

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=99.72  E-value=3.9e-17  Score=140.87  Aligned_cols=122  Identities=15%  Similarity=0.177  Sum_probs=87.1

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEe-cCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICS-GPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~-~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      ..+|+++|.+|+|||||++++++.....++..+++|......... .++..+.+|||||..  .+  ....+...+..++
T Consensus         3 ~~KI~lvG~~~vGKSSLi~~l~~~~~~~~~~~~~~Ti~~~~~~~~~~~~~~l~i~Dt~G~~--~~--~~~~~~~~~~~~~   78 (307)
T 3r7w_A            3 GSKLLLMGRSGSGKSSMRSIIFSNYSAFDTRRLGATIDVEHSHLRFLGNMTLNLWDCGGQD--VF--MENYFTKQKDHIF   78 (307)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHSCCCTGGGGGCCCCCSEEEEEEEETTTEEEEEEEECCSH--HH--HHHHHTTTHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCCCCccccCcCCccceEEEEEEeCCceEEEEEECCCcH--HH--hhhhhhhHHHHHh
Confidence            468999999999999999999988555466677777766665554 357899999999943  22  1112223344567


Q ss_pred             cCccEEEEEEeCCCCc--hhHHHH---HHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          194 INADCIVVLVDACKAP--ERIDEI---LEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       194 ~~~d~iv~vid~~~~~--~~~~~~---~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      ..+|++++|+|+++..  ..+..|   +..+. ...++.|+++|+||+|+.+.
T Consensus        79 ~~ad~vi~V~D~t~~~s~~~l~~~~~~l~~l~-~~~~~~piilv~NK~Dl~~~  130 (307)
T 3r7w_A           79 QMVQVLIHVFDVESTEVLKDIEIFAKALKQLR-KYSPDAKIFVLLHKMDLVQL  130 (307)
T ss_dssp             TTCSEEEEEEETTCSCHHHHHHHHHHHHHHHH-HHCTTCEEEEEEECGGGSCH
T ss_pred             ccCCEEEEEEECCChhhHHHHHHHHHHHHHHH-HhCCCCeEEEEEecccccch
Confidence            8999999999998843  444333   22222 22467999999999999984

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=99.72  E-value=7e-17  Score=136.67  Aligned_cols=128  Identities=19%  Similarity=0.295  Sum_probs=90.6

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      ....+|+++|.+|+|||||+|++++..+..+++.+++|...........+..+.+|||||+.+..  .+.......+..+
T Consensus        37 ~~~~~I~vvG~~g~GKSSLin~l~~~~~~~~~~~~~~t~~~~~~~~~~~~~~l~iiDTpG~~~~~--~~~~~~~~~i~~~  114 (270)
T 1h65_A           37 VNSLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSRAGFTLNIIDTPGLIEGG--YINDMALNIIKSF  114 (270)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSSCCCSSCEEEEEEETTEEEEEEECCCSEETT--EECHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHhCCCcccccCCCCcceeeEEEEEeeCCeEEEEEECCCCCCCc--cchHHHHHHHHHH
Confidence            34568999999999999999999998876677777777766666677788899999999975532  2222222333333


Q ss_pred             --ccCccEEEEEEeCCC-CchhHH-HHHHHhhcccCCC--CCEEEEEecCCCCChH
Q 025346          193 --GINADCIVVLVDACK-APERID-EILEEGVGDHKDK--LPILLVLNKKDLIKPG  242 (254)
Q Consensus       193 --~~~~d~iv~vid~~~-~~~~~~-~~~~~~~~~~~~~--~piivV~nK~Dl~~~~  242 (254)
                        ...+|+++||+|++. ...... .++..+......+  .|+++|+||+|+.+++
T Consensus       115 ~~~~~~d~il~v~~~d~~~~~~~~~~~~~~l~~~~~~~~~~~iivV~nK~Dl~~~~  170 (270)
T 1h65_A          115 LLDKTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPPD  170 (270)
T ss_dssp             TTTCEECEEEEEEESSCCCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCCCGG
T ss_pred             hhcCCCCEEEEEEeCCCCcCCHHHHHHHHHHHHHhCcccccCEEEEEECcccCCcC
Confidence              357999999988765 344333 4444443332222  6999999999998765

>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=99.72  E-value=5.8e-17  Score=128.20  Aligned_cols=116  Identities=15%  Similarity=0.137  Sum_probs=82.5

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      .+..+|+++|++|+|||||++++.+.++....+..+.+.    ......+..+.+|||||....  ..       .+..+
T Consensus        16 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~t~~~~~----~~~~~~~~~~~i~Dt~G~~~~--~~-------~~~~~   82 (183)
T 1moz_A           16 NKELRILILGLDGAGKTTILYRLQIGEVVTTKPTIGFNV----ETLSYKNLKLNVWDLGGQTSI--RP-------YWRCY   82 (183)
T ss_dssp             SSCEEEEEEEETTSSHHHHHHHTCCSEEEEECSSTTCCE----EEEEETTEEEEEEEEC----C--CT-------TGGGT
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCcCccCCcCccce----EEEEECCEEEEEEECCCCHhH--HH-------HHHHH
Confidence            456799999999999999999999887743333333222    233445789999999996432  11       12345


Q ss_pred             ccCccEEEEEEeCCCC--chhHHHHHHHhhccc-CCCCCEEEEEecCCCCCh
Q 025346          193 GINADCIVVLVDACKA--PERIDEILEEGVGDH-KDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~  241 (254)
                      +..+|++++|+|+++.  +.....++..+.... ..+.|+++|+||+|+.+.
T Consensus        83 ~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  134 (183)
T 1moz_A           83 YADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGA  134 (183)
T ss_dssp             TTTEEEEEEEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTTC
T ss_pred             hccCCEEEEEEECCCHHHHHHHHHHHHHHHcChhhCCCeEEEEEECCCCCCC
Confidence            7899999999999874  456667777666543 367999999999999765

>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=99.71  E-value=2.3e-17  Score=131.67  Aligned_cols=119  Identities=13%  Similarity=0.099  Sum_probs=83.0

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccc-cCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIV-TNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~-~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      ..+|+++|.+|+|||||++++.+..+... ....+++..............+.+|||||....  ...       +..++
T Consensus        22 ~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~--~~~-------~~~~~   92 (189)
T 2gf9_A           22 MFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTAGQERY--RTI-------TTAYY   92 (189)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCCCEEEEEEEEETTEEEEEEEEECCSCCSS--CCS-------GGGGG
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcCCCCCCcCCceeEEEEEEEEEECCeEEEEEEEeCCCcHHH--hhh-------HHHhc
Confidence            46999999999999999999998876422 122222332233333445678999999995432  222       23457


Q ss_pred             cCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          194 INADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       194 ~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      ..+|++++|+|+++.  +.....++..+......+.|+++|+||+|+...+
T Consensus        93 ~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~  143 (189)
T 2gf9_A           93 RGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGNKCDLEDER  143 (189)
T ss_dssp             TTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGC
T ss_pred             cCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECccccccc
Confidence            899999999999873  4455566666554444679999999999997643

>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=99.71  E-value=4.7e-17  Score=131.15  Aligned_cols=120  Identities=19%  Similarity=0.153  Sum_probs=84.6

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecC--CeeEEEEecCCCcccchhhhhHHHHHHH
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGP--EYQMILYDTPGIIEKKIHMLDSMMMKNV  189 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~--~~~~~liDtpG~~~~~~~~~~~~~~~~~  189 (254)
                      ..+..+|+++|.+|+|||||++++.+..+.  ..+.+++.......+...  ...+.+|||||....  .       ..+
T Consensus        11 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~--~-------~~~   79 (206)
T 2bov_A           11 SLALHKVIMVGSGGVGKSALTLQFMYDEFV--EDYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDY--A-------AIR   79 (206)
T ss_dssp             CCCEEEEEEECSTTSSHHHHHHHHHHSCCC--TTCCTTCCEEEEEEEEETTEEEEEEEEECCCTTCC--H-------HHH
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHHhCCCC--CCCCCccceEEEEEEEECCEEEEEEEEcCCChhhh--H-------HHH
Confidence            345679999999999999999999988753  445555544433333333  458999999995332  2       223


Q ss_pred             HHHccCccEEEEEEeCCCC--chhHHHHHHHhhccc-CCCCCEEEEEecCCCCChH
Q 025346          190 RSAGINADCIVVLVDACKA--PERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       190 ~~~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~  242 (254)
                      ..++..+|++++|+|+++.  +.....++..+.... ..+.|+++|+||+|+.+.+
T Consensus        80 ~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~  135 (206)
T 2bov_A           80 DNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKR  135 (206)
T ss_dssp             HHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTCGGGC
T ss_pred             HHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccCccccc
Confidence            3456789999999999873  345556666555433 2479999999999997643

>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=99.71  E-value=2.6e-17  Score=131.66  Aligned_cols=120  Identities=20%  Similarity=0.226  Sum_probs=81.8

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCC-CceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKP-QTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~-~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      ....+|+++|.+|+|||||++++.+..+....... +.+........+.....+.+|||||..  .+..+       +..
T Consensus        19 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~--~~~~~-------~~~   89 (191)
T 2a5j_A           19 SYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQE--SFRSI-------TRS   89 (191)
T ss_dssp             CEEEEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEECCTTGG--GTSCC-------CHH
T ss_pred             CcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCch--hhhhh-------HHH
Confidence            33468999999999999999999988765322221 222222222333344689999999943  22222       234


Q ss_pred             HccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          192 AGINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      ++..+|++++|+|+++.  +..+..++..+......+.|+++|+||+|+...
T Consensus        90 ~~~~~d~ii~v~d~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~  141 (191)
T 2a5j_A           90 YYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESR  141 (191)
T ss_dssp             HHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGG
T ss_pred             HhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccCCc
Confidence            57889999999999873  455566666665544568999999999999754

>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=99.71  E-value=9.5e-17  Score=129.02  Aligned_cols=125  Identities=10%  Similarity=0.088  Sum_probs=77.1

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEE-ecCCeeEEEEecCCCcccchhhhhHHHHHHH
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGIC-SGPEYQMILYDTPGIIEKKIHMLDSMMMKNV  189 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~-~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~  189 (254)
                      +..+..+|+++|.+|+|||||++++.+............+........ ......+.+|||||...  +....    ...
T Consensus        16 ~~~~~~ki~~vG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~--~~~~~----~~~   89 (196)
T 3llu_A           16 FQGSKPRILLMGLRRSGKSSIQKVVFHKMSPNETLFLESTNKIYKDDISNSSFVNFQIWDFPGQMD--FFDPT----FDY   89 (196)
T ss_dssp             ----CCEEEEEESTTSSHHHHHHHHHSCCCGGGGGGCCCCCSCEEEEECCTTSCCEEEEECCSSCC--TTCTT----CCH
T ss_pred             ccCcceEEEEECCCCCCHHHHHHHHHhcCCCcceeeeccccceeeeeccCCCeeEEEEEECCCCHH--HHhhh----hhc
Confidence            445667999999999999999998887533221111111211222222 35668999999999533  22221    000


Q ss_pred             HHHccCccEEEEEEeCCCCchh----HHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          190 RSAGINADCIVVLVDACKAPER----IDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       190 ~~~~~~~d~iv~vid~~~~~~~----~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      ..++..+|++++|+|+++....    +..++..... ...+.|+++|+||+|+...+
T Consensus        90 ~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~l~~~~~-~~~~~piilv~nK~Dl~~~~  145 (196)
T 3llu_A           90 EMIFRGTGALIYVIDAQDDYMEALTRLHITVSKAYK-VNPDMNFEVFIHKVDGLSDD  145 (196)
T ss_dssp             HHHHHTCSEEEEEEETTSCCHHHHHHHHHHHHHHHH-HCTTCEEEEEEECGGGSCHH
T ss_pred             ccccccCCEEEEEEECCCchHHHHHHHHHHHHHHHh-cCCCCcEEEEEeccccCchh
Confidence            2446789999999999985322    2233333211 24689999999999998753

>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=99.71  E-value=3.3e-17  Score=131.57  Aligned_cols=117  Identities=18%  Similarity=0.166  Sum_probs=81.6

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEE--EEEecCCeeEEEEecCCCcccchhhhhHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRIL--GICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVR  190 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~--~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~  190 (254)
                      .+..+|+++|.+|+|||||++++.+.++..  .+.+++.....  ...+.....+.+|||||...   .       ..+.
T Consensus        26 ~~~~ki~v~G~~~vGKSsli~~l~~~~~~~--~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~---~-------~~~~   93 (196)
T 2atv_A           26 SAEVKLAIFGRAGVGKSALVVRFLTKRFIW--EYDPTLESTYRHQATIDDEVVSMEILDTAGQED---T-------IQRE   93 (196)
T ss_dssp             -CCEEEEEECCTTSSHHHHHHHHHHSCCCS--CCCTTCCEEEEEEEEETTEEEEEEEEECCCCCC---C-------HHHH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhCCCCc--ccCCCCCceEEEEEEECCEEEEEEEEECCCCCc---c-------cchh
Confidence            446799999999999999999999887642  23333322222  23344457799999999654   1       2233


Q ss_pred             HHccCccEEEEEEeCCC--CchhHHHHHHHhhccc-CCCCCEEEEEecCCCCCh
Q 025346          191 SAGINADCIVVLVDACK--APERIDEILEEGVGDH-KDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~  241 (254)
                      .++..+|++++|+|+++  ++..+..++..+.... ..+.|+++|+||+|+...
T Consensus        94 ~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~  147 (196)
T 2atv_A           94 GHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHS  147 (196)
T ss_dssp             HHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGGGG
T ss_pred             hhhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhhCCCCCcEEEEEECcccccc
Confidence            45678999999999987  3445555555544432 357999999999999764

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.71  E-value=3.2e-17  Score=127.94  Aligned_cols=118  Identities=22%  Similarity=0.209  Sum_probs=77.0

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEE--EEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRIL--GICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~--~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      ..+|+++|.+|+|||||++++.+..+..  .+.++......  ...+.....+.+|||||....  .       ..+..+
T Consensus         3 ~~~i~v~G~~~~GKssli~~l~~~~~~~--~~~~t~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~--~-------~~~~~~   71 (172)
T 2erx_A            3 DYRVAVFGAGGVGKSSLVLRFVKGTFRE--SYIPTVEDTYRQVISCDKSICTLQITDTTGSHQF--P-------AMQRLS   71 (172)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHTCCCCS--SCCCCSCEEEEEEEEETTEEEEEEEEECCSCSSC--H-------HHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCCCCC--CCCCCccccEEEEEEECCEEEEEEEEECCCchhh--H-------HHHHHh
Confidence            4589999999999999999999877642  22222212122  223334467999999995432  2       223344


Q ss_pred             ccCccEEEEEEeCCCC--chhHHHHHHHhhccc--CCCCCEEEEEecCCCCChHh
Q 025346          193 GINADCIVVLVDACKA--PERIDEILEEGVGDH--KDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~--~~~~piivV~nK~Dl~~~~~  243 (254)
                      +..+|++++|+|+++.  +.....++..+....  ..+.|+++|+||+|+.+.++
T Consensus        72 ~~~~~~~i~v~d~~~~~~~~~~~~~~~~i~~~~~~~~~~pii~v~nK~Dl~~~~~  126 (172)
T 2erx_A           72 ISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSRE  126 (172)
T ss_dssp             HHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGCC
T ss_pred             cccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCCCEEEEEEccccccccc
Confidence            6779999999999873  334444544433321  25789999999999976543

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=99.71  E-value=2.9e-17  Score=130.63  Aligned_cols=121  Identities=31%  Similarity=0.358  Sum_probs=87.7

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      .+..+++++|++|+|||||++++.+..+. +...+++|.......+...+..+.+|||||.............   ...+
T Consensus         5 ~~~~~i~lvG~~gvGKStL~~~l~~~~~~-~~~~~~~t~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~---~~~~   80 (188)
T 2wjg_A            5 MKSYEIALIGNPNVGKSTIFNALTGENVY-IGNWPGVTVEKKEGEFEYNGEKFKVVDLPGVYSLTANSIDEII---ARDY   80 (188)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHTTCEE-EEECTTSCCEEEEEEEEETTEEEEEEECCCCSCCSSSSHHHHH---HHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCcc-ccCCCCeeccceEEEEEeCCcEEEEEECCCcCccccccHHHHH---HHHH
Confidence            35579999999999999999999987654 5667788877777777777899999999996543211111111   1122


Q ss_pred             c--cCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          193 G--INADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       193 ~--~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      +  ..++++++|+|.++ ......++..+..   .+.|+++|+||+|+...
T Consensus        81 ~~~~~~~~~i~v~d~~~-~~~~~~~~~~~~~---~~~piilv~nK~Dl~~~  127 (188)
T 2wjg_A           81 IINEKPDLVVNIVDATA-LERNLYLTLQLME---MGANLLLALNKMDLAKS  127 (188)
T ss_dssp             HHHHCCSEEEEEEEGGG-HHHHHHHHHHHHT---TTCCEEEEEECHHHHHH
T ss_pred             HhccCCCEEEEEecchh-HHHHHHHHHHHHh---cCCCEEEEEEhhhcccc
Confidence            2  35899999999986 4445555555443   47899999999998654

>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=99.71  E-value=4.7e-17  Score=132.77  Aligned_cols=120  Identities=20%  Similarity=0.215  Sum_probs=70.7

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEE--EEecCCeeEEEEecCCCcccchhhhhHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILG--ICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVR  190 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~--~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~  190 (254)
                      .+..+|+++|.+|+|||||++++.+..+.  ..+.+++......  ..++....+.+|||||...  +.       ..+.
T Consensus        32 ~~~~ki~vvG~~~vGKSsli~~l~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~l~l~Dt~G~~~--~~-------~~~~  100 (214)
T 2j1l_A           32 VRSVKVVLVGDGGCGKTSLLMVFADGAFP--ESYTPTVFERYMVNLQVKGKPVHLHIWDTAGQDD--YD-------RLRP  100 (214)
T ss_dssp             CCEEEEEEEECTTSSHHHHHHHHHC---------CCCCCEEEEEEEEETTEEEEEEEEEC--------------------
T ss_pred             cceEEEEEECcCCCCHHHHHHHHHcCCCC--CCCCCccceeEEEEEEECCEEEEEEEEECCCchh--hh-------HHHH
Confidence            34579999999999999999999988764  2333343333332  2333455799999999432  22       2233


Q ss_pred             HHccCccEEEEEEeCCCC--chhHH-HHHHHhhcccCCCCCEEEEEecCCCCChHhH
Q 025346          191 SAGINADCIVVLVDACKA--PERID-EILEEGVGDHKDKLPILLVLNKKDLIKPGEI  244 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~~~--~~~~~-~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~  244 (254)
                      .++..+|++++|+|+++.  +.... .|+..+ .....+.|+++|+||+|+......
T Consensus       101 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~-~~~~~~~piilv~nK~Dl~~~~~~  156 (214)
T 2j1l_A          101 LFYPDASVLLLCFDVTSPNSFDNIFNRWYPEV-NHFCKKVPIIVVGCKTDLRKDKSL  156 (214)
T ss_dssp             ----CEEEEEEEEETTCHHHHHHHHHTHHHHH-HHHCSSCCEEEEEECGGGGSCHHH
T ss_pred             HHhccCCEEEEEEECcCHHHHHHHHHHHHHHH-HHhCCCCCEEEEEEChhhhccchh
Confidence            457899999999999873  33333 343333 333457999999999999876543

>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=99.71  E-value=3.2e-17  Score=132.02  Aligned_cols=118  Identities=22%  Similarity=0.229  Sum_probs=76.9

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCcccc-ccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSI-VTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~-~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      .+..+|+++|.+|+|||||++++++..+.. ..+..+.+.......++.....+.+|||||....  .       ..+..
T Consensus        26 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~--~-------~~~~~   96 (199)
T 2p5s_A           26 QKAYKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLWDTAGQERF--R-------SIAKS   96 (199)
T ss_dssp             --CEEEEEESSTTSSHHHHHHHHHHCCCC----------CEEEEEEETTEEEEEEEEECTTCTTC--H-------HHHHH
T ss_pred             CCCeEEEEECcCCCCHHHHHHHHHhCCCCccCCCCccceeEEEEEEECCEEEEEEEEECCCCcch--h-------hhHHH
Confidence            446799999999999999999999887532 1122222222233334444577999999995332  2       22345


Q ss_pred             HccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCC
Q 025346          192 AGINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLI  239 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~  239 (254)
                      ++..+|++++|+|+++.  +..+..|+..+......+.|+++|+||+|+.
T Consensus        97 ~~~~~d~iilv~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~  146 (199)
T 2p5s_A           97 YFRKADGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGNKADIR  146 (199)
T ss_dssp             HHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHC---CCEEEEEECGGGH
T ss_pred             HHhhCCEEEEEEECCChHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccc
Confidence            57789999999999873  4455566655544444579999999999996

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=99.71  E-value=2.4e-17  Score=129.78  Aligned_cols=117  Identities=19%  Similarity=0.244  Sum_probs=81.1

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      ..+..+|+++|.+|+|||||++++.+..+. ....++++.......+...+..+.+|||||....  ..+       +..
T Consensus         5 ~~~~~~i~v~G~~~~GKssl~~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~--~~~-------~~~   74 (178)
T 2lkc_A            5 VERPPVVTIMGHVDHGKTTLLDAIRHSKVT-EQEAGGITQHIGAYQVTVNDKKITFLDTPGHEAF--TTM-------RAR   74 (178)
T ss_dssp             CCCCCEEEEESCTTTTHHHHHHHHHTTCSS-CSSCCSSSTTCCCCEEEETTEEEEESCCCSSSSS--SCS-------CCS
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhCCccc-cCCCCceeEeeeEEEEEeCCceEEEEECCCCHHH--HHH-------HHH
Confidence            356779999999999999999999988765 3334444433333344556778999999995432  222       124


Q ss_pred             HccCccEEEEEEeCCCCchh-HHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          192 AGINADCIVVLVDACKAPER-IDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~~~~~-~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      ++..+|++++|+|+++.... ....+....   ..+.|+++|+||+|+.+.
T Consensus        75 ~~~~~d~~i~v~d~~~~~~~~~~~~l~~~~---~~~~p~ilv~nK~Dl~~~  122 (178)
T 2lkc_A           75 GAQVTDIVILVVAADDGVMPQTVEAINHAK---AANVPIIVAINKMDKPEA  122 (178)
T ss_dssp             SCCCCCEEEEEEETTCCCCHHHHHHHHHHG---GGSCCEEEEEETTTSSCS
T ss_pred             HHhhCCEEEEEEECCCCCcHHHHHHHHHHH---hCCCCEEEEEECccCCcC
Confidence            47889999999999874322 222332222   347899999999999864

>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=99.71  E-value=7.4e-18  Score=133.52  Aligned_cols=117  Identities=13%  Similarity=0.079  Sum_probs=63.5

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecC--CeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGP--EYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~--~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      ..+|+++|.+|+|||||++++.+..+. ....++++.+.....+..+  ...+.+|||||....  .       ..+..+
T Consensus         8 ~~ki~v~G~~~~GKssl~~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~--~-------~~~~~~   77 (183)
T 2fu5_C            8 LFKLLLIGDSGVGKTCVLFRFSEDAFN-STFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERF--R-------TITTAY   77 (183)
T ss_dssp             EEEEEEECCCCC-----------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC------------------CCTT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCCCC-CCCCCcccceeEEEEEEECCEEEEEEEEcCCCChhh--h-------hhHHHH
Confidence            468999999999999999999977653 2222333333333333333  478999999994321  1       223355


Q ss_pred             ccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          193 GINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      +..+|++++|+|+++.  +..+..|+..+......+.|+++|+||+|+.+.
T Consensus        78 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~  128 (183)
T 2fu5_C           78 YRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDK  128 (183)
T ss_dssp             TTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CCSC
T ss_pred             HhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECccCCcc
Confidence            7899999999999883  455556666665544567999999999999764

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=99.71  E-value=1.7e-16  Score=125.09  Aligned_cols=110  Identities=15%  Similarity=0.219  Sum_probs=76.1

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEE--EEecCCeeEEEEecCCCcccchhhhhHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILG--ICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVR  190 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~--~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~  190 (254)
                      .+..+|+++|.+|+|||||++++.+..+..   +.+|.......  ..++....+.+|||||...              .
T Consensus         5 ~~~~ki~~vG~~~vGKTsli~~l~~~~~~~---~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~--------------~   67 (178)
T 2iwr_A            5 IPELRLGVLGDARSGKSSLIHRFLTGSYQV---LEKTESEQYKKEMLVDGQTHLVLIREEAGAPD--------------A   67 (178)
T ss_dssp             CCEEEEEEECCGGGCHHHHHHHHHHSCCCC---CSSCSSSEEEEEEEETTEEEEEEEEECSSSCC--------------H
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhCCCCC---cCCCcceeEEEEEEECCEEEEEEEEECCCCch--------------h
Confidence            445789999999999999999999988753   22222222222  2333446789999999532              1


Q ss_pred             HHccCccEEEEEEeCCCC--chhHHHHH---HHhhcccCCCCCEEEEEecCCCC
Q 025346          191 SAGINADCIVVLVDACKA--PERIDEIL---EEGVGDHKDKLPILLVLNKKDLI  239 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~~~--~~~~~~~~---~~~~~~~~~~~piivV~nK~Dl~  239 (254)
                      .++..+|++++|+|+++.  +.....|+   .........+.|+++|+||+|+.
T Consensus        68 ~~~~~~d~~ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~  121 (178)
T 2iwr_A           68 KFSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRIS  121 (178)
T ss_dssp             HHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCSSSCCCEEEEEEECTTCB
T ss_pred             HHHHhCCEEEEEEECcCHHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccc
Confidence            345679999999999883  44455543   33333223679999999999993

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=99.71  E-value=1.9e-17  Score=129.27  Aligned_cols=118  Identities=19%  Similarity=0.158  Sum_probs=79.9

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEE--ecCCeeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGIC--SGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~--~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      ...+|+++|.+|+|||||++++.+..+. ....+..+........  ++....+.+|||||....  .       .....
T Consensus         5 ~~~~i~v~G~~~~GKssli~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~--~-------~~~~~   74 (170)
T 1z08_A            5 YSFKVVLLGEGCVGKTSLVLRYCENKFN-DKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERF--H-------ALGPI   74 (170)
T ss_dssp             EEEEEEEECCTTSCHHHHHHHHHHCCCC-SSCCCCCSCEEEEEEEESSSCEEEEEEEECCCC----------------CC
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcCCCC-cCCCCccceEEEEEEEEECCEEEEEEEEECCCcHhh--h-------hhHHH
Confidence            3468999999999999999999988764 2223333333332333  344568999999994321  1       22334


Q ss_pred             HccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          192 AGINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      ++..+|++++|+|+++.  +.....++..+......+.|+++|+||+|+.++
T Consensus        75 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  126 (170)
T 1z08_A           75 YYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKE  126 (170)
T ss_dssp             SSTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGGGG
T ss_pred             HhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECcccccc
Confidence            57899999999999873  345555665554433457899999999999764

>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=99.70  E-value=4.3e-17  Score=132.02  Aligned_cols=120  Identities=21%  Similarity=0.210  Sum_probs=81.8

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEe--cCCeeEEEEecCCCcccchhhhhHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICS--GPEYQMILYDTPGIIEKKIHMLDSMMMKNVR  190 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~--~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~  190 (254)
                      .+..+|+++|.+|+|||||++++.+..+.  ..+.+++.........  +....+.+|||||...  +...       +.
T Consensus        28 ~~~~ki~vvG~~~~GKSsLi~~l~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~--~~~~-------~~   96 (204)
T 4gzl_A           28 GQAIKCVVVGDGAVGKTCLLISYTTNAFP--GEYIPTVFDNYSANVMVDGKPVNLGLWDTAGLED--YDRL-------RP   96 (204)
T ss_dssp             --CEEEEEEESTTSSHHHHHHHHHHSCCC--C-CCCCSEEEEEEEEECC-CEEEEEEEEECCSGG--GTTT-------GG
T ss_pred             CCeEEEEEECcCCCCHHHHHHHHHhCCCC--CCcCCeecceeEEEEEECCEEEEEEEEECCCchh--hHHH-------HH
Confidence            45679999999999999999999987763  4455555554444443  3445677999999532  2222       23


Q ss_pred             HHccCccEEEEEEeCCCC--chhHH-HHHHHhhcccCCCCCEEEEEecCCCCChHhH
Q 025346          191 SAGINADCIVVLVDACKA--PERID-EILEEGVGDHKDKLPILLVLNKKDLIKPGEI  244 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~~~--~~~~~-~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~  244 (254)
                      .++..+|++++|+|+++.  +.... .++.. +.....+.|+++|+||+|+......
T Consensus        97 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~-~~~~~~~~piilv~nK~Dl~~~~~~  152 (204)
T 4gzl_A           97 LSYPQTDVFLICFSLVSPASFENVRAKWYPE-VRHHCPNTPIILVGTKLDLRDDKDT  152 (204)
T ss_dssp             GGCTTCSEEEEEEETTCHHHHHHHHHTHHHH-HHHHCSSCCEEEEEECHHHHTCHHH
T ss_pred             HHhccCCEEEEEEECCCHHHHHHHHHHHHHH-HHHhCCCCCEEEEEechhhccchhh
Confidence            457899999999999983  33343 33333 3333367999999999999876543

>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=99.70  E-value=2.1e-17  Score=132.22  Aligned_cols=120  Identities=13%  Similarity=0.105  Sum_probs=86.6

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccc-cCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIV-TNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~-~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      ....+|+++|.+|+|||||++++.+..+... ....+++..............+.+|||||.  ..       +...+..
T Consensus        21 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~--~~-------~~~~~~~   91 (191)
T 3dz8_A           21 DYMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWDTAGQ--ER-------YRTITTA   91 (191)
T ss_dssp             EECEEEEEEESTTSSHHHHHHHHHHHTTCCCEEEEETTTEEEEEEEETTTTEEEEEECHHHH--HH-------CHHHHHH
T ss_pred             CeeeEEEEECCCCcCHHHHHHHHhcCCCCcccCCCeeeEEEEEEEEECCEEEEEEEEeCCCh--HH-------HHHHHHH
Confidence            3456999999999999999999998765321 122233444444455667789999999992  22       1233456


Q ss_pred             HccCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          192 AGINADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      ++..+|++++|+|+++  ++..+..|+..+......+.|+++|+||+|+...
T Consensus        92 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~  143 (191)
T 3dz8_A           92 YYRGAMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGNKCDMEEE  143 (191)
T ss_dssp             HHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGG
T ss_pred             HHccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccc
Confidence            6889999999999987  3455666666665544568999999999999654

>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=99.70  E-value=4.7e-17  Score=130.25  Aligned_cols=117  Identities=19%  Similarity=0.160  Sum_probs=81.6

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEec--CCeeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSG--PEYQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~--~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      ...+|+++|.+|+|||||++++.+..+.  ..+.+++..........  ....+.+|||||....  ..+       +..
T Consensus        17 ~~~ki~v~G~~~~GKssli~~l~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~i~D~~G~~~~--~~~-------~~~   85 (194)
T 2atx_A           17 LMLKCVVVGDGAVGKTCLLMSYANDAFP--EEYVPTVFDHYAVSVTVGGKQYLLGLYDTAGQEDY--DRL-------RPL   85 (194)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHHSSCC--CSCCCSSCCCEEEEEESSSCEEEEEEECCCCSSSS--TTT-------GGG
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCCCC--CCCCCcccceeEEEEEECCEEEEEEEEECCCCcch--hHH-------HHH
Confidence            4468999999999999999999988653  34444443333333333  3478999999995432  222       234


Q ss_pred             HccCccEEEEEEeCCCC--chhHH-HHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          192 AGINADCIVVLVDACKA--PERID-EILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~~--~~~~~-~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      ++..+|++++|+|+++.  +.... .|+..+.. ...+.|+++|+||+|+.+..
T Consensus        86 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~  138 (194)
T 2atx_A           86 SYPMTDVFLICFSVVNPASFQNVKEEWVPELKE-YAPNVPFLLIGTQIDLRDDP  138 (194)
T ss_dssp             GCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHH-HSTTCCEEEEEECTTSTTCH
T ss_pred             hcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHH-hCCCCCEEEEEEChhhcccc
Confidence            57899999999999884  34444 34444333 23579999999999998753

>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=99.70  E-value=4.2e-17  Score=131.85  Aligned_cols=119  Identities=18%  Similarity=0.148  Sum_probs=83.5

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEE--ecCCeeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGIC--SGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~--~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      ...+|+++|.+|+|||||++++.+..+.. ...+..+.......+  +.....+.+|||||...  +..+       +..
T Consensus         7 ~~~ki~v~G~~~~GKSsli~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~--~~~~-------~~~   76 (206)
T 2bcg_Y            7 YLFKLLLIGNSGVGKSCLLLRFSDDTYTN-DYISTIGVDFKIKTVELDGKTVKLQIWDTAGQER--FRTI-------TSS   76 (206)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHCCCCT-TCCCSSCCCEEEEEEEETTEEEEEEEECCTTTTT--TTCC-------CGG
T ss_pred             cceEEEEECCCCCCHHHHHHHHhcCCCCC-CCCCcccceeEEEEEEECCEEEEEEEEeCCChHH--HHHH-------HHH
Confidence            34689999999999999999999887652 223333333333233  33346899999999533  2222       234


Q ss_pred             HccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          192 AGINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      ++..+|++++|+|+++.  +..+..|+..+......+.|+++|+||+|+.+.+
T Consensus        77 ~~~~~d~vilv~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~  129 (206)
T 2bcg_Y           77 YYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKR  129 (206)
T ss_dssp             GGTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTC
T ss_pred             hccCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCcccc
Confidence            57899999999999883  4455566666555445679999999999998653

>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=99.70  E-value=8.3e-17  Score=128.28  Aligned_cols=117  Identities=21%  Similarity=0.144  Sum_probs=77.2

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEec--CCeeEEEEecCCCcccchhhhhHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSG--PEYQMILYDTPGIIEKKIHMLDSMMMKNVR  190 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~--~~~~~~liDtpG~~~~~~~~~~~~~~~~~~  190 (254)
                      .+..+|+++|.+|+|||||++++++..+.  ..+.+++.......+..  ....+.+|||||....  .       ..+.
T Consensus        19 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~--~-------~~~~   87 (190)
T 3con_A           19 MTEYKLVVVGAGGVGKSALTIQLIQNHFV--DEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEY--S-------AMRD   87 (190)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSSCC--SCCCTTCCEEEEEEEEETTEEEEEEEEECCC------------------
T ss_pred             cceeEEEEECcCCCCHHHHHHHHHcCCCc--cccCCccceEEEEEEEECCEEEEEEEEECCChHHH--H-------HHHH
Confidence            34569999999999999999999987653  33444444433333333  3456999999994321  1       2334


Q ss_pred             HHccCccEEEEEEeCCCC--chhHHHHHHHhhccc-CCCCCEEEEEecCCCCC
Q 025346          191 SAGINADCIVVLVDACKA--PERIDEILEEGVGDH-KDKLPILLVLNKKDLIK  240 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~  240 (254)
                      .++..+|++++|+|+++.  +..+..++..+.... ..+.|+++|+||+|+..
T Consensus        88 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~  140 (190)
T 3con_A           88 QYMRTGEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDLPT  140 (190)
T ss_dssp             --CTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCSC
T ss_pred             HhhCcCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCcCCc
Confidence            568899999999999873  344455555443322 24789999999999975

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=99.70  E-value=1.6e-16  Score=126.59  Aligned_cols=112  Identities=15%  Similarity=0.181  Sum_probs=79.6

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEe--cCCeeEEEEecCCCcccchhhhhHHHHHH
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICS--GPEYQMILYDTPGIIEKKIHMLDSMMMKN  188 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~--~~~~~~~liDtpG~~~~~~~~~~~~~~~~  188 (254)
                      ...+..+|+++|.+|+|||||++++++..+..  .+.++. ......+.  +....+.+|||||....  .         
T Consensus        16 ~~~~~~ki~ivG~~~vGKSsL~~~~~~~~~~~--~~~~t~-~~~~~~~~~~~~~~~l~i~Dt~G~~~~--~---------   81 (184)
T 3ihw_A           16 FQGPELKVGIVGNLSSGKSALVHRYLTGTYVQ--EESPEG-GRFKKEIVVDGQSYLLLIRDEGGPPEL--Q---------   81 (184)
T ss_dssp             CCCCEEEEEEECCTTSCHHHHHHHHHHSSCCC--CCCTTC-EEEEEEEEETTEEEEEEEEECSSSCCH--H---------
T ss_pred             CCCCeeEEEEECCCCCCHHHHHHHHhcCCCCC--CcCCCc-ceEEEEEEECCEEEEEEEEECCCChhh--h---------
Confidence            34556799999999999999999999887642  222232 22223333  33467888999995322  1         


Q ss_pred             HHHHccCccEEEEEEeCCCC--chhHHHHHHHhhcccC-CCCCEEEEEecCCCC
Q 025346          189 VRSAGINADCIVVLVDACKA--PERIDEILEEGVGDHK-DKLPILLVLNKKDLI  239 (254)
Q Consensus       189 ~~~~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~-~~~piivV~nK~Dl~  239 (254)
                         ++..+|++++|+|+++.  +..+..|+..+..... .+.|+++|+||+|+.
T Consensus        82 ---~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~  132 (184)
T 3ihw_A           82 ---FAAWVDAVVFVFSLEDEISFQTVYNYFLRLCSFRNASEVPMVLVGTQDAIS  132 (184)
T ss_dssp             ---HHHHCSEEEEEEETTCHHHHHHHHHHHHHHHTTSCGGGSCEEEEEECTTCB
T ss_pred             ---eecCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccc
Confidence               45679999999999983  4555667766655432 578999999999994

>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=99.70  E-value=4.4e-17  Score=131.50  Aligned_cols=120  Identities=22%  Similarity=0.224  Sum_probs=79.3

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEE-EEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHR-ILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~-~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      ...+|+++|.+|+|||||++++.+..+.. ...+.++... .....++....+.+|||||...  +..+       +..+
T Consensus        24 ~~~ki~vvG~~~~GKSsli~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~--~~~~-------~~~~   93 (201)
T 2gco_A           24 IRKKLVIVGDGACGKTCLLIVFSKDQFPE-VYVPTVFENYIADIEVDGKQVELALWDTAGQED--YDRL-------RPLS   93 (201)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHSSCCS-SCCCSSCCCCEEEEEETTEEEEEEEECCCCSGG--GTTT-------GGGG
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhCcCCc-ccCCcccceEEEEEEECCEEEEEEEEECCCchh--HHHH-------HHHh
Confidence            34689999999999999999999887642 2222222211 1122333446899999999432  2222       2245


Q ss_pred             ccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          193 GINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      +..+|++++|+|+++.  +......+...+.....+.|+++|+||+|+.....
T Consensus        94 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~  146 (201)
T 2gco_A           94 YPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRQDEH  146 (201)
T ss_dssp             CTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECGGGTTCHH
T ss_pred             cCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEecHHhhcCcc
Confidence            7899999999999873  34442223333333345799999999999987643

>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=99.70  E-value=9.9e-17  Score=125.43  Aligned_cols=119  Identities=30%  Similarity=0.359  Sum_probs=79.5

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc-
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG-  193 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~-  193 (254)
                      ..+++++|++|+|||||++++.+..+. +...+++|.......+...+..+.+|||||.............   ...++ 
T Consensus         3 ~~~v~lvG~~gvGKStL~~~l~~~~~~-~~~~~~~t~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~---~~~~~~   78 (165)
T 2wji_A            3 SYEIALIGNPNVGKSTIFNALTGENVY-IGNWPGVTVEKKEGEFEYNGEKFKVVDLPGVYSLTANSIDEII---ARDYII   78 (165)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHCCSSS-CC-----CCCCCEEEEEETTEEEEEEECCCCSCSSSSSHHHHH---HHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCCCee-ccCCCCcceeeeEEEEEECCcEEEEEECCCcccCCCcchhHHH---HHHHHh
Confidence            358999999999999999999987654 4556666665555556666789999999997543221111111   11222 


Q ss_pred             -cCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          194 -INADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       194 -~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                       ..++++++|+|+++ ......++..+..   .+.|+++|+||+|+...
T Consensus        79 ~~~~~~~i~v~D~~~-~~~~~~~~~~~~~---~~~p~ilv~nK~Dl~~~  123 (165)
T 2wji_A           79 NEKPDLVVNIVDATA-LERNLYLTLQLME---MGANLLLALNKMDLAKS  123 (165)
T ss_dssp             HHCCSEEEEEEETTC-HHHHHHHHHHHHH---TTCCEEEEEECHHHHHH
T ss_pred             cCCCCEEEEEecCCc-hhHhHHHHHHHHh---cCCCEEEEEEchHhccc
Confidence             37999999999987 3334445444433   36899999999998643

>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=99.70  E-value=5.1e-17  Score=131.72  Aligned_cols=119  Identities=23%  Similarity=0.240  Sum_probs=77.4

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEE--ecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGIC--SGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~--~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      ..+|+++|.+|+|||||++++.+..+..  .+.+++........  ++....+.+|||||....  ...       +..+
T Consensus        25 ~~ki~vvG~~~~GKSsli~~l~~~~~~~--~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~--~~~-------~~~~   93 (207)
T 2fv8_A           25 RKKLVVVGDGACGKTCLLIVFSKDEFPE--VYVPTVFENYVADIEVDGKQVELALWDTAGQEDY--DRL-------RPLS   93 (207)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSSCC---------CCEEEEEEEETTEEEEEEEEECTTCTTC--TTT-------GGGG
T ss_pred             CcEEEEECcCCCCHHHHHHHHhcCCCCC--cCCCcccceEEEEEEECCEEEEEEEEECCCcHHH--HHH-------HHhh
Confidence            4689999999999999999999887642  22233322222222  333468999999995432  221       2245


Q ss_pred             ccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhH
Q 025346          193 GINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEI  244 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~  244 (254)
                      +..+|++++|+|+++.  +......+...+.....+.|+++|+||+|+......
T Consensus        94 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~  147 (207)
T 2fv8_A           94 YPDTDVILMCFSVDSPDSLENIPEKWVPEVKHFCPNVPIILVANKKDLRSDEHV  147 (207)
T ss_dssp             CTTCCEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECGGGGGCHHH
T ss_pred             cCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEchhhhccccc
Confidence            7899999999999873  344422222333333457999999999999876443

>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=99.70  E-value=2e-17  Score=133.56  Aligned_cols=120  Identities=20%  Similarity=0.203  Sum_probs=77.9

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEe--cCCeeEEEEecCCCcccchhhhhHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICS--GPEYQMILYDTPGIIEKKIHMLDSMMMKNVR  190 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~--~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~  190 (254)
                      ....+|+++|.+|+|||||++++++..+.. ...++.+.......+.  +....+.+|||||.  ..+...       +.
T Consensus        23 ~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~--~~~~~~-------~~   92 (200)
T 2o52_A           23 DFLFKFLVIGSAGTGKSCLLHQFIENKFKQ-DSNHTIGVEFGSRVVNVGGKTVKLQIWDTAGQ--ERFRSV-------TR   92 (200)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHC-------------CCEEEEEEEETTEEEEEEEECCTTH--HHHSCC-------CH
T ss_pred             CcceEEEEECcCCCCHHHHHHHHHhCCCCc-cCCCcccceeEEEEEEECCeeeEEEEEcCCCc--HhHHHH-------HH
Confidence            345689999999999999999999887652 2223323222222333  33478999999993  222222       33


Q ss_pred             HHccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          191 SAGINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      .++..+|++++|+|+++.  +..+..++..+......+.|+++|+||+|+...+
T Consensus        93 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~  146 (200)
T 2o52_A           93 SYYRGAAGALLVYDITSRETYNSLAAWLTDARTLASPNIVVILCGNKKDLDPER  146 (200)
T ss_dssp             HHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHTCTTCEEEEEEECGGGGGGC
T ss_pred             HHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCccccc
Confidence            457899999999999873  3555666666555445689999999999997543

>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=99.70  E-value=2.5e-17  Score=139.84  Aligned_cols=121  Identities=28%  Similarity=0.320  Sum_probs=89.3

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccch----hhhhHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKI----HMLDSMMMKNVR  190 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~----~~~~~~~~~~~~  190 (254)
                      ..+|+++|.+|+|||||+|++++... .+++.+++|.+.....+...+..+.+|||||+.+...    ...+...... .
T Consensus         3 ~~~I~lvG~~n~GKSTLin~l~g~~~-~v~~~~g~t~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~e~i~~~-~   80 (274)
T 3i8s_A            3 KLTIGLIGNPNSGKTTLFNQLTGSRQ-RVGNWAGVTVERKEGQFSTTDHQVTLVDLPGTYSLTTISSQTSLDEQIACH-Y   80 (274)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHTTCE-EEEECTTSSSEEEEEEEECSSCEEEEEECCCCSCSCC----CCHHHHHHHH-H
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCCCc-ccCCCCCeeEEEEEEEEEeCCCceEEEECcCCCccccccccCCHHHHHHHH-H
Confidence            46899999999999999999999885 4788999999888888888888999999999765431    1222222111 1


Q ss_pred             HHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          191 SAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      .....+|++++|+|+++. +....+...+..   .++|+++|+||+|+.+.
T Consensus        81 ~~~~~~d~ii~VvD~~~~-~~~~~~~~~l~~---~~~p~ivv~NK~Dl~~~  127 (274)
T 3i8s_A           81 ILSGDADLLINVVDASNL-ERNLYLTLQLLE---LGIPCIVALNMLDIAEK  127 (274)
T ss_dssp             HHHTCCSEEEEEEEGGGH-HHHHHHHHHHHH---HTCCEEEEEECHHHHHH
T ss_pred             HhhcCCCEEEEEecCCCh-HHHHHHHHHHHh---cCCCEEEEEECccchhh
Confidence            224799999999999873 333333333322   37999999999998654

>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=99.70  E-value=5.8e-17  Score=132.18  Aligned_cols=122  Identities=18%  Similarity=0.255  Sum_probs=80.1

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccC-CCCceEEEEEEEEecCC--eeEEEEecCCCcccchhhhhHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTN-KPQTTRHRILGICSGPE--YQMILYDTPGIIEKKIHMLDSMMMKNV  189 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~-~~~tt~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~  189 (254)
                      ....+|+++|.+|+|||||+|++++..+..... ..+.+.... ......+  ..+.+|||||...  +..+..      
T Consensus         9 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~-~~~~~~~~~~~~~l~Dt~G~~~--~~~~~~------   79 (218)
T 4djt_A            9 ELTYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPV-TFLDDQGNVIKFNVWDTAGQEK--KAVLKD------   79 (218)
T ss_dssp             -CEEEEEEECCTTSSHHHHHCBCTTCSTTCEEETTTTEEEEEE-EEEBTTSCEEEEEEEEECSGGG--TSCCCH------
T ss_pred             cCccEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeeEEE-EEEeCCCcEEEEEEEecCCchh--hchHHH------
Confidence            345799999999999999999999877542222 222222222 2222222  6799999999532  222222      


Q ss_pred             HHHccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhH
Q 025346          190 RSAGINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEI  244 (254)
Q Consensus       190 ~~~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~  244 (254)
                       .++..+|++++|+|+++.  +.....|+..+......+.|+++|+||+|+.+.+++
T Consensus        80 -~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~  135 (218)
T 4djt_A           80 -VYYIGASGAILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVVCANKIDIKNRQKI  135 (218)
T ss_dssp             -HHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCSSSCEEEEEECTTCC----C
T ss_pred             -HHhhcCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCcccccc
Confidence             346789999999999983  345556666655544566999999999999876443

>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=99.70  E-value=1.8e-17  Score=132.80  Aligned_cols=117  Identities=21%  Similarity=0.210  Sum_probs=80.8

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEe--cCCeeEEEEecCCCcccchhhhhHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICS--GPEYQMILYDTPGIIEKKIHMLDSMMMKNVR  190 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~--~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~  190 (254)
                      ....+|+++|.+|+|||||++++.+..+.  ..+.+++.........  +....+.+|||||..  .+..+       +.
T Consensus        21 ~~~~ki~~vG~~~~GKSsl~~~l~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~--~~~~~-------~~   89 (194)
T 3reg_A           21 KKALKIVVVGDGAVGKTCLLLAFSKGEIP--TAYVPTVFENFSHVMKYKNEEFILHLWDTAGQE--EYDRL-------RP   89 (194)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSCCC--SSCCCCSEEEEEEEEEETTEEEEEEEEEECCSG--GGTTT-------GG
T ss_pred             ceeeEEEEECcCCCCHHHHHHHHhcCCCC--CccCCeeeeeeEEEEEECCEEEEEEEEECCCcH--HHHHH-------hH
Confidence            44579999999999999999999988763  3444454444333333  344567999999943  32222       23


Q ss_pred             HHccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          191 SAGINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      .++..+|++++|+|+++.  +..+...+...+.....+.|+++|+||+|+.+
T Consensus        90 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~  141 (194)
T 3reg_A           90 LSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYIDTAKTVLVGLKVDLRK  141 (194)
T ss_dssp             GGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTSEEEEEEECGGGCC
T ss_pred             hhccCCcEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhcc
Confidence            457899999999999983  33332333333333446799999999999975

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=99.70  E-value=6.7e-17  Score=130.12  Aligned_cols=122  Identities=20%  Similarity=0.232  Sum_probs=81.9

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEE--EecCCeeEEEEecCCCcccchhhhhHHHHHHH
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGI--CSGPEYQMILYDTPGIIEKKIHMLDSMMMKNV  189 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~--~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~  189 (254)
                      .....+|+++|.+|+|||||++++.+.... ....++++.+.....  +++....+.+|||||....  ..   .   ..
T Consensus        20 ~~~~~ki~vvG~~~vGKSsLi~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~g~~~~--~~---~---~~   90 (195)
T 3cbq_A           20 KDGIFKVMLVGESGVGKSTLAGTFGGLQGD-SAHEPENPEDTYERRIMVDKEEVTLVVYDIWEQGDA--GG---W---LR   90 (195)
T ss_dssp             --CEEEEEEECSTTSSHHHHHHHTCCEECC-GGGTTTSCTTEEEEEEEETTEEEEEEEECCCCCSGG--GH---H---HH
T ss_pred             CCcEEEEEEECCCCCCHHHHHHHHHhccCC-ccCCCCcccceEEEEEEECCEEEEEEEEecCCCccc--hh---h---hH
Confidence            344579999999999999999999865443 223344443333332  3344567899999995432  11   1   12


Q ss_pred             HHHccCccEEEEEEeCCC--CchhHHHHHHHhhcccC-CCCCEEEEEecCCCCChH
Q 025346          190 RSAGINADCIVVLVDACK--APERIDEILEEGVGDHK-DKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       190 ~~~~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~-~~~piivV~nK~Dl~~~~  242 (254)
                      ..++..+|++++|+|+++  ++..+..|+..+..... .+.|+++|+||+|+...+
T Consensus        91 ~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~  146 (195)
T 3cbq_A           91 DHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSR  146 (195)
T ss_dssp             HHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCTTTC
T ss_pred             HHhhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeechhccccC
Confidence            234678999999999987  34566677766554332 479999999999997653

>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=99.70  E-value=2.2e-16  Score=132.58  Aligned_cols=130  Identities=14%  Similarity=0.107  Sum_probs=86.3

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCC-ceEEEEEEEEecCCeeEEEEecCCCcccchhhh--hHHHHH
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQ-TTRHRILGICSGPEYQMILYDTPGIIEKKIHML--DSMMMK  187 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~-tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~--~~~~~~  187 (254)
                      +.....+|+++|.+|+|||||+|++++.........+. +|.......+.+.+..+.+|||||+.+.....-  ......
T Consensus        18 ~~~~~~~I~lvG~~g~GKStl~n~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~~~~i~~   97 (260)
T 2xtp_A           18 ASRSELRIILVGKTGTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSWGNREIVIIDTPDMFSWKDHCEALYKEVQR   97 (260)
T ss_dssp             ---CCEEEEEEECTTSCHHHHHHHHHTSCCSCCCTTSCCCCCSCEEEEEEETTEEEEEEECCGGGGSSCCCHHHHHHHHH
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCceeeeeEEEEEEeCCCEEEEEECcCCCCCCCCHHHHHHHHHH
Confidence            34456799999999999999999999987543444444 676666667777889999999999765432111  112234


Q ss_pred             HHHHHccCccEEEEEEeCCCCchhHHHHH-HHhhcccC--CCCCEEEEEe-cCCCCCh
Q 025346          188 NVRSAGINADCIVVLVDACKAPERIDEIL-EEGVGDHK--DKLPILLVLN-KKDLIKP  241 (254)
Q Consensus       188 ~~~~~~~~~d~iv~vid~~~~~~~~~~~~-~~~~~~~~--~~~piivV~n-K~Dl~~~  241 (254)
                      .+..++..+|++++|+|+++ +......+ ..+.....  ...|+++|+| |+|+...
T Consensus        98 ~~~~~~~~~d~il~V~d~~~-~~~~~~~~~~~l~~~~~~~~~~~~i~vv~nK~Dl~~~  154 (260)
T 2xtp_A           98 CYLLSAPGPHVLLLVTQLGR-YTSQDQQAAQRVKEIFGEDAMGHTIVLFTHKEDLNGG  154 (260)
T ss_dssp             HHHHHTTCCSEEEEEEETTC-CCHHHHHHHHHHHHHHCGGGGGGEEEEEECGGGGTTC
T ss_pred             HHHhcCCCCcEEEEEEeCCC-CCHHHHHHHHHHHHHhCchhhccEEEEEEcccccCCc
Confidence            44556889999999999987 43333322 22222111  1356676666 9999854

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=99.70  E-value=6.5e-17  Score=128.88  Aligned_cols=116  Identities=17%  Similarity=0.148  Sum_probs=83.5

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      .+..+|+++|.+|+|||||++++.+..+....+..+    .....+...+..+.+|||||.....  ..       +..+
T Consensus        20 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~t~~----~~~~~~~~~~~~~~~~Dt~G~~~~~--~~-------~~~~   86 (189)
T 2x77_A           20 DRKIRVLMLGLDNAGKTSILYRLHLGDVVTTVPTVG----VNLETLQYKNISFEVWDLGGQTGVR--PY-------WRCY   86 (189)
T ss_dssp             TSCEEEEEEEETTSSHHHHHHHTCCSCCEEECSSTT----CCEEEEEETTEEEEEEEECCSSSSC--CC-------CSSS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHcCCCCCcCCCCc----eEEEEEEECCEEEEEEECCCCHhHH--HH-------HHHH
Confidence            356799999999999999999998877643222112    1122344567899999999964322  11       2234


Q ss_pred             ccCccEEEEEEeCCCC--chhHHHHHHHhhccc-CCCCCEEEEEecCCCCCh
Q 025346          193 GINADCIVVLVDACKA--PERIDEILEEGVGDH-KDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~  241 (254)
                      +..+|++++|+|+++.  +.....++..++... ..+.|+++|+||+|+.+.
T Consensus        87 ~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  138 (189)
T 2x77_A           87 FSDTDAVIYVVDSTDRDRMGVAKHELYALLDEDELRKSLLLIFANKQDLPDA  138 (189)
T ss_dssp             STTCCEEEEEEETTCCTTHHHHHHHHHHHHTCSTTTTCEEEEEEECTTSTTC
T ss_pred             hhcCCEEEEEEeCCCHHHHHHHHHHHHHHHhhhhcCCCeEEEEEECCCCcCC
Confidence            7899999999999874  566666666665532 357999999999999876

>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=99.70  E-value=5.2e-17  Score=127.99  Aligned_cols=119  Identities=23%  Similarity=0.248  Sum_probs=76.2

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEe---cCCeeEEEEecCCCcccchhhhhHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICS---GPEYQMILYDTPGIIEKKIHMLDSMMMKNV  189 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~---~~~~~~~liDtpG~~~~~~~~~~~~~~~~~  189 (254)
                      ....+|+++|.+|+|||||++++.+..+.. ...+..+.+.....+.   .....+.+|||||...  +       ...+
T Consensus         6 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~--~-------~~~~   75 (182)
T 1ky3_A            6 KNILKVIILGDSGVGKTSLMHRYVNDKYSQ-QYKATIGADFLTKEVTVDGDKVATMQVWDTAGQER--F-------QSLG   75 (182)
T ss_dssp             -CEEEEEEECCTTSSHHHHHHHHHHSCCCT-TC---CCCSCEEEEECCSSSCCEEEEEECCC------------------
T ss_pred             CceEEEEEECCCCCCHHHHHHHHHhCcCCc-ccCCccceEEEEEEEEEcCCcEEEEEEEECCCChH--h-------hhhh
Confidence            345789999999999999999999887642 2222222222233333   3356899999999322  1       1234


Q ss_pred             HHHccCccEEEEEEeCCCC--chhHHHHHHHhhccc----CCCCCEEEEEecCCCCCh
Q 025346          190 RSAGINADCIVVLVDACKA--PERIDEILEEGVGDH----KDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       190 ~~~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~----~~~~piivV~nK~Dl~~~  241 (254)
                      ..++..+|++++|+|+++.  +.....++..+....    ..+.|+++|+||+|+...
T Consensus        76 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~  133 (182)
T 1ky3_A           76 VAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEES  133 (182)
T ss_dssp             -CCSTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGG
T ss_pred             HHHhhcCCEEEEEEECCChHHHHHHHHHHHHHHHHhcccCcCCCcEEEEEECCccccc
Confidence            4568899999999999883  345555655544332    267899999999999643

>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=99.70  E-value=6e-17  Score=130.74  Aligned_cols=119  Identities=24%  Similarity=0.277  Sum_probs=81.7

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEe--cCCeeEEEEecCCCcccchhhhhHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICS--GPEYQMILYDTPGIIEKKIHMLDSMMMKNVR  190 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~--~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~  190 (254)
                      ....+|+++|.+|+|||||++++.+..+. ....+..+.+.....+.  .....+.+|||||...  +..+       +.
T Consensus         6 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~--~~~~-------~~   75 (207)
T 1vg8_A            6 KVLLKVIILGDSGVGKTSLMNQYVNKKFS-NQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQER--FQSL-------GV   75 (207)
T ss_dssp             -CEEEEEEECCTTSSHHHHHHHHHHSCCC-SSCCCCCSEEEEEEEEESSSCEEEEEEEEECSSGG--GSCS-------CC
T ss_pred             CcceEEEEECcCCCCHHHHHHHHHcCCCC-CCCCCcccceEEEEEEEECCEEEEEEEEeCCCcHH--HHHh-------HH
Confidence            34568999999999999999999988764 22333333443333333  3446899999999432  2222       22


Q ss_pred             HHccCccEEEEEEeCCCC--chhHHHHHHHhhcccC----CCCCEEEEEecCCCCCh
Q 025346          191 SAGINADCIVVLVDACKA--PERIDEILEEGVGDHK----DKLPILLVLNKKDLIKP  241 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~----~~~piivV~nK~Dl~~~  241 (254)
                      .++..+|++++|+|+++.  +.....|+..+.....    .+.|+++|+||+|+...
T Consensus        76 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  132 (207)
T 1vg8_A           76 AFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENR  132 (207)
T ss_dssp             GGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSSCC
T ss_pred             HHHhCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcccccCCCCcEEEEEECCCCccc
Confidence            457899999999999873  3445555555443322    46899999999999743

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.70  E-value=2.8e-17  Score=148.35  Aligned_cols=129  Identities=23%  Similarity=0.315  Sum_probs=87.6

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccch--hhhhHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKI--HMLDSMMMKNVR  190 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~--~~~~~~~~~~~~  190 (254)
                      ....+++++|.+|+|||||+|++++.+...+++.+++|.+.....+...+..+.+|||||+.....  +.++........
T Consensus       173 ~~~~ki~lvG~~nvGKSSLin~l~~~~~~~~~~~~gtT~d~~~~~~~~~~~~~~l~DT~G~~~~~~~~~~~e~~~~~~~~  252 (436)
T 2hjg_A          173 EEVIQFCLIGRPNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQQEFVIVDTAGMRKKGKVYETTEKYSVLRAL  252 (436)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHTSTTEEEC---------CCEEEEETTEEEEETTHHHHTCBTTBCCCCSHHHHHHHH
T ss_pred             ccCcEEEEEcCCCCCHHHHHHHHhCCCceeecCCCCceeeeeEEEEEECCeEEEEEECCCcCcCccccchHHHHHHHHHH
Confidence            345799999999999999999999998777888999999888777777888999999999643221  111222212233


Q ss_pred             HHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          191 SAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      .++..+|++++|+|++++.......+.....  ..+.|+++|+||+|+.+.++
T Consensus       253 ~~~~~ad~~llv~D~~~~~s~~~~~~~~~~~--~~~~~iiiv~NK~Dl~~~~~  303 (436)
T 2hjg_A          253 KAIDRSEVVAVVLDGEEGIIEQDKRIAGYAH--EAGKAVVIVVNKWDAVDKDE  303 (436)
T ss_dssp             HHHHHCSEEEEEEETTTCCCHHHHHHHHHHH--HTTCEEEEEEECGGGSCCCT
T ss_pred             HHHHhCCEEEEEEcCCcCCcHHHHHHHHHHH--HcCCcEEEEEECccCCCcch
Confidence            4577899999999999865544433333222  25789999999999987543

>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=99.70  E-value=1.3e-17  Score=151.75  Aligned_cols=122  Identities=28%  Similarity=0.395  Sum_probs=92.4

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCc-ccchhhhhHHHHHHHHHHc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGII-EKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~-~~~~~~~~~~~~~~~~~~~  193 (254)
                      +.+|+++|.+|+|||||+|++++.+...++++++||++.....+..++..+.+|||||+. ... ...+.........++
T Consensus       243 ~~kV~ivG~pnvGKSSLln~L~~~~~a~vs~~~gTT~d~~~~~i~~~g~~~~l~DTaG~~~~~~-~~ve~~gi~~~~~~~  321 (482)
T 1xzp_A          243 GLRMVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRGILFRIVDTAGVRSETN-DLVERLGIERTLQEI  321 (482)
T ss_dssp             CEEEEEECCHHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEETTEEEEEEESSCCCSSCC-TTCCCCCHHHHHHHH
T ss_pred             CCEEEEECcCCCcHHHHHHHHHCCCCCccCCCCCeeeeeEEEEEecCCeEEEEEECCCccccch-hhHHHHHHHHHHHHh
Confidence            468999999999999999999998877789999999988877788888999999999986 322 222221123334567


Q ss_pred             cCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          194 INADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       194 ~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      ..+|++++|+|+++........+.+.+    .+.|+++|+||+|+...
T Consensus       322 ~~aD~vl~VvD~s~~~s~~~~~il~~l----~~~piivV~NK~DL~~~  365 (482)
T 1xzp_A          322 EKADIVLFVLDASSPLDEEDRKILERI----KNKRYLVVINKVDVVEK  365 (482)
T ss_dssp             HHCSEEEEEEETTSCCCHHHHHHHHHH----TTSSEEEEEEECSSCCC
T ss_pred             hcccEEEEEecCCCCCCHHHHHHHHHh----cCCCEEEEEECcccccc
Confidence            889999999999885443322222222    36899999999999754

>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=99.69  E-value=7.9e-17  Score=131.39  Aligned_cols=123  Identities=16%  Similarity=0.212  Sum_probs=83.1

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCcccccc-CCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHH
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVT-NKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVR  190 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~-~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~  190 (254)
                      ....++++++|++|+|||||++++.+..+.... .+.+++      ........+.+|||||....  .....   ..+.
T Consensus         9 ~~~~~~i~~~G~~g~GKTsl~~~l~~~~~~~~~~~~~~~~------~~~~~~~~~~l~Dt~G~~~~--~~~~~---~~~~   77 (218)
T 1nrj_B            9 KSYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLS------AADYDGSGVTLVDFPGHVKL--RYKLS---DYLK   77 (218)
T ss_dssp             -CCCCEEEEECSTTSSHHHHHHHHHHSSCCCBCCCSSCEE------ETTGGGSSCEEEECCCCGGG--THHHH---HHHH
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHhcCCCCCeeeecCceE------EEEeeCceEEEEECCCcHHH--HHHHH---HHHH
Confidence            345679999999999999999999987754211 111111      11225678999999996432  22111   1122


Q ss_pred             HHccCccEEEEEEeCC---CCchhHHHHHHHhhcc----cCCCCCEEEEEecCCCCChHhHH
Q 025346          191 SAGINADCIVVLVDAC---KAPERIDEILEEGVGD----HKDKLPILLVLNKKDLIKPGEIA  245 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~---~~~~~~~~~~~~~~~~----~~~~~piivV~nK~Dl~~~~~~~  245 (254)
                      .....++++++|+|++   .++.....++..++..    ...+.|+++|+||+|+.....+.
T Consensus        78 ~~~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~  139 (218)
T 1nrj_B           78 TRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARPPS  139 (218)
T ss_dssp             HHGGGEEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCCHH
T ss_pred             hccccCCEEEEEEECCCChHHHHHHHHHHHHHHhcccccccCCCCEEEEEEchHhcccCCHH
Confidence            2234589999999998   4667777777766543    24679999999999998875544

>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=99.69  E-value=9e-17  Score=124.99  Aligned_cols=118  Identities=20%  Similarity=0.252  Sum_probs=80.5

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEE--EecCCeeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGI--CSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~--~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      ...+|+++|.+|+|||||++++.+..+.. ...+..+.+.....  .+.....+.+|||||..  .+..+       +..
T Consensus         4 ~~~~i~v~G~~~~GKssl~~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~--~~~~~-------~~~   73 (168)
T 1z2a_A            4 VAIKMVVVGNGAVGKSSMIQRYCKGIFTK-DYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQE--EFDAI-------TKA   73 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHCCCCC-CSSCCCSSSEEEEEEEETTEEEEEEEECCTTGG--GTTCC-------CHH
T ss_pred             eeEEEEEECcCCCCHHHHHHHHHcCCCCC-CCCCceEEEEEEEEEEECCEEEEEEEEcCCCcH--hHHHH-------HHH
Confidence            34689999999999999999999877642 22222222222222  23335689999999943  22222       234


Q ss_pred             HccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          192 AGINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      ++..+|++++|+|+++.  +.....++..+.... .+.|+++|+||+|+.+.+
T Consensus        74 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~  125 (168)
T 1z2a_A           74 YYRGAQACVLVFSTTDRESFEAISSWREKVVAEV-GDIPTALVQNKIDLLDDS  125 (168)
T ss_dssp             HHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHH-CSCCEEEEEECGGGGGGC
T ss_pred             HhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccCccc
Confidence            47899999999999883  345555655554433 578999999999997643

>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=99.69  E-value=6.2e-17  Score=131.91  Aligned_cols=119  Identities=16%  Similarity=0.130  Sum_probs=80.1

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEE--EEecC----------CeeEEEEecCCCcccchhhh
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILG--ICSGP----------EYQMILYDTPGIIEKKIHML  181 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~--~~~~~----------~~~~~liDtpG~~~~~~~~~  181 (254)
                      ...+|+++|.+|+|||||++++++..+. ....+..+.+....  .+...          ...+.+|||||.  .     
T Consensus        24 ~~~ki~vvG~~~~GKSsLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~Dt~G~--~-----   95 (217)
T 2f7s_A           24 YLIKLLALGDSGVGKTTFLYRYTDNKFN-PKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQ--E-----   95 (217)
T ss_dssp             EEEEEEEESCTTSSHHHHHHHHHCSCCC-CEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESH--H-----
T ss_pred             eeEEEEEECcCCCCHHHHHHHHhcCCCC-cCCCCceeEEEEEEEEEECCccccccccCceeEEEEEEECCCc--H-----
Confidence            3468999999999999999999987653 11112222222111  22222          568999999992  2     


Q ss_pred             hHHHHHHHHHHccCccEEEEEEeCCCC--chhHHHHHHHhhcccC-CCCCEEEEEecCCCCChH
Q 025346          182 DSMMMKNVRSAGINADCIVVLVDACKA--PERIDEILEEGVGDHK-DKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       182 ~~~~~~~~~~~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~-~~~piivV~nK~Dl~~~~  242 (254)
                        .+...+..++..+|++++|+|+++.  +..+..|+..+..... .+.|+++|+||+|+...+
T Consensus        96 --~~~~~~~~~~~~~d~iilV~D~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~  157 (217)
T 2f7s_A           96 --RFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQR  157 (217)
T ss_dssp             --HHHHHHHHHHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGC
T ss_pred             --hHHhHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCCEEEEEECCcccccc
Confidence              2223455678999999999999873  3445555555444332 678999999999997643

>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=99.69  E-value=5e-17  Score=128.65  Aligned_cols=117  Identities=21%  Similarity=0.186  Sum_probs=79.6

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEE--EEecCCeeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILG--ICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~--~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      +..+|+++|.+|+|||||++++.+..+.  ..+.+++......  ..++....+.+|||||...  +...       +..
T Consensus         4 ~~~~i~~~G~~~~GKssl~~~l~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~--~~~~-------~~~   72 (186)
T 1mh1_A            4 QAIKCVVVGDGAVGKTCLLISYTTNAFP--GEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQED--YDRL-------RPL   72 (186)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSSCC--SSCCCCSCCEEEEEEEETTEEEEEEEECCCCSGG--GTTT-------GGG
T ss_pred             cEEEEEEECCCCCCHHHHHHHHHcCCCC--CCcCCcccceeEEEEEECCEEEEEEEEECCCCHh--HHHH-------HHH
Confidence            3468999999999999999999987763  3333443333222  2334456788999999533  2222       224


Q ss_pred             HccCccEEEEEEeCCCC--chhHH-HHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          192 AGINADCIVVLVDACKA--PERID-EILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~~--~~~~~-~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      ++..+|++++|+|+++.  +.... .++..+.. ...+.|+++|+||+|+.+..
T Consensus        73 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~  125 (186)
T 1mh1_A           73 SYPQTDVSLICFSLVSPASFENVRAKWYPEVRH-HCPNTPIILVGTKLDLRDDK  125 (186)
T ss_dssp             GCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHH-HSTTSCEEEEEECHHHHTCH
T ss_pred             hccCCcEEEEEEECCChhhHHHHHHHHHHHHHH-hCCCCCEEEEeEcccccccc
Confidence            57899999999999883  33443 34433332 23479999999999997654

>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=99.69  E-value=3.8e-17  Score=130.50  Aligned_cols=117  Identities=16%  Similarity=0.142  Sum_probs=81.7

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEE--EEecCCeeEEEEecCCCcccchhhhhHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILG--ICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVR  190 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~--~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~  190 (254)
                      ....+|+++|.+|+|||||++++++..+.  ..+.+|+......  ..+.....+.+|||||...  +..+        .
T Consensus        19 ~~~~ki~vvG~~~vGKTsLi~~l~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~--~~~~--------~   86 (187)
T 3c5c_A           19 PLEVNLAILGRRGAGKSALTVKFLTKRFI--SEYDPNLEDTYSSEETVDHQPVHLRVMDTADLDT--PRNC--------E   86 (187)
T ss_dssp             -CEEEEEEECCTTSSHHHHHHHHHHSSCC--SCCCTTCCEEEEEEEEETTEEEEEEEEECCC-----CCCT--------H
T ss_pred             CceEEEEEECCCCCcHHHHHHHHHhCCCC--cccCCCccceeeEEEEECCEEEEEEEEECCCCCc--chhH--------H
Confidence            34569999999999999999999988753  4445555443322  2344457899999999532  2222        2


Q ss_pred             HHccCccEEEEEEeCCC--CchhHHHHHHHhhccc---CCCCCEEEEEecCCCCCh
Q 025346          191 SAGINADCIVVLVDACK--APERIDEILEEGVGDH---KDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~---~~~~piivV~nK~Dl~~~  241 (254)
                      .++..+|++++|+|+++  ++..+..|+..+....   ..+.|+++|+||+|+...
T Consensus        87 ~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~  142 (187)
T 3c5c_A           87 RYLNWAHAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPALLLGNKLDMAQY  142 (187)
T ss_dssp             HHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECGGGGGG
T ss_pred             HHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhhccCCCCCEEEEEECcchhhc
Confidence            35788999999999987  3455566666555432   257999999999999654

>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=99.69  E-value=1.2e-16  Score=128.03  Aligned_cols=118  Identities=19%  Similarity=0.191  Sum_probs=77.6

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEE--EEEecCCeeEEEEecCCCcccchhhhhHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRIL--GICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVR  190 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~--~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~  190 (254)
                      ....+|+++|.+|+|||||++++.+..+..  .+.++......  ...+.....+.+|||||....  ..       .+.
T Consensus         6 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~--~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~--~~-------~~~   74 (199)
T 2gf0_A            6 SNDYRVVVFGAGGVGKSSLVLRFVKGTFRD--TYIPTIEDTYRQVISCDKSVCTLQITDTTGSHQF--PA-------MQR   74 (199)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHSCCCC--TTSCCCCEEEEEEEEETTEEEEEEEEECCGGGSC--HH-------HHH
T ss_pred             CCeeEEEEECCCCCcHHHHHHHHHcCCCCC--cccCccccceeEEEEECCEEEEEEEEeCCChHHh--HH-------HHH
Confidence            446799999999999999999999877642  22222211112  223344568999999994332  22       233


Q ss_pred             HHccCccEEEEEEeCCCC--chhHHHHHHHhhccc--CCCCCEEEEEecCCCCCh
Q 025346          191 SAGINADCIVVLVDACKA--PERIDEILEEGVGDH--KDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~--~~~~piivV~nK~Dl~~~  241 (254)
                      .++..+|++++|+|+++.  +.....++..+....  ..+.|+++|+||+|+...
T Consensus        75 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~piilv~nK~Dl~~~  129 (199)
T 2gf0_A           75 LSISKGHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGNKCDETQR  129 (199)
T ss_dssp             HHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHSCGGGSCEEEEEECTTCSSC
T ss_pred             HhhccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCCcc
Confidence            446779999999999873  334444443333221  246899999999999753

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=99.69  E-value=1e-16  Score=129.05  Aligned_cols=119  Identities=21%  Similarity=0.191  Sum_probs=76.8

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCC--eeEEEEecCCCcccchhhhhHHHHHH
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPE--YQMILYDTPGIIEKKIHMLDSMMMKN  188 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~  188 (254)
                      ......+|+++|.+|+|||||++++.+..+  ...+.+|+...........+  ..+.+|||||....  ..+       
T Consensus        16 ~~~~~~ki~~~G~~~~GKssl~~~l~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~--~~~-------   84 (201)
T 2q3h_A           16 AEGRGVKCVLVGDGAVGKTSLVVSYTTNGY--PTEYIPTAFDNFSAVVSVDGRPVRLQLCDTAGQDEF--DKL-------   84 (201)
T ss_dssp             ----CEEEEEECSTTSSHHHHHHHHHC----------CCSSEEEEEEEEETTEEEEEEEEECCCSTTC--SSS-------
T ss_pred             CCCcceEEEEECCCCCCHHHHHHHHHhCCC--CCCCCCcccceeEEEEEECCEEEEEEEEECCCCHHH--HHH-------
Confidence            345567999999999999999999998875  34555555554444444333  57889999996432  222       


Q ss_pred             HHHHccCccEEEEEEeCCCC--chhHH-HHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          189 VRSAGINADCIVVLVDACKA--PERID-EILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       189 ~~~~~~~~d~iv~vid~~~~--~~~~~-~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      +..++..+|++++|+|+++.  +.... .|+..+.. ...+.|+++|+||+|+...
T Consensus        85 ~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~p~ilv~nK~Dl~~~  139 (201)
T 2q3h_A           85 RPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEIRC-HCPKAPIILVGTQSDLRED  139 (201)
T ss_dssp             GGGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHH-HCSSSCEEEEEECGGGGGC
T ss_pred             hHhhcCCCcEEEEEEECCCHHHHHHHHHHHHHHHHH-hCCCCCEEEEEECHhhhhc
Confidence            22457899999999999873  33443 34444333 2357999999999999753

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=99.69  E-value=2.9e-16  Score=125.76  Aligned_cols=114  Identities=19%  Similarity=0.218  Sum_probs=78.2

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCC------------------------------
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPE------------------------------  162 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~------------------------------  162 (254)
                      ....+|+++|.+|+|||||++++++..+. ....+.+........+...+                              
T Consensus         5 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (208)
T 3clv_A            5 KSSYKTVLLGESSVGKSSIVLRLTKDTFH-ENTNTTIGASFCTYVVNLNDINIKNNSNNEKNNNINSINDDNNVIITNQH   83 (208)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHSCCC-SSCCCCCSCEEEEEEEETTC------------------------------
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHhCcCC-CCcCccccceeEEEEEEecCcccccccccccccccccccccccccccccc
Confidence            34578999999999999999999998764 22222222233333333222                              


Q ss_pred             ---------eeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEE
Q 025346          163 ---------YQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILL  231 (254)
Q Consensus       163 ---------~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piiv  231 (254)
                               ..+.+|||||...  +...       +..++..+|++++|+|+++.  +.....++..+....  +.|+++
T Consensus        84 ~~~~~~~~~~~~~i~Dt~G~~~--~~~~-------~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~--~~piil  152 (208)
T 3clv_A           84 NNYNENLCNIKFDIWDTAGQER--YASI-------VPLYYRGATCAIVVFDISNSNTLDRAKTWVNQLKISS--NYIIIL  152 (208)
T ss_dssp             -CCCTTTCEEEEEEEECTTGGG--CTTT-------HHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHS--CCEEEE
T ss_pred             ccccCccceeEEEEEECCCcHH--HHHH-------HHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhhC--CCcEEE
Confidence                     7899999999432  2222       33457899999999999884  445556665554432  389999


Q ss_pred             EEecCCC
Q 025346          232 VLNKKDL  238 (254)
Q Consensus       232 V~nK~Dl  238 (254)
                      |+||+|+
T Consensus       153 v~NK~D~  159 (208)
T 3clv_A          153 VANKIDK  159 (208)
T ss_dssp             EEECTTC
T ss_pred             EEECCCc
Confidence            9999993

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=99.69  E-value=3e-17  Score=129.14  Aligned_cols=119  Identities=18%  Similarity=0.167  Sum_probs=78.6

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecC---CeeEEEEecCCCcccchhhhhHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGP---EYQMILYDTPGIIEKKIHMLDSMMMKNV  189 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~---~~~~~liDtpG~~~~~~~~~~~~~~~~~  189 (254)
                      .+..+|+++|.+|+|||||++++.+..+.. ...+..+.+.....+...   ...+.+|||||...  +...       +
T Consensus         4 ~~~~ki~v~G~~~~GKssl~~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~--~~~~-------~   73 (178)
T 2hxs_A            4 MRQLKIVVLGDGASGKTSLTTCFAQETFGK-QYKQTIGLDFFLRRITLPGNLNVTLQIWDIGGQTI--GGKM-------L   73 (178)
T ss_dssp             CCEEEEEEECCTTSSHHHHHHHHHGGGTTH-HHHHTTTSSEEEEEEEETTTEEEEEEEEECTTCCT--TCTT-------H
T ss_pred             CceEEEEEECcCCCCHHHHHHHHHhCcCCC-CCCCceeEEEEEEEEEeCCCCEEEEEEEECCCCcc--ccch-------h
Confidence            345789999999999999999999877541 112222222233333333   37899999999432  2222       2


Q ss_pred             HHHccCccEEEEEEeCCCC--chhHHHHHHHhhcccC--CCCC-EEEEEecCCCCCh
Q 025346          190 RSAGINADCIVVLVDACKA--PERIDEILEEGVGDHK--DKLP-ILLVLNKKDLIKP  241 (254)
Q Consensus       190 ~~~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~--~~~p-iivV~nK~Dl~~~  241 (254)
                      ..++..+|++++|+|+++.  +.....|+..+.....  .+.| +++|+||+|+.+.
T Consensus        74 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iilv~nK~Dl~~~  130 (178)
T 2hxs_A           74 DKYIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKIDLEHM  130 (178)
T ss_dssp             HHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHHHHTCCCEEEEEEECGGGGGG
T ss_pred             hHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEccccccc
Confidence            3457899999999999883  3445555554433211  2455 8999999999754

>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=99.69  E-value=2.3e-16  Score=128.82  Aligned_cols=118  Identities=14%  Similarity=0.155  Sum_probs=80.0

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEE--EEecCCeeEEEEecCCCcccchhhhhHHHHHH
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILG--ICSGPEYQMILYDTPGIIEKKIHMLDSMMMKN  188 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~--~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~  188 (254)
                      +.....+|+++|.+|+|||||++++.+..+.  ..+.+|+......  ..+.....+.+|||||..  .+..+       
T Consensus        23 ~~~~~~ki~vvG~~~vGKSsL~~~l~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~--~~~~~-------   91 (214)
T 3q3j_B           23 PVVARCKLVLVGDVQCGKTAMLQVLAKDCYP--ETYVPTVFENYTACLETEEQRVELSLWDTSGSP--YYDNV-------   91 (214)
T ss_dssp             ----CEEEEEECSTTSSHHHHHHHHHHSCCC--SSCCCCSEEEEEEEEEC--CEEEEEEEEECCSG--GGTTT-------
T ss_pred             CccceEEEEEECcCCCCHHHHHHHHhcCCCC--CCcCCeeeeeEEEEEEECCEEEEEEEEECCCCH--hHHHH-------
Confidence            3445679999999999999999999988764  3444444333332  334455789999999943  33222       


Q ss_pred             HHHHccCccEEEEEEeCCCCc--hh-HHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          189 VRSAGINADCIVVLVDACKAP--ER-IDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       189 ~~~~~~~~d~iv~vid~~~~~--~~-~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      +..++..+|++++|+|+++..  .. ...|+..+.. ...+.|+++|+||+|+..
T Consensus        92 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~i~~-~~~~~piilv~nK~Dl~~  145 (214)
T 3q3j_B           92 RPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILD-YCPSTRVLLIGCKTDLRT  145 (214)
T ss_dssp             GGGGCTTCSEEEEEEETTCTHHHHHHHTHHHHHHHH-HCTTSEEEEEEECGGGGG
T ss_pred             HHHHcCCCeEEEEEEECcCHHHHHHHHHHHHHHHHH-hCCCCCEEEEEEChhhcc
Confidence            234578999999999999843  33 3445444433 346899999999999965

>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=99.69  E-value=1.7e-16  Score=126.63  Aligned_cols=116  Identities=19%  Similarity=0.200  Sum_probs=81.3

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCc--eEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQT--TRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~t--t~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      ..+|+++|.+|+|||||++++.+..+.. ...+..  +.......++.....+.+|||||...  +...       +..+
T Consensus        15 ~~~i~v~G~~~~GKssli~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~--~~~~-------~~~~   84 (195)
T 1x3s_A           15 TLKILIIGESGVGKSSLLLRFTDDTFDP-ELAATIGVDFKVKTISVDGNKAKLAIWDTAGQER--FRTL-------TPSY   84 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCT-TCCCCCSEEEEEEEEEETTEEEEEEEEEECSSGG--GCCS-------HHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCCCCc-cCCCccceEEEEEEEEECCeEEEEEEEeCCCchh--hhhh-------hHHH
Confidence            4689999999999999999999887642 222222  22222233344567899999999432  2222       2345


Q ss_pred             ccCccEEEEEEeCCCC--chhHHHHHHHhhccc-CCCCCEEEEEecCCCCC
Q 025346          193 GINADCIVVLVDACKA--PERIDEILEEGVGDH-KDKLPILLVLNKKDLIK  240 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~  240 (254)
                      +..+|++++|+|+++.  +..+..|+..+.... ..+.|+++|+||+|+..
T Consensus        85 ~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~  135 (195)
T 1x3s_A           85 YRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKEN  135 (195)
T ss_dssp             HTTCCEEEEEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSSS
T ss_pred             hccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCcEEEEEECCcCcc
Confidence            7899999999999874  445566666665543 25789999999999954

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=99.69  E-value=4.9e-17  Score=131.10  Aligned_cols=118  Identities=21%  Similarity=0.215  Sum_probs=58.3

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceE-EEEEEEEecC----CeeEEEEecCCCcccchhhhhHHHHHH
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTR-HRILGICSGP----EYQMILYDTPGIIEKKIHMLDSMMMKN  188 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~-~~~~~~~~~~----~~~~~liDtpG~~~~~~~~~~~~~~~~  188 (254)
                      ...+|+++|.+|+|||||++++.+........+.+|+. +.....+...    ...+.+|||||...         +...
T Consensus        19 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~---------~~~~   89 (208)
T 2yc2_C           19 LRCKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSVELFLLDTAGSDL---------YKEQ   89 (208)
T ss_dssp             EEEEEEEC----------------------------------CEEEECTTSSEEEEEEEEETTTTHH---------HHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhCCCcccCCCCCccceEEEEEEEEECCcccEEEEEEEECCCcHH---------HHHH
Confidence            34689999999999999999999883221334444443 3333333333    56899999999522         2233


Q ss_pred             HHHHccCccEEEEEEeCCCC--chhHHHHHHHhhcccC---CCCCEEEEEecCCCCC
Q 025346          189 VRSAGINADCIVVLVDACKA--PERIDEILEEGVGDHK---DKLPILLVLNKKDLIK  240 (254)
Q Consensus       189 ~~~~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~---~~~piivV~nK~Dl~~  240 (254)
                      +..++..+|++++|+|+++.  +.....|+..+.....   .+.|+++|+||+|+..
T Consensus        90 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~  146 (208)
T 2yc2_C           90 ISQYWNGVYYAILVFDVSSMESFESCKAWFELLKSARPDRERPLRAVLVANKTDLPP  146 (208)
T ss_dssp             HSTTCCCCCEEEEEEETTCHHHHHHHHHHHHHHHHHCSCTTSCCEEEEEEECC----
T ss_pred             HHHHHhhCcEEEEEEECCCHHHHHHHHHHHHHHHHhhcccccCCcEEEEEECcccch
Confidence            55668899999999999884  4556666666655444   5799999999999987

>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=99.69  E-value=1.1e-16  Score=130.87  Aligned_cols=121  Identities=17%  Similarity=0.235  Sum_probs=88.5

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCcc-ccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHH
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQKL-SIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNV  189 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~~-~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~  189 (254)
                      ......+|+++|.+|+|||||+++++...+ ....+..+++..............+.+|||||.  ..+..+.       
T Consensus        11 ~~~~~~ki~v~G~~~~GKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~--~~~~~~~-------   81 (221)
T 3gj0_A           11 EPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQ--EKFGGLR-------   81 (221)
T ss_dssp             CCCCEEEEEEEECTTSSHHHHHTTBHHHHHTCEEETTTTEEEEEEEEEETTEEEEEEEEEECSG--GGTSCCC-------
T ss_pred             CcccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCh--HHHhHHH-------
Confidence            334557999999999999999999765553 234556667776666666667788999999994  3333322       


Q ss_pred             HHHccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          190 RSAGINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       190 ~~~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      ..++..+|++++|+|+++.  +.....|+..+... ..+.|+++|+||+|+.+.
T Consensus        82 ~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~p~ilv~nK~Dl~~~  134 (221)
T 3gj0_A           82 DGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV-CENIPIVLCGNKVDIKDR  134 (221)
T ss_dssp             HHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHH-STTCCEEEEEECTTSSSC
T ss_pred             HHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHh-CCCCCEEEEEECCccccc
Confidence            2346799999999999983  44555666655543 357999999999999764

>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=99.69  E-value=9e-17  Score=125.34  Aligned_cols=118  Identities=21%  Similarity=0.205  Sum_probs=74.2

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEE--EecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGI--CSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~--~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .+|+++|.+|+|||||++++.+.........+ ++.......  .+.....+.+|||||.....  .      .....++
T Consensus         3 ~ki~ivG~~~~GKSsli~~l~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~--~------~~~~~~~   73 (169)
T 3q85_A            3 FKVMLVGESGVGKSTLAGTFGGLQGDHAHEME-NSEDTYERRIMVDKEEVTLIVYDIWEQGDAG--G------WLQDHCL   73 (169)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHCC-------------CEEEEEEEETTEEEEEEEECCCCC----------------CHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHhccCcccccCC-CcCCeeeEEEEECCeEEEEEEEECCCccccc--h------hhhhhhh
Confidence            57999999999999999999977654333222 233333332  33445678999999954321  1      0112235


Q ss_pred             cCccEEEEEEeCCC--CchhHHHHHHHhhcccC-CCCCEEEEEecCCCCChH
Q 025346          194 INADCIVVLVDACK--APERIDEILEEGVGDHK-DKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       194 ~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~-~~~piivV~nK~Dl~~~~  242 (254)
                      ..+|++++|+|+++  ++.....++..+..... .+.|+++|+||+|+.+.+
T Consensus        74 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~  125 (169)
T 3q85_A           74 QTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSR  125 (169)
T ss_dssp             HHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCGGGC
T ss_pred             ccCCEEEEEEECCChHHHHHHHHHHHHHHhcccCCCCCEEEEeeCcchhhcc
Confidence            66999999999988  34566667766655433 479999999999997543

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=99.68  E-value=1.1e-16  Score=127.89  Aligned_cols=127  Identities=17%  Similarity=0.230  Sum_probs=82.1

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccc--cCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIV--TNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVR  190 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~--~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~  190 (254)
                      ....+|+++|.+|+|||||++++.+..+...  ...+.++       .+.....+.+|||||.....  ....   ..+.
T Consensus        46 ~~~~~i~vvG~~g~GKSsll~~l~~~~~~~~~~~~~~~~~-------~~~~~~~~~l~Dt~G~~~~~--~~~~---~~~~  113 (193)
T 2ged_A           46 SYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSA-------ADYDGSGVTLVDFPGHVKLR--YKLS---DYLK  113 (193)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHHSSCC-------------------CCCCTTCSEEEETTCCBSS--CCHH---HHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCCCcccccCCCcee-------eeecCCeEEEEECCCCchHH--HHHH---HHHH
Confidence            4567999999999999999999998765321  1112221       12256789999999964432  1111   2223


Q ss_pred             HHccCccEEEEEEeCC-C--CchhHHHHHHHhhcc----cCCCCCEEEEEecCCCCChHhHHHHHHHH
Q 025346          191 SAGINADCIVVLVDAC-K--APERIDEILEEGVGD----HKDKLPILLVLNKKDLIKPGEIAKKLEVT  251 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~-~--~~~~~~~~~~~~~~~----~~~~~piivV~nK~Dl~~~~~~~~~~~~~  251 (254)
                      .....+|++++|+|++ +  ++.....++..++..    ...+.|+++|+||+|+.....+.+..+.+
T Consensus       114 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~l  181 (193)
T 2ged_A          114 TRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARPPSKIKDAL  181 (193)
T ss_dssp             HHGGGEEEEEEEEETTCCHHHHHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCCHHHHHHHH
T ss_pred             hhcccCCEEEEEEECCCCchhHHHHHHHHHHHHhhhhhccccCCCEEEEEEchHhcCCCCHHHHHHHH
Confidence            3356699999999998 4  234444555555432    23579999999999998876655544443

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=99.68  E-value=6.4e-16  Score=131.03  Aligned_cols=132  Identities=17%  Similarity=0.202  Sum_probs=81.4

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccC-------CCCceEEEEEEEEecCC--eeEEEEecCCCcccc-----hhh
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTN-------KPQTTRHRILGICSGPE--YQMILYDTPGIIEKK-----IHM  180 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~-------~~~tt~~~~~~~~~~~~--~~~~liDtpG~~~~~-----~~~  180 (254)
                      ..+|+++|.+|+|||||+|++++.+......       .++++.......+...+  ..+.+|||||+.+..     +..
T Consensus         8 ~~~I~vvG~~g~GKSTLin~L~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~liDTpG~~d~~~~~~~~~~   87 (274)
T 3t5d_A            8 EFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSNCWQP   87 (274)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHSSSCC---------------CCCEEEEEEECC--CCEEEEEEECCCCSCCSCCTTTTHH
T ss_pred             EEEEEEECCCCCCHHHHHHHHhCCCccccCCCCcccccCCceEEEEEEEEEecCCeEEEEEEEECCCccccccchhhHHH
Confidence            3589999999999999999998877543322       23333333334444433  589999999985432     222


Q ss_pred             hhHHHHHHHHHHcc-------------CccEEEEEEeCCC-CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHH
Q 025346          181 LDSMMMKNVRSAGI-------------NADCIVVLVDACK-APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAK  246 (254)
Q Consensus       181 ~~~~~~~~~~~~~~-------------~~d~iv~vid~~~-~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~  246 (254)
                      +......++..++.             .+|+++++++.+. +.......+...+..   +.|+++|+||+|+....++..
T Consensus        88 i~~~i~~~~~~~l~~~~~~~r~~~~d~r~~~~l~~i~~~~~~~~~~d~~~l~~l~~---~~pvi~V~nK~D~~~~~e~~~  164 (274)
T 3t5d_A           88 VIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLHE---KVNIIPLIAKADTLTPEECQQ  164 (274)
T ss_dssp             HHHHHHHHHHHHHHHHHSSCCCSCCCCCCCEEEEEECSCCSSCCHHHHHHHHHHTT---TSCEEEEESSGGGSCHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhcccccccccCCceeEEEEEecCCCCCCCHHHHHHHHHHhc---cCCEEEEEeccCCCCHHHHHH
Confidence            22222233333333             3779999997765 555555544444432   799999999999998877655


Q ss_pred             HHH
Q 025346          247 KLE  249 (254)
Q Consensus       247 ~~~  249 (254)
                      ..+
T Consensus       165 ~~~  167 (274)
T 3t5d_A          165 FKK  167 (274)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            433

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=99.68  E-value=4.6e-16  Score=131.10  Aligned_cols=127  Identities=21%  Similarity=0.286  Sum_probs=89.3

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      .+..+|+++|.+|+|||||+|++++.....+..++++|...........+..+.+|||||+.+..  .......+.+..+
T Consensus        34 ~~~~~I~lvG~~g~GKSSLin~l~~~~~~~~~~~~~~t~~~~~~~~~~~~~~l~liDTpG~~~~~--~~~~~~~~~i~~~  111 (262)
T 3def_A           34 MNSMTVLVLGKGGVGKSSTVNSLIGEQVVRVSPFQAEGLRPVMVSRTMGGFTINIIDTPGLVEAG--YVNHQALELIKGF  111 (262)
T ss_dssp             CCEEEEEEEECTTSSHHHHHHHHHTSCCSCCCSSCC-CCCCEEEEEEETTEEEEEEECCCSEETT--EECHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCcceeeEEEEEEECCeeEEEEECCCCCCcc--cchHHHHHHHHHH
Confidence            34678999999999999999999999876677888888777777777888999999999975532  2222222323332


Q ss_pred             c--cCccEEEEEEeCCC-CchhHH-HHHHHhhcccCCC--CCEEEEEecCCCCCh
Q 025346          193 G--INADCIVVLVDACK-APERID-EILEEGVGDHKDK--LPILLVLNKKDLIKP  241 (254)
Q Consensus       193 ~--~~~d~iv~vid~~~-~~~~~~-~~~~~~~~~~~~~--~piivV~nK~Dl~~~  241 (254)
                      +  ..+|++++|+++.. ...... .++..+......+  .|+++|+||+|+.++
T Consensus       112 l~~~~~~~il~V~~~d~~~~~~~~~~~~~~l~~~~~~~~~~~~ivv~nK~Dl~~~  166 (262)
T 3def_A          112 LVNRTIDVLLYVDRLDVYAVDELDKQVVIAITQTFGKEIWCKTLLVLTHAQFSPP  166 (262)
T ss_dssp             TTTCEECEEEEEEESSCSCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECTTCCCS
T ss_pred             HhcCCCCEEEEEEcCCCCCCCHHHHHHHHHHHHHhchhhhcCEEEEEeCcccCCC
Confidence            2  47899999988765 243333 4444443333322  499999999999643

>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=99.68  E-value=1.6e-16  Score=126.21  Aligned_cols=116  Identities=17%  Similarity=0.186  Sum_probs=78.6

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEE--EecCCeeEEEEecCCCcccchhhhhHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGI--CSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVR  190 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~--~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~  190 (254)
                      ....+|+++|.+|+|||||++++.+..+.  ..+.++........  .+.....+.+|||||..  .+..+       ..
T Consensus         5 ~~~~ki~v~G~~~vGKSsli~~l~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~--~~~~~-------~~   73 (184)
T 1m7b_A            5 NVKCKIVVVGDSQCGKTALLHVFAKDCFP--ENYVPTVFENYTASFEIDTQRIELSLWDTSGSP--YYDNV-------RP   73 (184)
T ss_dssp             -CEEEEEEEESTTSSHHHHHHHHHHSCCC--SSCCCCSEEEEEEEEECSSCEEEEEEEEECCSG--GGTTT-------GG
T ss_pred             ceEEEEEEECCCCCCHHHHHHHHhcCCCC--CCCCCccceeEEEEEEECCEEEEEEEEECCCCh--hhhhh-------HH
Confidence            34568999999999999999999988764  23333333222222  33445789999999943  22222       22


Q ss_pred             HHccCccEEEEEEeCCCC--chhH-HHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          191 SAGINADCIVVLVDACKA--PERI-DEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~~~--~~~~-~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      .++..+|++++|+|+++.  +... ..|+..+ .....+.|+++|+||+|+.+
T Consensus        74 ~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i-~~~~~~~piilv~nK~Dl~~  125 (184)
T 1m7b_A           74 LSYPDSDAVLICFDISRPETLDSVLKKWKGEI-QEFCPNTKMLLVGCKSDLRT  125 (184)
T ss_dssp             GGCTTCSEEEEEEETTCHHHHHHHHHTHHHHH-HHHCTTCEEEEEEECGGGGG
T ss_pred             hhcCCCcEEEEEEECCCHHHHHHHHHHHHHHH-HHHCCCCCEEEEEEcchhhc
Confidence            357899999999999873  3333 3343333 22345799999999999974

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=99.67  E-value=1.6e-16  Score=129.07  Aligned_cols=119  Identities=22%  Similarity=0.160  Sum_probs=81.5

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEE--EecCCeeEEEEecCCCcccchhhhhHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGI--CSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVR  190 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~--~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~  190 (254)
                      ....+|+++|.+|+|||||++++.+..+.  ..+.+++.......  .++....+.+|||||....  ..+       +.
T Consensus         7 ~~~~ki~i~G~~~~GKTsli~~l~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~--~~~-------~~   75 (212)
T 2j0v_A            7 SKFIKCVTVGDGAVGKTCMLICYTSNKFP--TDYIPTVFDNFSANVAVDGQIVNLGLWDTAGQEDY--SRL-------RP   75 (212)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHSCCC--SSCCCSSCCCEEEEEECSSCEEEEEEECCCCCCCC--CC---------C
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCCC--ccCCCccceeEEEEEEECCEEEEEEEEECCCcHHH--HHH-------HH
Confidence            45579999999999999999999987763  34444443333322  3344568999999995432  222       23


Q ss_pred             HHccCccEEEEEEeCCCC--chhHH-HHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          191 SAGINADCIVVLVDACKA--PERID-EILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~~~--~~~~~-~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      .++..+|++++|+|+++.  +.... .|+..+.. ...+.|+++|+||+|+.+...
T Consensus        76 ~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~  130 (212)
T 2j0v_A           76 LSYRGADIFVLAFSLISKASYENVLKKWMPELRR-FAPNVPIVLVGTKLDLRDDKG  130 (212)
T ss_dssp             GGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHH-HCTTCCEEEEEECHHHHTCHH
T ss_pred             hhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHH-hCCCCCEEEEEeCHHhhhCcc
Confidence            457899999999999873  33333 34444332 235799999999999976543

>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=99.67  E-value=3.5e-16  Score=124.83  Aligned_cols=124  Identities=20%  Similarity=0.171  Sum_probs=77.7

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCC-------CCceEEEEEE-----EEecCCeeEEEEecCCCcccchhh
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNK-------PQTTRHRILG-----ICSGPEYQMILYDTPGIIEKKIHM  180 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~-------~~tt~~~~~~-----~~~~~~~~~~liDtpG~~~~~~~~  180 (254)
                      ....+|+++|.+|+|||||++.+.+.........       ...|......     ..++....+.+|||||....  ..
T Consensus        12 ~~~~ki~vvG~~~~GKssL~~~l~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~--~~   89 (198)
T 3t1o_A           12 EINFKIVYYGPGLSGKTTNLKWIYSKVPEGRKGEMVSLATEDERTLFFDFLPLDIGEVKGFKTRFHLYTVPGQVFY--NA   89 (198)
T ss_dssp             EEEEEEEEECSTTSSHHHHHHHHHHTSCGGGBCCCEEEECSSCEEEEEEECCSSCCCSSSCEEEEEEEECCSCCSC--SH
T ss_pred             ccccEEEEECCCCCCHHHHHHHHHhhccccccccccccccccccceeeeecccccccccCCceEEEEEeCCChHHH--HH
Confidence            3456899999999999999977765433211110       1112211111     12234567999999995432  22


Q ss_pred             hhHHHHHHHHHHccCccEEEEEEeCCCC--------chhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHH
Q 025346          181 LDSMMMKNVRSAGINADCIVVLVDACKA--------PERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAK  246 (254)
Q Consensus       181 ~~~~~~~~~~~~~~~~d~iv~vid~~~~--------~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~  246 (254)
                             .+..++..+|++++|+|+++.        +..+..|+..+ +....+.|+++|+||+|+.+....++
T Consensus        90 -------~~~~~~~~~d~~i~v~D~~~~~~~~~~~s~~~l~~~l~~~-~~~~~~~piilv~NK~Dl~~~~~~~~  155 (198)
T 3t1o_A           90 -------SRKLILRGVDGIVFVADSAPNRLRANAESMRNMRENLAEY-GLTLDDVPIVIQVNKRDLPDALPVEM  155 (198)
T ss_dssp             -------HHHHHTTTCCEEEEEEECCGGGHHHHHHHHHHHHHHHHHT-TCCTTSSCEEEEEECTTSTTCCCHHH
T ss_pred             -------HHHHHHhcCCEEEEEEECCcchhhHhHHHHHHHHHHHHhh-ccccCCCCEEEEEEchhcccccCHHH
Confidence                   233568999999999999842        23333444443 22346799999999999976533333

>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=99.67  E-value=1.5e-16  Score=134.76  Aligned_cols=122  Identities=35%  Similarity=0.408  Sum_probs=89.7

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      ..+++++|++|+|||||+|++++..+ .++..+++|.......+...+..+.+|||||+...............+ ....
T Consensus         3 ~~~i~lvG~~g~GKTTL~n~l~g~~~-~~~~~~~~t~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~~~~-~~~~   80 (271)
T 3k53_A            3 LKTVALVGNPNVGKTTIFNALTGLRQ-HVGNWPGVTVEKKEGIMEYREKEFLVVDLPGIYSLTAHSIDELIARNF-ILDG   80 (271)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHHTTCE-EEEECTTSSCEEEEEEEEETTEEEEEEECCCCSCCCSSCHHHHHHHHH-HHTT
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCCc-ccCCCCCeEEEeeEEEEEECCceEEEEeCCCccccccCCHHHHHHHHh-hhcc
Confidence            46899999999999999999999877 478889999888888888888899999999976544333332221111 1237


Q ss_pred             CccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          195 NADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       195 ~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      .+|++++|+|+++.. ....++..+...  ...|+++|+||+|+.+.
T Consensus        81 ~~d~vi~v~D~~~~~-~~~~~~~~~~~~--~~~p~ilv~NK~Dl~~~  124 (271)
T 3k53_A           81 NADVIVDIVDSTCLM-RNLFLTLELFEM--EVKNIILVLNKFDLLKK  124 (271)
T ss_dssp             CCSEEEEEEEGGGHH-HHHHHHHHHHHT--TCCSEEEEEECHHHHHH
T ss_pred             CCcEEEEEecCCcch-hhHHHHHHHHhc--CCCCEEEEEEChhcCcc
Confidence            899999999998842 333333333321  23899999999998654

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=99.67  E-value=5.3e-17  Score=133.23  Aligned_cols=119  Identities=19%  Similarity=0.210  Sum_probs=78.5

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEe--cCCeeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICS--GPEYQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~--~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      ...+|+++|.+|+|||||++++.+..+.... .+..+.......+.  .....+.+|||||...  +..+       +..
T Consensus        12 ~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~--~~~~-------~~~   81 (223)
T 3cpj_B           12 LLFKIVLIGDSGVGKSNLLSRFTKNEFNMDS-KSTIGVEFATRTLEIEGKRIKAQIWDTAGQER--YRAI-------TSA   81 (223)
T ss_dssp             EEEEEEEESCTTSSHHHHHHHHHHCCCCC-------CCSEEEEEEEETTEEEEEEEECCTTTTT--TTCC-------CGG
T ss_pred             eeeEEEEECcCCCCHHHHHHHHhcCCCCCCC-CCcccceeEEEEEEECCEEEEEEEEECCCccc--hhhh-------HHH
Confidence            3468999999999999999999988765322 22222222222233  3346899999999532  2222       234


Q ss_pred             HccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          192 AGINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      ++..+|++++|+|+++.  +..+..|+..+......+.|+++|+||+|+...+
T Consensus        82 ~~~~~d~vilV~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~  134 (223)
T 3cpj_B           82 YYRGAVGALIVYDISKSSSYENCNHWLSELRENADDNVAVGLIGNKSDLAHLR  134 (223)
T ss_dssp             GTTTCCEEEEEEC-CCHHHHHHHHHHHHHHHHHCC--CEEEEEECCGGGGGGC
T ss_pred             HhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccc
Confidence            57899999999999873  4555566666555445679999999999997643

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=99.66  E-value=7.1e-18  Score=135.92  Aligned_cols=120  Identities=20%  Similarity=0.173  Sum_probs=79.0

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEe--cCCeeEEEEecCCCcccchhhhhHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICS--GPEYQMILYDTPGIIEKKIHMLDSMMMKNVR  190 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~--~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~  190 (254)
                      ....+|+++|.+|+|||||++++.+..+.. ...++++.......+.  .....+.+|||||....  ..+       +.
T Consensus        31 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~--~~~-------~~  100 (199)
T 3l0i_B           31 DYLFKLLLIGDSGVGKSCLLLRFADDTYTE-SYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERF--RTI-------TS  100 (199)
T ss_dssp             SEEEEEEEECCTTSCCTTTTTSSBCCCCCC-HHHHHHCCSEEEEEEEETTEEEEEEEECCTTCTTC--CCC-------SC
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhcCCCCC-CcCCcccceEEEEEEEECCEEEEEEEEECCCcHhH--HHH-------HH
Confidence            345799999999999999999999877542 2223333333333333  33468999999994332  221       22


Q ss_pred             HHccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          191 SAGINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      .++..+|++++|+|+++.  +..+..++..+......+.|+++|+||+|+.+.+
T Consensus       101 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~~~~  154 (199)
T 3l0i_B          101 SYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKK  154 (199)
T ss_dssp             C--CCCSEEEECC-CCCSHHHHHHHHHHHHHHSCC-CCSEEEEC-CCSSCC--C
T ss_pred             HHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhccCCCCEEEEEECccCCccc
Confidence            347889999999999884  3456667766665555689999999999997653

>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=99.66  E-value=2.6e-16  Score=133.39  Aligned_cols=120  Identities=26%  Similarity=0.361  Sum_probs=85.5

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      ..+|+++|.+|+|||||+|++.+.... ++++|++|.....+.+.. +..+.+|||||.........+......+.. ..
T Consensus         3 ~~kI~lvG~~nvGKSTL~n~L~g~~~~-v~~~pg~tv~~~~~~~~~-~~~l~l~DtpG~~~~~~~~~~e~v~~~~~~-~~   79 (272)
T 3b1v_A            3 MTEIALIGNPNSGKTSLFNLITGHNQR-VGNWPGVTVERKSGLVKK-NKDLEIQDLPGIYSMSPYSPEAKVARDYLL-SQ   79 (272)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHCCCCC-CCSSSCCCCSCEEEECTT-CTTEEEEECCCCSCSSCSSHHHHHHHHHHH-TT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHCCCCc-ccCCCCCcEEEEEEEEec-CCeEEEEECCCcCccCCCChHHHHHHHHHh-cC
Confidence            458999999999999999999987643 778888888777777776 788999999996543322222222111111 14


Q ss_pred             CccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          195 NADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       195 ~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      .+|++++|+|+++. +....+...+..   .+.|+++|+||+|+...
T Consensus        80 ~~d~vi~V~D~t~~-e~~~~~~~~l~~---~~~p~ilv~NK~Dl~~~  122 (272)
T 3b1v_A           80 RADSILNVVDATNL-ERNLYLTTQLIE---TGIPVTIALNMIDVLDG  122 (272)
T ss_dssp             CCSEEEEEEEGGGH-HHHHHHHHHHHH---TCSCEEEEEECHHHHHH
T ss_pred             CCCEEEEEecCCch-HhHHHHHHHHHh---cCCCEEEEEEChhhCCc
Confidence            79999999999873 333334433332   47899999999998643

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8

Probab=99.66  E-value=5e-16  Score=126.89  Aligned_cols=121  Identities=22%  Similarity=0.222  Sum_probs=79.8

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEE--EEecCCeeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILG--ICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~--~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      ...+|+++|.+|+|||||++++.+........+++++.+....  .+++....+.+|||+|....     ..   .....
T Consensus        36 ~~~kVvlvG~~~vGKSSLl~r~~~~~~~~~~~~~~~g~d~~~~~i~~~~~~~~l~~~Dt~g~~~~-----~~---~l~~~  107 (211)
T 2g3y_A           36 TYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWENKGE-----NE---WLHDH  107 (211)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHCCCCTTCCC---CCTTEEEEEEEETTEEEEEEEECCTTTTHH-----HH---HHHHC
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCCCCCCCcCCccceeeEEEEEEECCeeeEEEEeecCCCcch-----hh---hHHHH
Confidence            3468999999999999999999976543333334333332222  23334456789999994321     11   11234


Q ss_pred             HccCccEEEEEEeCCC--CchhHHHHHHHhhccc-CCCCCEEEEEecCCCCChH
Q 025346          192 AGINADCIVVLVDACK--APERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~  242 (254)
                      ++..++++++|+|+++  ++.....|+..+.... ..++|+++|+||+|+...+
T Consensus       108 ~~~~a~~~ilVydvt~~~sf~~~~~~~~~l~~~~~~~~~piilVgNK~DL~~~r  161 (211)
T 2g3y_A          108 CMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCR  161 (211)
T ss_dssp             CCCCCSEEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGGGC
T ss_pred             HHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCcEEEEEEChHHhcCc
Confidence            5788999999999987  4555666665554432 3579999999999997543

>4dcu_A GTP-binding protein ENGA; GTPase, GDP, protein binding, hydrolase; HET: GDP; 2.00A {Bacillus subtilis} PDB: 4dct_A* 4dcs_A* 4dcv_A* 2hjg_A*

Probab=99.66  E-value=1.8e-16  Score=143.74  Aligned_cols=128  Identities=23%  Similarity=0.312  Sum_probs=91.9

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccch--hhhhHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKI--HMLDSMMMKNVR  190 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~--~~~~~~~~~~~~  190 (254)
                      ....+++++|.+|+|||||+|++++.+...+++.+++|.+.....+...+..+.+|||||+.....  ...+........
T Consensus       193 ~~~~ki~ivG~~~vGKSslin~l~~~~~~~~~~~~gtt~~~~~~~~~~~~~~~~l~DT~G~~~~~~~~~~~e~~~~~~~~  272 (456)
T 4dcu_A          193 EEVIQFCLIGRPNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQQEFVIVDTAGMRKKGKVYETTEKYSVLRAL  272 (456)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHTSTTEEECC------CTTSEEEEETTEEEEETTGGGTTTBTTBCCCCSHHHHHHHH
T ss_pred             cccceeEEecCCCCCHHHHHHHHhCCCccccCCCCCeEEEEEEEEEEECCceEEEEECCCCCcCcccchHHHHHHHHHHH
Confidence            456799999999999999999999887666888999998876666777788999999999754221  111222222334


Q ss_pred             HHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          191 SAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      .++..+|++++|+|++++.......+...+..  .+.|+++|+||+|+.+.+
T Consensus       273 ~~~~~ad~~llviD~~~~~~~~~~~~~~~~~~--~~~~~ilv~NK~Dl~~~~  322 (456)
T 4dcu_A          273 KAIDRSEVVAVVLDGEEGIIEQDKRIAGYAHE--AGKAVVIVVNKWDAVDKD  322 (456)
T ss_dssp             HHHHHCSEEEEEEETTTCCCHHHHHHHHHHHH--TTCEEEEEEECGGGSCCC
T ss_pred             HHHhhCCEEEEEEeCCCCcCHHHHHHHHHHHH--cCCCEEEEEEChhcCCCc
Confidence            46788999999999999777666655554443  568999999999998653

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=99.66  E-value=7.1e-16  Score=134.20  Aligned_cols=121  Identities=20%  Similarity=0.205  Sum_probs=85.5

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      .+..+|+++|.+|+|||||++++.+..+..  ..|  |.......+...+..+.+|||||.  ..+..+       +..+
T Consensus       163 ~~~~kI~ivG~~~vGKSsLl~~l~~~~~~~--~~p--T~~~~~~~~~~~~~~l~i~Dt~G~--~~~~~~-------~~~~  229 (329)
T 3o47_A          163 KKEMRILMVGLDAAGKTTILYKLKLGEIVT--TIP--TIGFNVETVEYKNISFTVWDVGGQ--DKIRPL-------WRHY  229 (329)
T ss_dssp             CCSEEEEEEESTTSSHHHHHHHTCSSCCEE--EEE--ETTEEEEEEEETTEEEEEEECC-------CCS-------HHHH
T ss_pred             cCcceEEEECCCCccHHHHHHHHhCCCCCC--ccc--ccceEEEEEecCcEEEEEEECCCC--HhHHHH-------HHHH
Confidence            345689999999999999999999887642  222  333344456677899999999993  333332       3345


Q ss_pred             ccCccEEEEEEeCCC--CchhHHHHHHHhhccc-CCCCCEEEEEecCCCCChHhHHH
Q 025346          193 GINADCIVVLVDACK--APERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPGEIAK  246 (254)
Q Consensus       193 ~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~~~~~  246 (254)
                      +..+|++|+|+|+++  ++.....++..++... ..++|+++|+||+|+.+.....+
T Consensus       230 ~~~ad~vilV~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilV~NK~Dl~~~~~~~~  286 (329)
T 3o47_A          230 FQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMNAAE  286 (329)
T ss_dssp             HTTEEEEEEEEETTCSSSHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHH
T ss_pred             hccCCEEEEEEECCchHHHHHHHHHHHHHHhhhccCCCeEEEEEECccCCcccCHHH
Confidence            789999999999976  4566666666655433 35799999999999987644433

>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=99.66  E-value=3.3e-16  Score=127.16  Aligned_cols=115  Identities=17%  Similarity=0.183  Sum_probs=79.1

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEE--ecCCeeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGIC--SGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~--~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      ...+|+++|.+|+|||||++++.+..+.  ..+.++........+  +.....+.+|||||..  .+..+       ...
T Consensus        27 ~~~ki~vvG~~~vGKSsLi~~l~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~--~~~~~-------~~~   95 (205)
T 1gwn_A           27 VKCKIVVVGDSQCGKTALLHVFAKDCFP--ENYVPTVFENYTASFEIDTQRIELSLWDTSGSP--YYDNV-------RPL   95 (205)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHSCCC--SSCCCCSEEEEEEEEESSSSEEEEEEEEECCSG--GGTTT-------GGG
T ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCC--CCcCCccceeEEEEEEECCEEEEEEEEeCCCcH--hhhHH-------HHh
Confidence            4568999999999999999999988764  233333333222222  3445789999999943  22222       224


Q ss_pred             HccCccEEEEEEeCCCC--chhH-HHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          192 AGINADCIVVLVDACKA--PERI-DEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~~--~~~~-~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      ++..+|++++|+|+++.  +... ..|+..+. ....+.|+++|+||+|+..
T Consensus        96 ~~~~~d~~ilv~D~~~~~s~~~~~~~~~~~i~-~~~~~~piilv~nK~Dl~~  146 (205)
T 1gwn_A           96 SYPDSDAVLICFDISRPETLDSVLKKWKGEIQ-EFCPNTKMLLVGCKSDLRT  146 (205)
T ss_dssp             GCTTCSEEEEEEETTCHHHHHHHHHTHHHHHH-HHCTTCEEEEEEECGGGGG
T ss_pred             hccCCCEEEEEEECCCHHHHHHHHHHHHHHHH-HHCCCCCEEEEEechhhcc
Confidence            57899999999999873  3333 34444333 2335799999999999974

>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=99.65  E-value=5.1e-17  Score=128.30  Aligned_cols=119  Identities=20%  Similarity=0.207  Sum_probs=72.2

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEE--EEecCCeeEEEEecCCCcccchhhhhHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILG--ICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVR  190 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~--~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~  190 (254)
                      ....+|+++|.+|+|||||++++.+..+.  ..+.+++......  ..++....+.+|||||...  +...       +.
T Consensus         6 ~~~~ki~v~G~~~~GKssl~~~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~--~~~~-------~~   74 (182)
T 3bwd_D            6 SRFIKCVTVGDGAVGKTCLLISYTSNTFP--TDYVPTVFDNFSANVVVNGATVNLGLWDTAGQED--YNRL-------RP   74 (182)
T ss_dssp             -CCCEEEEECSTTSSHHHHHHHHHHSCCC------------CBCCCC-------CEEECCCC-CT--TTTT-------GG
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCCC--CCCCCeeeeeEEEEEEECCEEEEEEEEECCCChh--hhhh-------HH
Confidence            44679999999999999999999987753  3333443322211  1223345678999999532  2222       23


Q ss_pred             HHccCccEEEEEEeCCCC--chhHH-HHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          191 SAGINADCIVVLVDACKA--PERID-EILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~~~--~~~~~-~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      .++..+|++++|+|+++.  +.... .|+..+.. ...+.|+++|+||+|+.+...
T Consensus        75 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~piilv~nK~Dl~~~~~  129 (182)
T 3bwd_D           75 LSYRGADVFILAFSLISKASYENVSKKWIPELKH-YAPGVPIVLVGTKLDLRDDKQ  129 (182)
T ss_dssp             GGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHH-HCTTCCEEEEEECHHHHTCHH
T ss_pred             hhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHH-hCCCCCEEEEEechhhhcCcc
Confidence            457889999999999873  33443 34433332 235799999999999976554

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=99.64  E-value=9.3e-16  Score=121.99  Aligned_cols=120  Identities=15%  Similarity=0.114  Sum_probs=75.1

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCce-EEEEEEEE-----ecCCeeEEEEecCCCcccchhhhhHHHHHHH
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTT-RHRILGIC-----SGPEYQMILYDTPGIIEKKIHMLDSMMMKNV  189 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt-~~~~~~~~-----~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~  189 (254)
                      .+++++|++|+|||||++++.+........+.+|. .+......     +.....+.+|||||.  ..+..+.       
T Consensus         3 ~kv~ivG~~gvGKStLl~~l~~~~~~~~~~~~~t~g~~~~~~~~~~~~~~~~~~~~~i~Dt~G~--~~~~~~~-------   73 (184)
T 2zej_A            3 MKLMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNVWDFAGR--EEFYSTH-------   73 (184)
T ss_dssp             CEEEEESCTTSSHHHHHHHHTCC-----------CSEEEEEEEC---------CEEEEEEECSH--HHHHTTS-------
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCccCCCcceeccEEeEEeeeccccCCCCceEEEEEecCCC--HHHHHhh-------
Confidence            58999999999999999999985322122222222 22222221     124668999999993  3233322       


Q ss_pred             HHHccCccEEEEEEeCCCCc---hhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHH
Q 025346          190 RSAGINADCIVVLVDACKAP---ERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIA  245 (254)
Q Consensus       190 ~~~~~~~d~iv~vid~~~~~---~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~  245 (254)
                      ..++..++++++|+|+++..   ..+..|+..+... ..+.|+++|+||+|+.+...+.
T Consensus        74 ~~~~~~~~~~i~v~d~~~~~~s~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~  131 (184)
T 2zej_A           74 PHFMTQRALYLAVYDLSKGQAEVDAMKPWLFNIKAR-ASSSPVILVGTHLDVSDEKQRK  131 (184)
T ss_dssp             HHHHHHSEEEEEEEEGGGCHHHHHTHHHHHHHHHHH-CTTCEEEEEEECGGGCCHHHHH
T ss_pred             HHHccCCcEEEEEEeCCcchhHHHHHHHHHHHHHhh-CCCCcEEEEEECCCcccchhhH
Confidence            23456789999999998753   4455666554432 3578999999999998876654

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=99.63  E-value=1.4e-16  Score=142.64  Aligned_cols=127  Identities=26%  Similarity=0.389  Sum_probs=82.6

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCe-eEEEEecCCCcccchhhhhHHHHHHHH
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEY-QMILYDTPGIIEKKIHMLDSMMMKNVR  190 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~-~~~liDtpG~~~~~~~~~~~~~~~~~~  190 (254)
                      .....+|+++|.+|+|||||+|++++..+..++..+++|.+.........+. .+.+|||||+.+..  .+.......+.
T Consensus        31 ~~~~~kI~IvG~~~vGKSTLin~L~~~~~~~~~~~~gtT~d~~~~~~~~~~~~~l~liDTpG~~d~~--~l~~~~~~~~~  108 (423)
T 3qq5_A           31 AGFRRYIVVAGRRNVGKSSFMNALVGQNVSIVSDYAGTTTDPVYKSMELHPIGPVTLVDTPGLDDVG--ELGRLRVEKAR  108 (423)
T ss_dssp             -CCCEEEEEECSCSTTTTTTTTSSCC-------------CCCCEEEEEETTTEEEEEEECSSTTCCC--TTCCCCHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHcCCCCccCCCCCeeeeeEEEEEEECCCCeEEEEECcCCCccc--chhHHHHHHHH
Confidence            3456799999999999999999999998876778888887766665555444 89999999976532  22212224455


Q ss_pred             HHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhH
Q 025346          191 SAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEI  244 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~  244 (254)
                      .++..+|++++|+|+ ........++..+..   .+.|+++|+||+|+...+..
T Consensus       109 ~~l~~aD~vllVvD~-~~~~~~~~~l~~l~~---~~~piIvV~NK~Dl~~~~~~  158 (423)
T 3qq5_A          109 RVFYRADCGILVTDS-APTPYEDDVVNLFKE---MEIPFVVVVNKIDVLGEKAE  158 (423)
T ss_dssp             HHHTSCSEEEEECSS-SCCHHHHHHHHHHHH---TTCCEEEECCCCTTTTCCCT
T ss_pred             HHHhcCCEEEEEEeC-CChHHHHHHHHHHHh---cCCCEEEEEeCcCCCCccHH
Confidence            678899999999999 333444455544433   27899999999999876544

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=99.63  E-value=4.1e-15  Score=127.04  Aligned_cols=129  Identities=21%  Similarity=0.298  Sum_probs=82.3

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccc-----cccCCCC----------------------ceEE-------------
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLS-----IVTNKPQ----------------------TTRH-------------  152 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~-----~~~~~~~----------------------tt~~-------------  152 (254)
                      ...++|+++|.+|+|||||+|++++.++.     .++..|+                      +|.+             
T Consensus        24 ~~~~~i~vvG~~~~GKSSLln~l~g~~~~~~~~~~~t~~p~~~~~~~~~~~~~~~~~~~g~~~tt~~~~~~~~~~~~~~i  103 (299)
T 2aka_B           24 LDLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETDRV  103 (299)
T ss_dssp             CCCCEEEEEEBTTSCHHHHHHHHHTSCCSCCCSSCSCSSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHHH
T ss_pred             CCCCeEEEEeCCCCCHHHHHHHHHCCCcCCCCCCcccccceEEEEecCCcccchhhhcCCcccCCHHHHHHHHHHHHHHh
Confidence            45679999999999999999999998864     2333343                      2211             


Q ss_pred             -----------EEEEEEecCCeeEEEEecCCCcccc----hhhhhHHHHHHHHHHccCccEEE-EEEeCCCCchhHHH-H
Q 025346          153 -----------RILGICSGPEYQMILYDTPGIIEKK----IHMLDSMMMKNVRSAGINADCIV-VLVDACKAPERIDE-I  215 (254)
Q Consensus       153 -----------~~~~~~~~~~~~~~liDtpG~~~~~----~~~~~~~~~~~~~~~~~~~d~iv-~vid~~~~~~~~~~-~  215 (254)
                                 ............+.+|||||+....    .+.....+...+..++..++.++ +|+|++........ .
T Consensus       104 ~g~~~gi~~~~~~~~~~~~~~~~l~lvDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~d~~~~~~~~~~~~  183 (299)
T 2aka_B          104 TGTNKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALK  183 (299)
T ss_dssp             CSSTTCCCSCCEEEEEEETTCCSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHH
T ss_pred             cccCCCccccceEEEEeCCCCCCceEEeCCCCCCCcCCCCCchHHHHHHHHHHHHHcCCCeEEEEEecCCcchhhhHHHH
Confidence                       0000111124689999999986532    12223344455666777887666 79999876544332 1


Q ss_pred             HHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          216 LEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       216 ~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      +...+.  ..+.|+++|+||+|+.++..
T Consensus       184 ~~~~~~--~~~~~~i~V~NK~Dl~~~~~  209 (299)
T 2aka_B          184 IAKEVD--PQGQRTIGVITKLDLMDEGT  209 (299)
T ss_dssp             HHHHHC--TTCSSEEEEEECGGGSCTTC
T ss_pred             HHHHhC--CCCCeEEEEEEccccCCCCc
Confidence            222232  34689999999999987543

>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=99.63  E-value=6.4e-16  Score=139.52  Aligned_cols=128  Identities=27%  Similarity=0.348  Sum_probs=87.0

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccch---hhhhHHHHHHHH
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKI---HMLDSMMMKNVR  190 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~---~~~~~~~~~~~~  190 (254)
                      ...+++++|++|+|||||+|++++.....+++.+++|++...+.+...+..+.+|||||+.....   +..+........
T Consensus       179 ~~~kvaivG~~gvGKSTLln~l~g~~~~~v~~~~gtT~d~~~~~i~~~g~~~~l~Dt~G~~~~~~~~~~~~e~~~~~~~~  258 (439)
T 1mky_A          179 DAIKVAIVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFIDGRKYVFVDTAGLRRKSRVEPRTVEKYSNYRVV  258 (439)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHTSTTEEECCCC------CCEEEEETTEEEEESSCSCC-----------CCSCCHHHH
T ss_pred             cCceEEEECCCCCCHHHHHHHHhCCcccccCCCCCCcCCceEEEEEECCEEEEEEECCCCccccccchhhHHHHHHHHHH
Confidence            45799999999999999999999998777899999999888777777888999999999732211   000000001123


Q ss_pred             HHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          191 SAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      .++..+|++++|+|+++........+...+.  ..+.|+++|+||+|+...+.
T Consensus       259 ~~i~~ad~vllv~d~~~~~~~~~~~i~~~l~--~~~~~~ilv~NK~Dl~~~~~  309 (439)
T 1mky_A          259 DSIEKADVVVIVLDATQGITRQDQRMAGLME--RRGRASVVVFNKWDLVVHRE  309 (439)
T ss_dssp             HHHHHCSEEEEEEETTTCCCHHHHHHHHHHH--HTTCEEEEEEECGGGSTTGG
T ss_pred             HHHhhCCEEEEEEeCCCCCCHHHHHHHHHHH--HcCCCEEEEEECccCCCchh
Confidence            4567899999999998865544444444333  24789999999999987543

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=99.63  E-value=1.5e-15  Score=131.05  Aligned_cols=119  Identities=13%  Similarity=0.122  Sum_probs=76.4

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINA  196 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~  196 (254)
                      |++++|.+|+|||||++++.++-..........|.......+ ....++++|||||........+      ....+++++
T Consensus         1 KIvllGdsgvGKTSLl~~~~~~~~~~~~~~~~~Tig~~~~~v-~~~v~LqIWDTAGQErf~~~~l------~~~~yyr~a   73 (331)
T 3r7w_B            1 MVLLMGVRRCGKSSICKVVFHNMQPLDTLYLESTSNPSLEHF-STLIDLAVMELPGQLNYFEPSY------DSERLFKSV   73 (331)
T ss_dssp             CEEEECSTTSSTTHHHHHHHSCCCSGGGTTCCCCCSCCCEEE-CSSSCEEEEECCSCSSSCCCSH------HHHHHHTTC
T ss_pred             CEEEECCCCCCHHHHHHHHHcCCCCCccceecCeeeeeeEEE-ccEEEEEEEECCCchhccchhh------hhhhhccCC
Confidence            589999999999999998876543321111222211111122 2357899999999443210111      123568999


Q ss_pred             cEEEEEEeCCCCchhHHHHHHHhhc---ccCCCCCEEEEEecCCCCChH
Q 025346          197 DCIVVLVDACKAPERIDEILEEGVG---DHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       197 d~iv~vid~~~~~~~~~~~~~~~~~---~~~~~~piivV~nK~Dl~~~~  242 (254)
                      +++|+|+|+++.+.....++..++.   ...+++|+++|+||+|+.+++
T Consensus        74 ~~~IlV~Ditd~~~~~~~~l~~~l~~~~~~~~~ipillvgNK~DL~~~~  122 (331)
T 3r7w_B           74 GALVYVIDSQDEYINAITNLAMIIEYAYKVNPSINIEVLIHKVDGLSED  122 (331)
T ss_dssp             SEEEEECCCSSCTTHHHHHHHHHHHHHHHHCTTCEEEEECCCCCSSCSH
T ss_pred             CEEEEEEECCchHHHHHHHHHHHHHHHhhcCCCCcEEEEEECcccCchh
Confidence            9999999999864444444433322   224689999999999998754

>1lnz_A SPO0B-associated GTP-binding protein; GTPase, OBG, stringent factor, stress response, sporulation, large G-protein, structural genomics, PSI; HET: G4P; 2.60A {Bacillus subtilis} SCOP: b.117.1.1 c.37.1.8

Probab=99.62  E-value=4.6e-16  Score=135.88  Aligned_cols=123  Identities=25%  Similarity=0.269  Sum_probs=89.8

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCC-eeEEEEecCCCcccc--hhhhhHHHHHHHHHH
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPE-YQMILYDTPGIIEKK--IHMLDSMMMKNVRSA  192 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~-~~~~liDtpG~~~~~--~~~~~~~~~~~~~~~  192 (254)
                      .+|+++|.+|+|||||+|+++..+.. +.+++++|.......+...+ ..+.+|||||+.+..  ...+.    ..+...
T Consensus       159 a~V~lvG~~nvGKSTLln~L~~~~~~-i~~~~ftTl~p~~g~v~~~~~~~~~l~DtPG~i~~a~~~~~l~----~~fl~~  233 (342)
T 1lnz_A          159 ADVGLVGFPSVGKSTLLSVVSSAKPK-IADYHFTTLVPNLGMVETDDGRSFVMADLPGLIEGAHQGVGLG----HQFLRH  233 (342)
T ss_dssp             CCEEEESSTTSSHHHHHHHSEEECCE-ESSTTSSCCCCCEEEEECSSSCEEEEEEHHHHHHHTTCTTTTH----HHHHHH
T ss_pred             CeeeeeCCCCCCHHHHHHHHHcCCCc-cccCCccccCceEEEEEeCCCceEEEecCCCCcccccccchhH----HHHHHH
Confidence            46899999999999999999987654 57888888777776666654 789999999965421  11121    233445


Q ss_pred             ccCccEEEEEEeCCC-----CchhHHHHHHHhhccc--CCCCCEEEEEecCCCCChHh
Q 025346          193 GINADCIVVLVDACK-----APERIDEILEEGVGDH--KDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       193 ~~~~d~iv~vid~~~-----~~~~~~~~~~~~~~~~--~~~~piivV~nK~Dl~~~~~  243 (254)
                      +..++++++|+|+++     +.+....+..++....  ..++|+++|+||+|+...++
T Consensus       234 i~~~d~ll~VvD~s~~~~~~~~~~~~~~~~eL~~~~~~l~~~p~ilV~NK~Dl~~~~e  291 (342)
T 1lnz_A          234 IERTRVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEAAE  291 (342)
T ss_dssp             HHHCCEEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTHHH
T ss_pred             HHhccEEEEEEECCcccccChHHHHHHHHHHHHHhhhhhcCCCEEEEEECccCCCCHH
Confidence            677999999999975     3344555555554432  24789999999999987654

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=99.61  E-value=4.3e-15  Score=117.91  Aligned_cols=122  Identities=26%  Similarity=0.283  Sum_probs=74.9

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchh--hhhHHHHHHHH---
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIH--MLDSMMMKNVR---  190 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~--~~~~~~~~~~~---  190 (254)
                      .+|+++|.+|+|||||++++.+..+. ....+++|.........    .+.+|||||+.....-  .....+...+.   
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~t~~~~~~~~~----~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~   76 (190)
T 2cxx_A            2 ATIIFAGRSNVGKSTLIYRLTGKKVR-RGKRPGVTRKIIEIEWK----NHKIIDMPGFGFMMGLPKEVQERIKDEIVHFI   76 (190)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHSCCCS-SSSSTTCTTSCEEEEET----TEEEEECCCBSCCTTSCHHHHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHhCcCCc-cCCCCCccceeEEEecC----CEEEEECCCccccccCCHHHHHHHHHHHHHHH
Confidence            47999999999999999999998764 45556666544333322    7899999996432110  00111111222   


Q ss_pred             HH-ccCccEEEEEEeCCCCchhHHHHHHH--------hhcc-cCCCCCEEEEEecCCCCChH
Q 025346          191 SA-GINADCIVVLVDACKAPERIDEILEE--------GVGD-HKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       191 ~~-~~~~d~iv~vid~~~~~~~~~~~~~~--------~~~~-~~~~~piivV~nK~Dl~~~~  242 (254)
                      .. ...++++++|+|..........|...        +... ...+.|+++|+||+|+....
T Consensus        77 ~~~~~~~~~v~~v~d~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~  138 (190)
T 2cxx_A           77 EDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIPTIVAVNKLDKIKNV  138 (190)
T ss_dssp             HHHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCCEEEEEECGGGCSCH
T ss_pred             HhhhccCCEEEEEEcchhhhhHHHhhhccCccHHHHHHHHHHHhcCCceEEEeehHhccCcH
Confidence            22 55677888888876522211222211        1111 12579999999999998764

>2qtf_A Protein HFLX, GTP-binding protein; beta-alpha-barrels, nucleotide-binding, nucleotide binding protein; 2.00A {Sulfolobus solfataricus P2} PDB: 2qth_A* 3kxi_A* 3kxl_A 3kxk_A

Probab=99.61  E-value=3.5e-15  Score=131.40  Aligned_cols=125  Identities=22%  Similarity=0.201  Sum_probs=81.3

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccC
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGIN  195 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~  195 (254)
                      +.++++|.+|+|||||+|++.+... .+.+.+++|.+.....+..++..+.+|||||+.......+-..+ ..+...+..
T Consensus       180 ~~V~lvG~~naGKSTLln~L~~~~~-~~~~~~~~T~d~~~~~i~~~g~~v~l~DT~G~i~~lp~~lve~f-~~tl~~~~~  257 (364)
T 2qtf_A          180 PSIGIVGYTNSGKTSLFNSLTGLTQ-KVDTKLFTTMSPKRYAIPINNRKIMLVDTVGFIRGIPPQIVDAF-FVTLSEAKY  257 (364)
T ss_dssp             CEEEEECBTTSSHHHHHHHHHCC------------CCSCEEEEEETTEEEEEEECCCBCSSCCGGGHHHH-HHHHHGGGG
T ss_pred             cEEEEECCCCCCHHHHHHHHHCCCc-cccCCcccccCCEEEEEEECCEEEEEEeCCCchhcCCHHHHHHH-HHHHHHHHh
Confidence            3599999999999999999999876 36778888877777777777789999999997543222222223 334456889


Q ss_pred             ccEEEEEEeCCCCch---hHHHHHHHhhccc-CCCCCEEEEEecCCCCChH
Q 025346          196 ADCIVVLVDACKAPE---RIDEILEEGVGDH-KDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       196 ~d~iv~vid~~~~~~---~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~  242 (254)
                      +|++++|+|+++...   .....+...+... ..+.|+++|+||+|+.+..
T Consensus       258 aD~il~VvD~s~~~~~~~~~~~~~~~~L~~l~~~~~p~ilV~NK~Dl~~~~  308 (364)
T 2qtf_A          258 SDALILVIDSTFSENLLIETLQSSFEILREIGVSGKPILVTLNKIDKINGD  308 (364)
T ss_dssp             SSEEEEEEETTSCHHHHHHHHHHHHHHHHHHTCCSCCEEEEEECGGGCCSC
T ss_pred             CCEEEEEEECCCCcchHHHHHHHHHHHHHHhCcCCCCEEEEEECCCCCCch
Confidence            999999999987541   1111222233222 2568999999999998753

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=99.61  E-value=4.1e-15  Score=137.55  Aligned_cols=136  Identities=21%  Similarity=0.279  Sum_probs=88.4

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccc--cccCCCCceEEEEEEEEe-------------------------------
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLS--IVTNKPQTTRHRILGICS-------------------------------  159 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~--~~~~~~~tt~~~~~~~~~-------------------------------  159 (254)
                      ...++|+++|.+|+|||||+|++++.++.  .++..+.|++........                               
T Consensus        63 ~~~~~V~vvG~~n~GKSTLIN~Llg~~~~~~~vs~~p~T~~~~~i~~~~~~~i~~g~~l~~~~~~~~~~L~~~g~~~~~~  142 (550)
T 2qpt_A           63 DGKPMVLVAGQYSTGKTSFIQYLLEQEVPGSRVGPEPTTDCFVAVMHGETEGTVPGNALVVDPEKPFRKLNPFGNTFLNR  142 (550)
T ss_dssp             SSCCEEEEEEBTTSCHHHHHHHHHTSCCSSCCCCSSCCCCSEEEEECCSSSEEECCC------------------CCCTT
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCccccCccCCCCccceEEEEEECCcccccCCceeeecCcccHHHHhhhccccccc
Confidence            34679999999999999999999998875  466666665432111100                               


Q ss_pred             -----cCC---eeEEEEecCCCcccchhhhhHH--HHHHHHHHccCccEEEEEEeCCCC-c-hhHHHHHHHhhcccCCCC
Q 025346          160 -----GPE---YQMILYDTPGIIEKKIHMLDSM--MMKNVRSAGINADCIVVLVDACKA-P-ERIDEILEEGVGDHKDKL  227 (254)
Q Consensus       160 -----~~~---~~~~liDtpG~~~~~~~~~~~~--~~~~~~~~~~~~d~iv~vid~~~~-~-~~~~~~~~~~~~~~~~~~  227 (254)
                           ...   ..+.+|||||+.......+...  +......++..+|++++|+|+++. . .....++.. +.  ..+.
T Consensus       143 ~~~~~~~~~ll~~l~lIDTPG~~~~~~~~~~~~~~f~~~~~~~l~~aD~il~VvDa~~~~~~~~~~~~l~~-l~--~~~~  219 (550)
T 2qpt_A          143 FMCAQLPNQVLESISIIDTPGILSGAKQRVSRGYDFPAVLRWFAERVDLIILLFDAHKLEISDEFSEAIGA-LR--GHED  219 (550)
T ss_dssp             EEEEECCCHHHHHCEEEECCCBCC-------CCSCHHHHHHHHHHHCSEEEEEEETTSCCCCHHHHHHHHH-TT--TCGG
T ss_pred             ceEEeccccccCCEEEEECcCCCCcchhHHHHHhhHHHHHHHHHHhCCEEEEEEeCCcCCCCHHHHHHHHH-HH--hcCC
Confidence                 000   3689999999865322111111  223444567889999999999873 3 333444433 32  2357


Q ss_pred             CEEEEEecCCCCChHhHHHHHHHH
Q 025346          228 PILLVLNKKDLIKPGEIAKKLEVT  251 (254)
Q Consensus       228 piivV~nK~Dl~~~~~~~~~~~~~  251 (254)
                      |+++|+||+|+..++++.+..+.+
T Consensus       220 pvilVlNK~Dl~~~~el~~~~~~l  243 (550)
T 2qpt_A          220 KIRVVLNKADMVETQQLMRVYGAL  243 (550)
T ss_dssp             GEEEEEECGGGSCHHHHHHHHHHH
T ss_pred             CEEEEEECCCccCHHHHHHHHHHh
Confidence            999999999999988876655443

>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=99.60  E-value=6.7e-15  Score=126.75  Aligned_cols=129  Identities=24%  Similarity=0.320  Sum_probs=79.9

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCcc-----ccccCCCC---ceEE--------------------------------
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKL-----SIVTNKPQ---TTRH--------------------------------  152 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~-----~~~~~~~~---tt~~--------------------------------  152 (254)
                      ...++|+++|.+|+|||||+|++++.++     ..++..|+   +++.                                
T Consensus        22 ~~~~~I~vvG~~~~GKSTlln~l~g~~~lp~~~~~~t~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  101 (315)
T 1jwy_B           22 LDLPQIVVVGSQSSGKSSVLENIVGRDFLPRGSGIVTRRPLILQLTHLPIADDGSQTQEWGEFLHKPNDMFYDFSEIREE  101 (315)
T ss_dssp             TCCCEEEEEECSSSSHHHHHHHHHTSCCCCC--------CEEEEEEECCCCTTSCCCCCEEEESSSTTCCBCCTHHHHHH
T ss_pred             CCCCeEEEEcCCCCCHHHHHHHHHCCCcCCCCCCceeeeeEEEEEEeCCCcccccchhhhhhhhcccccccCCHHHHHHH
Confidence            4457899999999999999999999876     22333331   1111                                


Q ss_pred             ------EE-------------EEEEecCCeeEEEEecCCCcccc----hhhhhHHHHHHHHHHccCccEEEEEEeCC-CC
Q 025346          153 ------RI-------------LGICSGPEYQMILYDTPGIIEKK----IHMLDSMMMKNVRSAGINADCIVVLVDAC-KA  208 (254)
Q Consensus       153 ------~~-------------~~~~~~~~~~~~liDtpG~~~~~----~~~~~~~~~~~~~~~~~~~d~iv~vid~~-~~  208 (254)
                            ..             .......+..+.+|||||+....    ...+...+...+..++..+|++++|+|++ ..
T Consensus       102 i~~~~~~~~g~~~~~~~~~~~~~i~~~~~~~~~lvDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~iilvvd~~~~~  181 (315)
T 1jwy_B          102 IIRDTDRMTGKNKGISAQPINLKIYSPHVVNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTD  181 (315)
T ss_dssp             HHHHCC--------CCCCCEEEEEEETTSCSEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSC
T ss_pred             HHHHHHHhcCCCCCccCccEEEEEecCCCCCcEEEECCCCccCCCCCCchhHHHHHHHHHHHHHcCCCeEEEEEEecCcc
Confidence                  00             00122345689999999986422    12334445566777889999999999974 33


Q ss_pred             ch-hHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          209 PE-RIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       209 ~~-~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      .. .....+...+.  ..+.|+++|+||+|+.....
T Consensus       182 ~~~~~~~~i~~~~~--~~~~~~i~v~NK~Dl~~~~~  215 (315)
T 1jwy_B          182 LANSDALQLAKEVD--PEGKRTIGVITKLDLMDKGT  215 (315)
T ss_dssp             STTCSHHHHHHHHC--SSCSSEEEEEECTTSSCSSC
T ss_pred             hhhhHHHHHHHHhC--CCCCcEEEEEcCcccCCcch
Confidence            32 11112222233  24689999999999986544

>3th5_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTPase, GTP binding, protein binding, signali protein; HET: GNP; 2.30A {Homo sapiens}

Probab=99.39  E-value=7.3e-17  Score=130.33  Aligned_cols=118  Identities=20%  Similarity=0.189  Sum_probs=79.7

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEE--EecCCeeEEEEecCCCcccchhhhhHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGI--CSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVR  190 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~--~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~  190 (254)
                      .+..+|+++|.+|+|||||++++.+..+.  ..+.+++.......  .++....+.+|||||....  .       ..+.
T Consensus        28 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~--~-------~~~~   96 (204)
T 3th5_A           28 GQAIKCVVVGDGAVGKTCLLISYTTNAFP--GEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDY--D-------RLRP   96 (204)
Confidence            45678999999999999999999987653  33334443333322  2344567789999994321  1       2233


Q ss_pred             HHccCccEEEEEEeCCCC--chhHH-HHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          191 SAGINADCIVVLVDACKA--PERID-EILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~~~--~~~~~-~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      .++..+|++++|+|+++.  +.... .++.. +.....+.|+++|+||+|+.+..
T Consensus        97 ~~~~~~d~iilv~D~~~~~s~~~~~~~~~~~-l~~~~~~~piilv~NK~Dl~~~~  150 (204)
T 3th5_A           97 LSYPQTDVFLICFSLVSPASFENVRAKWYPE-VRHHCPNTPIILVGTKLDLRDDK  150 (204)
Confidence            457889999999999873  44443 33333 33333479999999999998653

>2wkq_A NPH1-1, RAS-related C3 botulinum toxin substrate 1; transferase, cell adhesion, nucleotide-binding, protein engineering, RAS superfamily LOV2; HET: GTP FMN; 1.60A {Avena sativa} PDB: 2wkr_A* 2wkp_A*

Probab=99.60  E-value=3.8e-15  Score=128.69  Aligned_cols=118  Identities=19%  Similarity=0.130  Sum_probs=82.0

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCC--eeEEEEecCCCcccchhhhhHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPE--YQMILYDTPGIIEKKIHMLDSMMMKNVR  190 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~  190 (254)
                      ....+++++|.+|+|||||++++.+..+  ...+.+++.......+...+  ..+.+|||||....  ...       ..
T Consensus       153 ~~~~~i~i~G~~~~GKssli~~~~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~--~~~-------~~  221 (332)
T 2wkq_A          153 KELIKCVVVGDGAVGKTCLLISYTTNAF--PGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGLEDY--DRL-------RP  221 (332)
T ss_dssp             TTCEEEEEEESTTSSHHHHHHHHHHSCC--CCSCCCCSEEEEEEEEEETTEEEEEEEEEECCCGGG--TTT-------GG
T ss_pred             cceeEEEEECCCCCChHHHHHHHHhCCC--CcccCCcccceeEEEEEECCEEEEEEEEeCCCchhh--hHH-------HH
Confidence            3457899999999999999999998776  34555666655554444443  45669999995332  222       23


Q ss_pred             HHccCccEEEEEEeCCCC--chhHH-HHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          191 SAGINADCIVVLVDACKA--PERID-EILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~~~--~~~~~-~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      .++..+|++++|+|+++.  +.... .|+..+.. ...+.|+++|+||+|+....
T Consensus       222 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~p~ilv~nK~Dl~~~~  275 (332)
T 2wkq_A          222 LSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRH-HCPNTPIILVGTKLDLRDDK  275 (332)
T ss_dssp             GGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHH-HCTTSCEEEEEECHHHHTCH
T ss_pred             HhccCCCEEEEEEeCCCHHHHHHHHHHHHHHHHh-hCCCCcEEEEEEchhccccc
Confidence            457899999999999883  33333 23333332 33489999999999997643

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=99.59  E-value=1.5e-15  Score=121.86  Aligned_cols=119  Identities=24%  Similarity=0.267  Sum_probs=75.3

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEE--EEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILG--ICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~--~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      ..+|+++|.+|+|||||++++.+........+++++.+....  .+++....+.+|||+|.... ...+.       ..+
T Consensus         6 ~~kv~lvG~~~vGKSsL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~Dt~~~~~~-~~~~~-------~~~   77 (192)
T 2cjw_A            6 YYRVVLIGEQGVGKSTLANIFAGVHDSMDSDXEVLGEDTYERTLMVDGESATIILLDMWENKGE-NEWLH-------DHC   77 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHHSCCC----GGGCTTEEEEEEEETTEEEEEEEECCCCC-----CTTG-------GGH
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCcCCcCccccccceeEEEEEEEECCeEEEEEEEEeccCcch-hhhHH-------Hhh
Confidence            468999999999999999999964432233333333222222  33344456789999995431 11111       223


Q ss_pred             ccCccEEEEEEeCCC--CchhHHHHHHHhhcc-cCCCCCEEEEEecCCCCCh
Q 025346          193 GINADCIVVLVDACK--APERIDEILEEGVGD-HKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       193 ~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~-~~~~~piivV~nK~Dl~~~  241 (254)
                      ++.++++++|+|+++  ++.....++..+... ...+.|+++|+||+|+...
T Consensus        78 ~~~~~~~i~v~dv~~~~s~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~  129 (192)
T 2cjw_A           78 MQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRX  129 (192)
T ss_dssp             HHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECTTCGGG
T ss_pred             cccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCeEEEEEechhhhcc
Confidence            567899999999987  445555665544432 2357899999999999754

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=99.59  E-value=3e-15  Score=131.91  Aligned_cols=121  Identities=24%  Similarity=0.267  Sum_probs=91.8

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccC
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGIN  195 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~  195 (254)
                      .+|+++|.||+|||||+|++++.+. .++++|+||.+++.+.+...+.+++++||||+.......  .....++...++.
T Consensus        73 a~V~ivG~PNvGKSTL~n~Lt~~~~-~v~~~pftT~~~~~g~~~~~~~~i~l~D~pGl~~~a~~~--~~~g~~~l~~i~~  149 (376)
T 4a9a_A           73 ASVGFVGFPSVGKSTLLSKLTGTES-EAAEYEFTTLVTVPGVIRYKGAKIQMLDLPGIIDGAKDG--RGRGKQVIAVART  149 (376)
T ss_dssp             EEEEEECCCCHHHHHHHHHHHSBCC-CGGGTCSSCCCEEEEEEEETTEEEEEEECGGGCCC-------CHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHhCCCC-cccCCCCceeeeeeEEEEeCCcEEEEEeCCCccCCchhh--hHHHHHHHHHHHh
Confidence            4799999999999999999999874 489999999999999999999999999999987653222  1122556677889


Q ss_pred             ccEEEEEEeCCCCchhHHHHHHHhhcc--cCCCCCEEEEEecCCCC
Q 025346          196 ADCIVVLVDACKAPERIDEILEEGVGD--HKDKLPILLVLNKKDLI  239 (254)
Q Consensus       196 ~d~iv~vid~~~~~~~~~~~~~~~~~~--~~~~~piivV~nK~Dl~  239 (254)
                      +|++++|+|++++.........++...  ...+.|.++++||+|..
T Consensus       150 ad~il~vvD~~~p~~~~~~i~~EL~~~~~~l~~k~~~i~~nK~d~~  195 (376)
T 4a9a_A          150 CNLLFIILDVNKPLHHKQIIEKELEGVGIRLNKTPPDILIKKKEKG  195 (376)
T ss_dssp             CSEEEEEEETTSHHHHHHHHHHHHHHTTEEETCCCCCEEEEECSSS
T ss_pred             cCccccccccCccHHHHHHHHHHHHHhhHhhccCChhhhhhHhhhh
Confidence            999999999998654443332222111  11357888999999973

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=99.59  E-value=2.1e-14  Score=129.57  Aligned_cols=117  Identities=18%  Similarity=0.195  Sum_probs=82.6

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCcccc------------------------------ccCCCCceEEEEEEEEecC
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQKLSI------------------------------VTNKPQTTRHRILGICSGP  161 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~------------------------------~~~~~~tt~~~~~~~~~~~  161 (254)
                      .....+++++|.+++|||||+++++......                              ....++.|.+.....+...
T Consensus        14 ~k~~~~i~iiG~~d~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTid~~~~~~~~~   93 (439)
T 3j2k_7           14 KKEHVNVVFIGHVDAGKSTIGGQIMYLTGMVDKRTLEKYEREAKEKNRETWYLSWALDTNQEERDKGKTVEVGRAYFETE   93 (439)
T ss_pred             CCceeEEEEEeCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHhccccchhhhhhhccchhHhhcCceEEEeEEEEecC
Confidence            3455799999999999999999996542111                              1122567777777777888


Q ss_pred             CeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCch--------hHHHHHHHhhcccCCCCC-EEEE
Q 025346          162 EYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPE--------RIDEILEEGVGDHKDKLP-ILLV  232 (254)
Q Consensus       162 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~--------~~~~~~~~~~~~~~~~~p-iivV  232 (254)
                      +..+.+|||||+.+         +...+...+..+|++++|+|++++..        ...+.+.. ..  ..++| +++|
T Consensus        94 ~~~~~iiDTPGh~~---------f~~~~~~~~~~aD~~ilVVDa~~g~~e~~~~~~~qt~e~l~~-~~--~~~v~~iIvv  161 (439)
T 3j2k_7           94 KKHFTILDAPGHKS---------FVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAML-AK--TAGVKHLIVL  161 (439)
T ss_pred             CeEEEEEECCChHH---------HHHHHHhhHhhCCEEEEEEECCCCccccccCCCchHHHHHHH-HH--HcCCCeEEEE
Confidence            88999999999432         23445566788999999999988542        22232222 22  23566 9999


Q ss_pred             EecCCCCC
Q 025346          233 LNKKDLIK  240 (254)
Q Consensus       233 ~nK~Dl~~  240 (254)
                      +||+|+..
T Consensus       162 iNK~Dl~~  169 (439)
T 3j2k_7          162 INKMDDPT  169 (439)
T ss_pred             eecCCCcc
Confidence            99999964

>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=99.57  E-value=1.1e-14  Score=132.91  Aligned_cols=122  Identities=23%  Similarity=0.264  Sum_probs=80.6

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCc----c--ccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHH
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQK----L--SIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMK  187 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~----~--~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~  187 (254)
                      +..+++++|..++|||||++++.+..    .  ......+++|.+.....+..++..+.+|||||+         ..+..
T Consensus        18 ~~~~I~iiG~~d~GKSTLi~~L~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~~~i~iiDtPGh---------~~~~~   88 (482)
T 1wb1_A           18 KNINLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLENYRITLVDAPGH---------ADLIR   88 (482)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEETTEEEEECCCSSH---------HHHHH
T ss_pred             CCCEEEEECCCCChHHHHHHHHHCCCcccccccccccccCccEEecceEEEEECCEEEEEEECCCh---------HHHHH
Confidence            45689999999999999999999876    1  112334455555444445557789999999994         22335


Q ss_pred             HHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHH
Q 025346          188 NVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAK  246 (254)
Q Consensus       188 ~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~  246 (254)
                      .+...+..+|++++|+|++++..........++..  .++|+++|+||+|+.+++....
T Consensus        89 ~~~~~~~~aD~~ilVvda~~g~~~qt~e~l~~~~~--~~ip~IvviNK~Dl~~~~~~~~  145 (482)
T 1wb1_A           89 AVVSAADIIDLALIVVDAKEGPKTQTGEHMLILDH--FNIPIIVVITKSDNAGTEEIKR  145 (482)
T ss_dssp             HHHHHTTSCCEEEEEEETTTCSCHHHHHHHHHHHH--TTCCBCEEEECTTSSCHHHHHH
T ss_pred             HHHHHHhhCCEEEEEEecCCCccHHHHHHHHHHHH--cCCCEEEEEECCCcccchhHHH
Confidence            56677899999999999998654433322223332  3688899999999998655443

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=99.56  E-value=7.9e-15  Score=137.19  Aligned_cols=118  Identities=18%  Similarity=0.142  Sum_probs=81.6

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCccccccC------------------------------CCCceEEEEEEEEecC
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTN------------------------------KPQTTRHRILGICSGP  161 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~------------------------------~~~tt~~~~~~~~~~~  161 (254)
                      .....+|+++|.+++|||||++++++........                              .+++|.+.....+...
T Consensus       164 ~k~~lkV~ivG~~n~GKSTLin~Ll~~~~~i~~~~i~~~~~~~~~~g~~~~~~a~~~d~~~~e~~~GiTid~~~~~~~~~  243 (611)
T 3izq_1          164 ALPHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFSTH  243 (611)
T ss_dssp             CCCCCEEEEECCSSSCHHHHHHHHHSCSSCSCCHHHHHHHHHSSCSSSSCCSSSHHHHHHHHHHHTTTCCSCSCCEEECS
T ss_pred             cCCceEEEEEECCCCCHHHHHHHHHHhcCCccHHHHHHHHhhhhhccccccceeeeeccchhhhhCCeeEeeeeEEEecC
Confidence            3456799999999999999999999764321110                              2456666555667778


Q ss_pred             CeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCC-------chhHHHHHHHhhcccCCC-CCEEEEE
Q 025346          162 EYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKA-------PERIDEILEEGVGDHKDK-LPILLVL  233 (254)
Q Consensus       162 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~-------~~~~~~~~~~~~~~~~~~-~piivV~  233 (254)
                      +..+.||||||+..         +...+...+..+|++|+|+|++++       ..........+...  .+ .|+++|+
T Consensus       244 ~~~~~iiDTPG~e~---------f~~~~~~~~~~aD~~llVVDa~~g~~e~~~~~~~qt~e~l~~~~~--lgi~~iIVVv  312 (611)
T 3izq_1          244 RANFTIVDAPGHRD---------FVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASS--LGIHNLIIAM  312 (611)
T ss_dssp             SCEEEEEECCSSSC---------HHHHHTTTSSCCSEEEEEEECSHHHHHTTCCTTSHHHHHHHHHHT--TTCCEEEEEE
T ss_pred             CceEEEEECCCCcc---------cHHHHHHHHhhcCceEEEEECCCCcccccchhhhHHHHHHHHHHH--cCCCeEEEEE
Confidence            88999999999643         224455668899999999999863       11122222222222  23 3599999


Q ss_pred             ecCCCCC
Q 025346          234 NKKDLIK  240 (254)
Q Consensus       234 nK~Dl~~  240 (254)
                      ||+|+.+
T Consensus       313 NKiDl~~  319 (611)
T 3izq_1          313 NKMDNVD  319 (611)
T ss_dssp             ECTTTTT
T ss_pred             ecccccc
Confidence            9999987

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=99.56  E-value=6.8e-15  Score=135.38  Aligned_cols=117  Identities=21%  Similarity=0.247  Sum_probs=81.1

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCcccc---------------------ccCCCCceEEEEEEEEecCCeeEEEEecCC
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSI---------------------VTNKPQTTRHRILGICSGPEYQMILYDTPG  172 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~---------------------~~~~~~tt~~~~~~~~~~~~~~~~liDtpG  172 (254)
                      +.++++++|.+|+|||||+++++......                     ....++.|.......+.+.+..+.+|||||
T Consensus        12 ~~r~IaIiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~~~i~liDTPG   91 (528)
T 3tr5_A           12 MRRTFAIISHPDAGKTTLTEKLLLFGGAIQLAGTIKSRKAARHATSDWMELEKQRGISVTTSVMQFPYKDYLINLLDTPG   91 (528)
T ss_dssp             TEEEEEEEECTTSSHHHHHHHHHHHTTCHHHHHHHHTC----CCHHHHHHHHHHHCCSSSSSEEEEEETTEEEEEECCCC
T ss_pred             cCCEEEEECCCCCcHHHHHHHHHhhcCCcccceeeeccccccceecccchhhhcCCeeEEEeEEEEEeCCEEEEEEECCC
Confidence            35689999999999999999997211000                     001123333333445667789999999999


Q ss_pred             CcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          173 IIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      +.+..         ..+..++..+|++|+|+|++++.......+.....  ..++|+++|+||+|+...
T Consensus        92 ~~df~---------~~~~~~l~~aD~allVvDa~~g~~~~t~~~~~~~~--~~~iPiivviNK~Dl~~~  149 (528)
T 3tr5_A           92 HADFT---------EDTYRTLTAVDSALMVIDAAKGVEPRTIKLMEVCR--LRHTPIMTFINKMDRDTR  149 (528)
T ss_dssp             STTCC---------HHHHHGGGGCSEEEEEEETTTCSCHHHHHHHHHHH--TTTCCEEEEEECTTSCCS
T ss_pred             chhHH---------HHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHH--HcCCCEEEEEeCCCCccc
Confidence            75543         33556688999999999999866544433333333  347899999999999754

>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=99.54  E-value=2.1e-14  Score=128.18  Aligned_cols=129  Identities=19%  Similarity=0.190  Sum_probs=80.5

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEE------EE--------E-----ecCCeeEEEEecCC
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRIL------GI--------C-----SGPEYQMILYDTPG  172 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~------~~--------~-----~~~~~~~~liDtpG  172 (254)
                      ..+..+|+++|.+++|||||++++++........+..++.....      ..        .     ......+.+|||||
T Consensus         5 ~~~~~~I~vvG~~~~GKSTLi~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiDtPG   84 (403)
T 3sjy_A            5 VQPEVNIGVVGHVDHGKTTLVQAITGIWTSKKLGYAETNIGVCESCKKPEAYVTEPSCKSCGSDDEPKFLRRISFIDAPG   84 (403)
T ss_dssp             CCCCCEEEEECSTTSSHHHHHHHHHSCCCCSSSEEEEEEEEECTTSCTTTTEESSSCCGGGTCCSCCEEEEEEEEEECCC
T ss_pred             cCCCcEEEEECCCCCCHHHHHHHHhCcccccccCccccceeeccccccccceecccccccccccccccccceEEEEECCC
Confidence            34567999999999999999999998543211111111100000      00        0     01126799999999


Q ss_pred             CcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCc--hhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHHHHHH
Q 025346          173 IIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAP--ERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLEV  250 (254)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~--~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~~~~~  250 (254)
                      ..+.         ...+...+..+|++++|+|++++.  ....+++.. +... ...|+++|+||+|+.+.++..+..+.
T Consensus        85 h~~~---------~~~~~~~~~~~D~~ilVvda~~~~~~~qt~~~~~~-~~~~-~~~~iivviNK~Dl~~~~~~~~~~~~  153 (403)
T 3sjy_A           85 HEVL---------MATMLSGAALMDGAILVVAANEPFPQPQTREHFVA-LGII-GVKNLIIVQNKVDVVSKEEALSQYRQ  153 (403)
T ss_dssp             CGGG---------HHHHHHHHTTCSEEEEEEETTSCSSCHHHHHHHHH-HHHH-TCCCEEEEEECGGGSCHHHHHHHHHH
T ss_pred             cHHH---------HHHHHHHHhhCCEEEEEEECCCCCCcHHHHHHHHH-HHHc-CCCCEEEEEECccccchHHHHHHHHH
Confidence            5322         244556678999999999999853  334444433 2222 22589999999999988765544443


Q ss_pred             H
Q 025346          251 T  251 (254)
Q Consensus       251 ~  251 (254)
                      +
T Consensus       154 i  154 (403)
T 3sjy_A          154 I  154 (403)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=99.54  E-value=1.9e-14  Score=131.33  Aligned_cols=118  Identities=18%  Similarity=0.115  Sum_probs=79.6

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccc------------------------------cccCCCCceEEEEEEEEecCC
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLS------------------------------IVTNKPQTTRHRILGICSGPE  162 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~------------------------------~~~~~~~tt~~~~~~~~~~~~  162 (254)
                      ....+++++|.+++|||||++++++....                              .....++.|.+.....+...+
T Consensus        31 k~~~ki~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~  110 (483)
T 3p26_A           31 LPHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFSTHR  110 (483)
T ss_dssp             CCEEEEEEESCGGGTHHHHHHHHHHHTTSSCHHHHHHHCC------------------------CCSSCCCCEEEEECSS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHhcCCccHHHHHHHHHHHHhcCCCcchhhhhhccchhHhhcCcceEeeeEEEecCC
Confidence            34568999999999999999999754110                              011223556555556677788


Q ss_pred             eeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCC-------chhHHHHHHHhhcccCCCCCEEEEEec
Q 025346          163 YQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKA-------PERIDEILEEGVGDHKDKLPILLVLNK  235 (254)
Q Consensus       163 ~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~-------~~~~~~~~~~~~~~~~~~~piivV~nK  235 (254)
                      ..+.+|||||+.+.         ......++..+|++++|+|++++       ..........+.... ...|+++|+||
T Consensus       111 ~~~~iiDTPG~~~f---------~~~~~~~~~~aD~~llVvDa~~g~~~~~~~~~~qt~e~~~~~~~~-~~~~iIvviNK  180 (483)
T 3p26_A          111 ANFTIVDAPGHRDF---------VPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSL-GIHNLIIAMNK  180 (483)
T ss_dssp             CEEEEECCCCCGGG---------HHHHHHHHTTCSEEEEEEECCC------CCCCHHHHHHHHHHHHT-TCCCEEEEEEC
T ss_pred             ceEEEEECCCcHHH---------HHHHHHhhhhCCEEEEEEECCCCccccccchhhhHHHHHHHHHHc-CCCcEEEEEEC
Confidence            89999999996432         24455668899999999999884       222233322223222 22579999999


Q ss_pred             CCCCC
Q 025346          236 KDLIK  240 (254)
Q Consensus       236 ~Dl~~  240 (254)
                      +|+.+
T Consensus       181 ~Dl~~  185 (483)
T 3p26_A          181 MDNVD  185 (483)
T ss_dssp             GGGGT
T ss_pred             cCccc
Confidence            99987

>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=99.54  E-value=5.4e-14  Score=126.70  Aligned_cols=115  Identities=23%  Similarity=0.213  Sum_probs=75.8

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCcccc----------ccCCC----------------------CceEEEEEEEEecCC
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSI----------VTNKP----------------------QTTRHRILGICSGPE  162 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~----------~~~~~----------------------~tt~~~~~~~~~~~~  162 (254)
                      ..+++++|..++|||||++++++.....          .+..+                      +.|.+.....+...+
T Consensus        24 ~~~i~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~i~~~s~~~gt~~~~~~~~~~~d~~~~E~~rGiTi~~~~~~~~~~~  103 (434)
T 1zun_B           24 MLRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAEREQGITIDVAYRYFSTAK  103 (434)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHHTTCC------------------CCC--CHHHHHHHHC-----CCCCCEEEEEECSS
T ss_pred             ceEEEEEECCCCCHHHHHHHHHhhcCCCchhhhhhhhhhhhccCccccchhhhhhhccChhHHHCCcEEEeeeeEeecCC
Confidence            4689999999999999999998653111          11112                      223333334456677


Q ss_pred             eeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCC-CEEEEEecCCCCC
Q 025346          163 YQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKL-PILLVLNKKDLIK  240 (254)
Q Consensus       163 ~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~-piivV~nK~Dl~~  240 (254)
                      ..+.+|||||+.+..         ..+..++..+|++++|+|++++.......+..+....  +. |+++|+||+|+.+
T Consensus       104 ~~~~iiDtpGh~~f~---------~~~~~~~~~aD~~ilVvDa~~g~~~qt~~~l~~~~~~--~~~~iIvviNK~Dl~~  171 (434)
T 1zun_B          104 RKFIIADTPGHEQYT---------RNMATGASTCDLAIILVDARYGVQTQTRRHSYIASLL--GIKHIVVAINKMDLNG  171 (434)
T ss_dssp             EEEEEEECCCSGGGH---------HHHHHHHTTCSEEEEEEETTTCSCHHHHHHHHHHHHT--TCCEEEEEEECTTTTT
T ss_pred             ceEEEEECCChHHHH---------HHHHHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHHc--CCCeEEEEEEcCcCCc
Confidence            899999999954321         2334567899999999999986543332222223222  34 6999999999986

>3t34_A Dynamin-related protein 1A, linker, dynamin-relat 1A; dynamin-like protein 1A, GTPase, membrane fission, motor Pro; HET: GDP; 2.40A {Arabidopsis thaliana} PDB: 3t35_A*

Probab=99.54  E-value=6.6e-14  Score=123.11  Aligned_cols=129  Identities=21%  Similarity=0.253  Sum_probs=81.4

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEE-----------------------------------------
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRH-----------------------------------------  152 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~-----------------------------------------  152 (254)
                      ..+.|+++|.+|+|||||+|++++..+....... +|+.                                         
T Consensus        33 ~lp~I~vvG~~~sGKSSLln~l~g~~~lp~~~~~-vT~~p~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~i~~~~  111 (360)
T 3t34_A           33 SLPAIAVVGGQSSGKSSVLESIVGKDFLPRGSGI-VTRRPLVLQLQKIDDGTREYAEFLHLPRKKFTDFAAVRKEIQDET  111 (360)
T ss_dssp             CCCEEEEECBTTSSHHHHHHHHHTSCCSCCCSSS-CCCSCEEEEEEECSSCSCCEEEETTSTTCCBSCHHHHHHHHHHHH
T ss_pred             cCCEEEEECCCCCcHHHHHHHHhCCCcCCCCCCc-ccCcceEEEEecCCCcccceeeeecCCCcccCCHHHHHHHHHHHH
Confidence            4459999999999999999999998763222111 1100                                         


Q ss_pred             --------------EEEEEEecCCeeEEEEecCCCcccc----hhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHH
Q 025346          153 --------------RILGICSGPEYQMILYDTPGIIEKK----IHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDE  214 (254)
Q Consensus       153 --------------~~~~~~~~~~~~~~liDtpG~~~~~----~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~  214 (254)
                                    ............+.+|||||+....    ..............++..+|++++|+|.++.......
T Consensus       112 ~~~~g~~~~~s~~~i~l~i~~~~~~~l~lvDtPG~~~~~~~~q~~~~~~~~~~~~~~~i~~~d~iilvv~~~~~~~~~~~  191 (360)
T 3t34_A          112 DRETGRSKAISSVPIHLSIYSPNVVNLTLIDLPGLTKVAVDGQSDSIVKDIENMVRSYIEKPNCIILAISPANQDLATSD  191 (360)
T ss_dssp             HHTSCTTCCCCCSCEEEEEEETTSCSEEEEECCCBCSSCCTTCCSSHHHHHHHHHHHHHHSSSEEEEEEEETTSCGGGCH
T ss_pred             HHhcCCCCCcccceEEEEEeCCCCCCeEEEECCCCCcCCcCCCchhHHHHHHHHHHHHhhcCCeEEEEeecccCCcCCHH
Confidence                          0011112234579999999987642    1223334446667788999999999987653222122


Q ss_pred             HHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          215 ILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       215 ~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      ++.........+.|+++|+||+|+.++..
T Consensus       192 ~~~l~~~~~~~~~~~i~V~nK~Dl~~~~~  220 (360)
T 3t34_A          192 AIKISREVDPSGDRTFGVLTKIDLMDKGT  220 (360)
T ss_dssp             HHHHHHHSCTTCTTEEEEEECGGGCCTTC
T ss_pred             HHHHHHHhcccCCCEEEEEeCCccCCCcc
Confidence            22222222235689999999999987543

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=99.54  E-value=6.3e-14  Score=112.68  Aligned_cols=117  Identities=21%  Similarity=0.235  Sum_probs=76.7

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEe--cCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICS--GPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~--~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      ..+++++|++|+|||||++++.+..+... ..+..+.....+.+.  +....+.+|||||..  .+..+.       ..+
T Consensus         5 ~~kv~lvG~~g~GKSTLl~~l~~~~~~~~-~~~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~~--~~~~~~-------~~~   74 (199)
T 2f9l_A            5 LFKVVLIGDSGVGKSNLLSRFTRNEFNLE-SKSTIGVEFATRSIQVDGKTIKAQIWDTAGQE--RYRRIT-------SAY   74 (199)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHSCCCC----CCCSCEEEEEEEEETTEEEEEEEEECSSGG--GTTCCC-------HHH
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcCCCCCC-CCCccceeEEEEEEEECCEEEEEEEEECCCch--hhhhhh-------HHH
Confidence            35899999999999999999998876422 223222223333333  334578899999943  222222       233


Q ss_pred             ccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          193 GINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      +..++++++|+|+++.  +.....++..+......+.|+++|+||+|+.+.
T Consensus        75 ~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~~~  125 (199)
T 2f9l_A           75 YRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHL  125 (199)
T ss_dssp             HTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGG
T ss_pred             HhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECcccccc
Confidence            5789999999999873  334445554443333357899999999999753

>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=99.52  E-value=1.1e-13  Score=123.36  Aligned_cols=114  Identities=19%  Similarity=0.164  Sum_probs=78.8

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCcccc---------------ccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchh
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSI---------------VTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIH  179 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~---------------~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~  179 (254)
                      ..+++++|..++|||||++++++.....               .....+.|.......+...+..+.+|||||+.+    
T Consensus         3 ~~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~d~~~~e~~~giTi~~~~~~~~~~~~~~~iiDtpG~~~----   78 (397)
T 1d2e_A            3 HVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYSTAARHYAHTDCPGHAD----   78 (397)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECEEEEEECSSCEEEEEECSSHHH----
T ss_pred             eEEEEEEeCCCCCHHHHHHHHhChhhhcCccccchhhhhhcCHHHHhcCcEEEeeeEEeccCCeEEEEEECCChHH----
Confidence            3589999999999999999998641100               001234455544445566778999999999422    


Q ss_pred             hhhHHHHHHHHHHccCccEEEEEEeCCCCchhH-HHHHHHhhcccCCCCC-EEEEEecCCCCC
Q 025346          180 MLDSMMMKNVRSAGINADCIVVLVDACKAPERI-DEILEEGVGDHKDKLP-ILLVLNKKDLIK  240 (254)
Q Consensus       180 ~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~-~~~~~~~~~~~~~~~p-iivV~nK~Dl~~  240 (254)
                           +.......+..+|++++|+|++++.... .+.+ ..+..  .++| +++|+||+|+..
T Consensus        79 -----f~~~~~~~~~~aD~~ilVvda~~g~~~qt~e~l-~~~~~--~~vp~iivviNK~Dl~~  133 (397)
T 1d2e_A           79 -----YVKNMITGTAPLDGCILVVAANDGPMPQTREHL-LLARQ--IGVEHVVVYVNKADAVQ  133 (397)
T ss_dssp             -----HHHHHHHTSSCCSEEEEEEETTTCSCHHHHHHH-HHHHH--TTCCCEEEEEECGGGCS
T ss_pred             -----HHHHHHhhHhhCCEEEEEEECCCCCCHHHHHHH-HHHHH--cCCCeEEEEEECcccCC
Confidence                 2344556788999999999999865433 3333 22322  3678 789999999985

>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=99.51  E-value=3.8e-14  Score=126.60  Aligned_cols=116  Identities=19%  Similarity=0.227  Sum_probs=79.7

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcC--------ccccc--c------CCCCceEEEEEEEEecCCeeEEEEecCCCccc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQ--------KLSIV--T------NKPQTTRHRILGICSGPEYQMILYDTPGIIEK  176 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~--------~~~~~--~------~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~  176 (254)
                      ....+++++|.+++|||||++++++.        .+...  .      ...+.|.......+...+..+.+|||||+.+.
T Consensus         9 ~~~~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~~~~~iiDtpG~~~f   88 (405)
T 2c78_A            9 KPHVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAKRHYSHVDCPGHADY   88 (405)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEECSSCEEEEEECCCSGGG
T ss_pred             CCeEEEEEEcCCCCCHHHHHHHHHhhhhhcCccccccchhhccCCHHHHHcCCCEEeeeeEeccCCeEEEEEECCChHHH
Confidence            34568999999999999999999873        11000  0      02344444444456667789999999996532


Q ss_pred             chhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhH-HHHHHHhhcccCCCCC-EEEEEecCCCCC
Q 025346          177 KIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERI-DEILEEGVGDHKDKLP-ILLVLNKKDLIK  240 (254)
Q Consensus       177 ~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~-~~~~~~~~~~~~~~~p-iivV~nK~Dl~~  240 (254)
                               ...+...+..+|++++|+|++++.... .+++. ....  .++| +++|+||+|+..
T Consensus        89 ---------~~~~~~~~~~aD~~ilVvda~~g~~~qt~~~l~-~~~~--~~ip~iivviNK~Dl~~  142 (405)
T 2c78_A           89 ---------IKNMITGAAQMDGAILVVSAADGPMPQTREHIL-LARQ--VGVPYIVVFMNKVDMVD  142 (405)
T ss_dssp             ---------HHHHHHHHTTCSSEEEEEETTTCCCHHHHHHHH-HHHH--TTCCCEEEEEECGGGCC
T ss_pred             ---------HHHHHHHHHHCCEEEEEEECCCCCcHHHHHHHH-HHHH--cCCCEEEEEEECccccC
Confidence                     233445678999999999998865433 33333 2322  3678 899999999985

>2qag_A Septin-2, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=99.51  E-value=8.6e-14  Score=122.48  Aligned_cols=129  Identities=17%  Similarity=0.188  Sum_probs=69.3

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCC--------CCceEEEEEEEEecCC--eeEEEEecCCCccc-----chh
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNK--------PQTTRHRILGICSGPE--YQMILYDTPGIIEK-----KIH  179 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~--------~~tt~~~~~~~~~~~~--~~~~liDtpG~~~~-----~~~  179 (254)
                      ..+|+++|++|+|||||+|++++.........        ++.+.......+...+  ..+.+|||||+.+.     .+.
T Consensus        37 ~~~I~vvG~~g~GKSTLln~L~~~~~~~~~~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~l~i~DTpG~gd~~~~~e~~~  116 (361)
T 2qag_A           37 EFTLMVVGESGLGKSTLINSLFLTDLYPERVIPGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCRDCFK  116 (361)
T ss_dssp             EECEEECCCTTSCHHHHHHHHTTCCC---------------CEEEEEEEEC----CEEEEEEEEC--------------C
T ss_pred             CEEEEEEcCCCCCHHHHHHHHhCCCCCCCCcccCCCcccCCceeEEEEEEEeecCCcccceEEEEeccccccCccHHHHH
Confidence            45799999999999999999887643322211        1111122222222233  47999999998543     222


Q ss_pred             hhhHHHHHHHHHHcc-------------CccEEEEEEeC-CCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHH
Q 025346          180 MLDSMMMKNVRSAGI-------------NADCIVVLVDA-CKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIA  245 (254)
Q Consensus       180 ~~~~~~~~~~~~~~~-------------~~d~iv~vid~-~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~  245 (254)
                      .+.......+..++.             .+++++|+++. ..+....+..+...+   ..+.|+++|+||+|+...+++.
T Consensus       117 ~i~~~i~~~~~~yl~~~~~~~r~~~~d~rv~~~vy~I~~~~~~l~~~d~~~~~~l---~~~~piIlV~NK~Dl~~~~ev~  193 (361)
T 2qag_A          117 TIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPFGHGLKPLDVAFMKAI---HNKVNIVPVIAKADTLTLKERE  193 (361)
T ss_dssp             CTHHHHHHHHHHHHHHHTCSCCC-CCCCCCCEEEEEECSSSSSCCHHHHHHHHHT---CS-SCEEEEEECCSSSCHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhhhhccccccCCceEEEEEEEecCCCCcchhHHHHHHHh---ccCCCEEEEEECCCCCCHHHHH
Confidence            333322222223322             23578888876 456666654333333   3578999999999999988776


Q ss_pred             H
Q 025346          246 K  246 (254)
Q Consensus       246 ~  246 (254)
                      .
T Consensus       194 ~  194 (361)
T 2qag_A          194 R  194 (361)
T ss_dssp             H
T ss_pred             H
Confidence            5

>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics, nysgxrc T16, GTPase, PSI, protein structure initiative; 2.00A {Escherichia coli} SCOP: c.37.1.8

Probab=99.51  E-value=2e-13  Score=110.25  Aligned_cols=128  Identities=23%  Similarity=0.292  Sum_probs=74.0

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCc-cccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhh-hhHHH---
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQK-LSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHM-LDSMM---  185 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~-~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~-~~~~~---  185 (254)
                      +..++.+++++|++|+|||||+|++++.. ...+.+.++++.........  + .+.+|||||+....... ....+   
T Consensus        22 ~~~~~~~v~lvG~~g~GKSTLl~~l~g~~~~~~~~~~~G~~~~~~~~~~~--~-~~~l~Dt~G~~~~~~~~~~~~~~~~~   98 (210)
T 1pui_A           22 PSDTGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVA--D-GKRLVDLPGYGYAEVPEEMKRKWQRA   98 (210)
T ss_dssp             SCSCSEEEEEEECTTSSHHHHHTTTCCC-------------CCEEEEEEE--T-TEEEEECCCCC------CCHHHHHHH
T ss_pred             CCCCCcEEEEECCCCCCHHHHHHHHhCCCccccccCCCccceeeEEEEec--C-CEEEEECcCCcccccCHHHHHHHHHH
Confidence            44567789999999999999999999876 33344555655532222222  2 68899999975321100 00111   


Q ss_pred             HHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          186 MKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       186 ~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      ...+......++++++++|++.........+...+.  ..+.|+++|+||+|+.+..+
T Consensus        99 ~~~~~~~~~~~~~~~~v~d~~~~~~~~~~~~~~~~~--~~~~~~~~v~nK~D~~s~~~  154 (210)
T 1pui_A           99 LGEYLEKRQSLQGLVVLMDIRHPLKDLDQQMIEWAV--DSNIAVLVLLTKADKLASGA  154 (210)
T ss_dssp             HHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHH--HTTCCEEEEEECGGGSCHHH
T ss_pred             HHHHHHhhhcccEEEEEEECCCCCchhHHHHHHHHH--HcCCCeEEEEecccCCCchh
Confidence            112222246789999999998865443333333332  24689999999999998654

>2x2e_A Dynamin-1; nitration, hydrolase, membrane fission, nucleotide-binding, endocytosis, motor protein; HET: GDP; 2.00A {Homo sapiens} PDB: 2x2f_A* 3zyc_A* 3zys_A

Probab=99.50  E-value=1.1e-13  Score=121.53  Aligned_cols=129  Identities=21%  Similarity=0.260  Sum_probs=77.7

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccc-----cccCCCC----------------------ceEE-------------
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLS-----IVTNKPQ----------------------TTRH-------------  152 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~-----~~~~~~~----------------------tt~~-------------  152 (254)
                      ...++|+++|.+|+|||||+|++++.++.     .++..|.                      +|..             
T Consensus        29 ~~~~~I~vvG~~~~GKSSLln~L~g~~~~p~~~~~~t~~p~~~~~~~~~~~~~~~~~~~~~~~tt~~~v~~~i~~~~~~i  108 (353)
T 2x2e_A           29 LDLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNATTEYAEFLHCKGKKFTDFEEVRLEIEAETDRV  108 (353)
T ss_dssp             CCCCEEEEECBTTSSHHHHHHTTTTSCCSCCCSSSCCCSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHHH
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHhCCCcCCCCCCcccccceEEEEEcCCccceeeeecCCcccCCHHHHHHHHHHHHHHh
Confidence            44578999999999999999999998764     2333333                      1110             


Q ss_pred             -----------EEEEEEecCCeeEEEEecCCCcccc----hhhhhHHHHHHHHHHccCc-cEEEEEEeCCCCchhHHHH-
Q 025346          153 -----------RILGICSGPEYQMILYDTPGIIEKK----IHMLDSMMMKNVRSAGINA-DCIVVLVDACKAPERIDEI-  215 (254)
Q Consensus       153 -----------~~~~~~~~~~~~~~liDtpG~~~~~----~~~~~~~~~~~~~~~~~~~-d~iv~vid~~~~~~~~~~~-  215 (254)
                                 ............+.+|||||+....    .......+......++..+ ++|++|+|++......... 
T Consensus       109 ~g~~~gi~~~~~~~~i~~~~~~~l~lvDTPG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiL~v~~a~~~~~~~~~~~  188 (353)
T 2x2e_A          109 TGTNKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALK  188 (353)
T ss_dssp             HTTTTCCCCCCEEEEEEETTCCSEEEEECCCBCSSCCTTCCTTHHHHHHHHHHHHHTSTTEEEEEEEETTSCGGGCHHHH
T ss_pred             cccCCCcccCceEEEEecCCCCCcEEEECCCCCCCccCCCchhHHHHHHHHHHHHHcCCCeEEEEEecCCCccchhHHHH
Confidence                       0001111224679999999986532    1222223334444555444 5666677777655433321 


Q ss_pred             HHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          216 LEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       216 ~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      +...+.  ..+.|+++|+||+|+.++..
T Consensus       189 i~~~~~--~~~~~~i~V~NK~Dl~~~~~  214 (353)
T 2x2e_A          189 VAKEVD--PQGQRTIGVITKLDLMDEGT  214 (353)
T ss_dssp             HHHHHC--TTCTTEEEEEECGGGSCTTC
T ss_pred             HHHHhC--cCCCceEEEeccccccCcch
Confidence            222222  35789999999999986543

>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=99.50  E-value=1.4e-13  Score=126.67  Aligned_cols=118  Identities=22%  Similarity=0.261  Sum_probs=78.9

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCcccc---------------ccC------CCCceEEEEEEEEecCCeeEEEEecCC
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSI---------------VTN------KPQTTRHRILGICSGPEYQMILYDTPG  172 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~---------------~~~------~~~tt~~~~~~~~~~~~~~~~liDtpG  172 (254)
                      +..+++++|.+|+|||||+++++......               +.+      ..+.|.......+.+.+..+.+|||||
T Consensus        12 ~~~~I~IiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~~~~~~i~liDTPG   91 (529)
T 2h5e_A           12 KRRTFAIISHPDAGKTTITEKVLLFGQAIQTAGTVKGRGSNQHAKSDWMEMEKQRGISITTSVMQFPYHDCLVNLLDTPG   91 (529)
T ss_dssp             TEEEEEEEECTTSSHHHHHHHHHHSCC-------------------------------CCTTEEEEEETTEEEEEECCCC
T ss_pred             CCCEEEEECCCCChHHHHHHHHHhhcCCccccceeecCccccceeeccchhcccCCcceeeeEEEEEECCeEEEEEECCC
Confidence            35689999999999999999998632110               000      111222112234556788999999999


Q ss_pred             CcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          173 IIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      +.+..         ..+..++..+|++|+|+|++++.......+.....  ..++|+++|+||+|+...+
T Consensus        92 ~~df~---------~~~~~~l~~aD~~IlVvDa~~g~~~~t~~~~~~~~--~~~ipiivviNK~Dl~~~~  150 (529)
T 2h5e_A           92 HEDFS---------EDTYRTLTAVDCCLMVIDAAKGVEDRTRKLMEVTR--LRDTPILTFMNKLDRDIRD  150 (529)
T ss_dssp             STTCC---------HHHHHGGGGCSEEEEEEETTTCSCHHHHHHHHHHT--TTTCCEEEEEECTTSCCSC
T ss_pred             ChhHH---------HHHHHHHHHCCEEEEEEeCCccchHHHHHHHHHHH--HcCCCEEEEEcCcCCcccc
Confidence            75432         23445688999999999999876554443333333  3478999999999998653

>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=99.49  E-value=6.7e-14  Score=126.13  Aligned_cols=117  Identities=21%  Similarity=0.222  Sum_probs=73.8

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCc--ccc----------------------------ccCCCCceEEEEEEEEecCCe
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQK--LSI----------------------------VTNKPQTTRHRILGICSGPEY  163 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~--~~~----------------------------~~~~~~tt~~~~~~~~~~~~~  163 (254)
                      ...+++++|..++|||||+++++...  +..                            .....++|.+.....+...+.
T Consensus         5 ~~~~I~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~giTi~~~~~~~~~~~~   84 (435)
T 1jny_A            5 PHLNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERERGVTINLTFMRFETKKY   84 (435)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC-----------CEEECSSC
T ss_pred             CEEEEEEEeCCCCCHHHHHHHHHHHcCCcCHHHHhhhhhhhhhcCCcchhhhhhhccChHHHhcCceeEeeEEEEecCCe
Confidence            45689999999999999999998641  110                            011345666555556777888


Q ss_pred             eEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCC-------chhHHHHHHHhhcccCCCCCEEEEEecC
Q 025346          164 QMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKA-------PERIDEILEEGVGDHKDKLPILLVLNKK  236 (254)
Q Consensus       164 ~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~-------~~~~~~~~~~~~~~~~~~~piivV~nK~  236 (254)
                      .+.+|||||+.+.         ...+..++..+|++++|+|++++       +.............. ...|+++|+||+
T Consensus        85 ~~~iiDtpG~~~f---------~~~~~~~~~~aD~~ilVvDa~~gsfe~~~~~~~qt~~~~~~~~~~-~~~~iivviNK~  154 (435)
T 1jny_A           85 FFTIIDAPGHRDF---------VKNMITGASQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKTM-GLDQLIVAVNKM  154 (435)
T ss_dssp             EEEECCCSSSTTH---------HHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHHHT-TCTTCEEEEECG
T ss_pred             EEEEEECCCcHHH---------HHHHHhhhhhcCEEEEEEECCCCccccccccchHHHHHHHHHHHc-CCCeEEEEEEcc
Confidence            9999999996442         23355678999999999999985       221222222222211 123699999999


Q ss_pred             CCCC
Q 025346          237 DLIK  240 (254)
Q Consensus       237 Dl~~  240 (254)
                      |+.+
T Consensus       155 Dl~~  158 (435)
T 1jny_A          155 DLTE  158 (435)
T ss_dssp             GGSS
T ss_pred             cCCC
Confidence            9987

>1wxq_A GTP-binding protein; structural genomics, riken structural genomics/proteomics initiative, RSGI, NPPSFA; 2.60A {Pyrococcus horikoshii} SCOP: c.37.1.8 d.15.10.2

Probab=99.49  E-value=6.7e-14  Score=124.56  Aligned_cols=89  Identities=24%  Similarity=0.249  Sum_probs=48.4

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEec---------------------C---CeeEEEEecCC
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSG---------------------P---EYQMILYDTPG  172 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~---------------------~---~~~~~liDtpG  172 (254)
                      +++++|.+|+|||||+|++++.+ ..++++|++|.....+....                     .   ..++.+|||||
T Consensus         2 kI~ivG~pnvGKSTL~n~L~~~~-~~~~~~p~tT~~~~~g~~~~~~~~~~~~l~~~~~p~~~~~~~~~~~~~i~lvDtpG   80 (397)
T 1wxq_A            2 EIGVVGKPNVGKSTFFSAATLVD-VEIANYPFTTIEANVGVTYAITDHPCKELGCSPNPQNYEYRNGLALIPVKMVDVAG   80 (397)
T ss_dssp             EEEEEECTTSSHHHHHHHHHC---------------CCEEEEEEEEECSCSSSCCSCCCSSSCEETTEEEEEEEEEECC-
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC-CcccCCCCcccCCceEEEeeccCCchHHhhhhcccccccccCCcceEEEEEEECCC
Confidence            68999999999999999999988 55788998887666554210                     1   35799999999


Q ss_pred             CcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCC
Q 025346          173 IIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKA  208 (254)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~  208 (254)
                      +.....  ........+...++.+|++++|+|+++.
T Consensus        81 ~~~~a~--~~~~l~~~~l~~i~~aD~il~VvD~~~~  114 (397)
T 1wxq_A           81 LVPGAH--EGRGLGNKFLDDLRMASALIHVVDATGK  114 (397)
T ss_dssp             ----------------CCCSSTTCSEEEEEEETTCC
T ss_pred             cccchh--hhhhHHHHHHHHHhcCCEEEEEEecccc
Confidence            754211  1111123333557899999999999774

>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=99.49  E-value=3.3e-14  Score=128.92  Aligned_cols=115  Identities=23%  Similarity=0.302  Sum_probs=77.3

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCc--cc----------------------cccC------CCCceEEEEEEEEecCCe
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQK--LS----------------------IVTN------KPQTTRHRILGICSGPEY  163 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~--~~----------------------~~~~------~~~tt~~~~~~~~~~~~~  163 (254)
                      ...+++++|.+++|||||++++++..  +.                      .+.+      ..+.|.+.....+...+.
T Consensus         6 ~~~~i~iiG~~~~GKSTLi~~Ll~~~~~~~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTi~~~~~~~~~~~~   85 (458)
T 1f60_A            6 SHINVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIALWKFETPKY   85 (458)
T ss_dssp             EEEEEEEEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTCCCSCSCEEEECSSE
T ss_pred             ceeEEEEEcCCCCCHHHHHHHHHHHcCCcChHHHHHhhhhHHhcCCcchhhhhhhccchhHHhcCcEEEEEEEEEecCCc
Confidence            34689999999999999999998641  10                      0001      134454444445667788


Q ss_pred             eEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCch--------hHHHHHHHhhcccCCCCC-EEEEEe
Q 025346          164 QMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPE--------RIDEILEEGVGDHKDKLP-ILLVLN  234 (254)
Q Consensus       164 ~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~--------~~~~~~~~~~~~~~~~~p-iivV~n  234 (254)
                      .+.+|||||+.+         +.......+..+|++++|+|++++..        ...+.+. +..  ..++| +++|+|
T Consensus        86 ~~~iiDtPGh~~---------f~~~~~~~~~~aD~~ilVvda~~g~~~~sf~~~~qt~~~~~-~~~--~~~v~~iivviN  153 (458)
T 1f60_A           86 QVTVIDAPGHRD---------FIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHAL-LAF--TLGVRQLIVAVN  153 (458)
T ss_dssp             EEEEEECCCCTT---------HHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHH-HHH--HTTCCEEEEEEE
T ss_pred             eEEEEECCCcHH---------HHHHHHhhhhhCCEEEEEEeCCcCccccccCcchhHHHHHH-HHH--HcCCCeEEEEEE
Confidence            999999999532         22345566899999999999987431        2222222 222  13565 999999


Q ss_pred             cCCCCC
Q 025346          235 KKDLIK  240 (254)
Q Consensus       235 K~Dl~~  240 (254)
                      |+|+..
T Consensus       154 K~Dl~~  159 (458)
T 1f60_A          154 KMDSVK  159 (458)
T ss_dssp             CGGGGT
T ss_pred             cccccc
Confidence            999983

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=99.48  E-value=1.1e-13  Score=122.11  Aligned_cols=108  Identities=14%  Similarity=0.094  Sum_probs=74.2

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINA  196 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~  196 (254)
                      +++++|.+++|||||+++++.         .+.|.+.....+...+..+.+|||||+.+..         ......+..+
T Consensus        23 ~i~iiG~~d~GKSTL~~~L~~---------~giTi~~~~~~~~~~~~~i~iiDtPGh~~f~---------~~~~~~~~~a   84 (370)
T 2elf_A           23 NVAIIGTEKSGRTSLAANLGK---------KGTSSDITMYNNDKEGRNMVFVDAHSYPKTL---------KSLITALNIS   84 (370)
T ss_dssp             EEEEEESTTSSHHHHHHTTSE---------EEEESSSEEEEECSSSSEEEEEECTTTTTCH---------HHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHHh---------CCEEEEeeEEEEecCCeEEEEEECCChHHHH---------HHHHHHHHHC
Confidence            899999999999999999981         1223233334566777889999999964431         2334456899


Q ss_pred             cEEEEEEeCCCCchhHHHHHHHhhcccCCCCCE-EEEEe-cCCCCChHhHHH
Q 025346          197 DCIVVLVDACKAPERIDEILEEGVGDHKDKLPI-LLVLN-KKDLIKPGEIAK  246 (254)
Q Consensus       197 d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~pi-ivV~n-K~Dl~~~~~~~~  246 (254)
                      |++++|+| ..+.......+......  .++|. ++|+| |+|+ +++.+++
T Consensus        85 D~ailVvd-~~g~~~qt~e~~~~~~~--~~i~~~ivvvNNK~Dl-~~~~~~~  132 (370)
T 2elf_A           85 DIAVLCIP-PQGLDAHTGECIIALDL--LGFKHGIIALTRSDST-HMHAIDE  132 (370)
T ss_dssp             SEEEEEEC-TTCCCHHHHHHHHHHHH--TTCCEEEEEECCGGGS-CHHHHHH
T ss_pred             CEEEEEEc-CCCCcHHHHHHHHHHHH--cCCCeEEEEEEeccCC-CHHHHHH
Confidence            99999999 76554333322222322  35777 99999 9999 6654443

>1kk1_A EIF2gamma; initiation of translation; HET: GNP; 1.80A {Pyrococcus abyssi} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1kjz_A* 1kk2_A* 1kk3_A* 1kk0_A* 2d74_A 2dcu_A*

Probab=99.48  E-value=2.6e-13  Score=121.37  Aligned_cols=121  Identities=17%  Similarity=0.211  Sum_probs=76.0

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCcccc--ccCCCCceEEEEEE---EEe----------------cC----CeeEEE
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSI--VTNKPQTTRHRILG---ICS----------------GP----EYQMIL  167 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~--~~~~~~tt~~~~~~---~~~----------------~~----~~~~~l  167 (254)
                      ....+++++|+.++|||||++++.+.....  ....++.|......   ...                ..    ...+.+
T Consensus         8 ~~~~~I~iiG~~~~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i~i   87 (410)
T 1kk1_A            8 QAEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVSF   87 (410)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEEEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhCCccccChhhhcCCcEEEEeeeeeecccccccccccccccccccCcccccccEEEE
Confidence            344689999999999999999998643211  11223334321111   100                00    267999


Q ss_pred             EecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCc-h-hHHHHHHHhhcccCCCCCEEEEEecCCCCChHhH
Q 025346          168 YDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAP-E-RIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEI  244 (254)
Q Consensus       168 iDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~-~-~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~  244 (254)
                      |||||..         .+...+...+..+|++++|+|++++. . ...+.+.. +... ...|+++|+||+|+.+.+..
T Consensus        88 iDtPGh~---------~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~-~~~~-~~~~iivviNK~Dl~~~~~~  155 (410)
T 1kk1_A           88 IDAPGHE---------ALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMA-LQII-GQKNIIIAQNKIELVDKEKA  155 (410)
T ss_dssp             EECSSHH---------HHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHH-HHHH-TCCCEEEEEECGGGSCHHHH
T ss_pred             EECCChH---------HHHHHHHhhhhhCCEEEEEEECCCCCCChhHHHHHHH-HHHc-CCCcEEEEEECccCCCHHHH
Confidence            9999932         23344555677899999999999854 2 22333322 2222 23589999999999987654

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=99.48  E-value=1.9e-13  Score=129.66  Aligned_cols=121  Identities=20%  Similarity=0.198  Sum_probs=81.1

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEE---------EEEE-e-----------------cCC----
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRI---------LGIC-S-----------------GPE----  162 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~---------~~~~-~-----------------~~~----  162 (254)
                      ...+|+++|.+|+|||||+|++++.++..++..|+|.....         .... +                 ..+    
T Consensus        68 ~~~~V~VvG~~naGKSSLlNaLlg~~~~~v~~~p~T~~~~~i~~g~~~~~t~~~~~g~~~~~~~~~~i~~~~~i~~~~~~  147 (695)
T 2j69_A           68 GVFRLLVLGDMKRGKSTFLNALIGENLLPSDVNPCTAVLTVLRYGPEKKVTIHFNDGKSPQQLDFQNFKYKYTIDPAEAK  147 (695)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHTSSCSCCCCCTTTCCCEEEEECSSCEEEEEESSSCCCCEEEHHHHHHHSCCCHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCCCCCCCccceEEEEeCCCCeEEEEEcCCCcccccChhhhhhhhcCCHHHHH
Confidence            35689999999999999999999998776666666621000         0000 0                 000    


Q ss_pred             --------------------------eeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHH-H
Q 025346          163 --------------------------YQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDE-I  215 (254)
Q Consensus       163 --------------------------~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~-~  215 (254)
                                                ..+.+|||||+.+..  .    ....+..++..+|+++||+|+++....... .
T Consensus       148 ~l~~~~~~~~~~v~~i~i~~p~~~l~~~l~LiDTPGl~~~~--~----~~~~~~~~i~~aD~vL~Vvda~~~~s~~e~~~  221 (695)
T 2j69_A          148 KLEQEKKQAFPDVDYAVVEYPLTLLQKGIEIVDSPGLNDTE--A----RNELSLGYVNNCHAILFVMRASQPCTLGERRY  221 (695)
T ss_dssp             HHHTSSCCSCTTEEEEEEEECCHHHHTTEEEEECCCHHHHH--T----CHHHHTHHHHSSSEEEEEEETTSTTCHHHHHH
T ss_pred             HHhhccccccccceEEEEEccchhccCCeEEEECCCCCchh--h----HHHHHHHHHHhCCEEEEEEeCCCccchhHHHH
Confidence                                      469999999975432  1    123455677899999999999886543332 2


Q ss_pred             HHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          216 LEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       216 ~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      +...+.  ..+.|+++|+||+|+....
T Consensus       222 l~~~l~--~~~~~iiiVlNK~Dl~~~~  246 (695)
T 2j69_A          222 LENYIK--GRGLTVFFLVNAWDQVRES  246 (695)
T ss_dssp             HHHHTT--TSCCCEEEEEECGGGGGGG
T ss_pred             HHHHHH--hhCCCEEEEEECccccccc
Confidence            332333  2367899999999997553

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=99.48  E-value=2.2e-13  Score=109.00  Aligned_cols=117  Identities=21%  Similarity=0.215  Sum_probs=77.8

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCC--eeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPE--YQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      ..+++++|++|+|||||++++.+..+.. ...+..+.+...+.+...+  ..+.+|||||....  ...       +..+
T Consensus        29 ~~kv~lvG~~g~GKSTLl~~l~~~~~~~-~~~~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~~~~--~~~-------~~~~   98 (191)
T 1oix_A           29 LFKVVLIGDSGVGKSNLLSRFTRNEFNL-ESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLERY--RAI-------TSAY   98 (191)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSCCCC-SCCCCCSEEEEEEEEEETTEEEEEEEEEECSCCSS--SCC-------CHHH
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcCCCCC-CCCCccceEEEEEEEEECCEEEEEEEEECCCCcch--hhh-------hHHH
Confidence            4689999999999999999999887652 2233333333334444333  45678999995432  222       1233


Q ss_pred             ccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          193 GINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      +..++++++|+|..+.  +..+..++..+......+.|+++|+||+|+.+.
T Consensus        99 ~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~~~  149 (191)
T 1oix_A           99 YRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHL  149 (191)
T ss_dssp             HTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGG
T ss_pred             hhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccc
Confidence            5778999999999873  334444554433323357899999999999653

>3c5h_A Glucocorticoid receptor DNA-binding factor 1; RAS, GTPase, glucorticoid receptor, structural genomics consortium, SGC, alternative splicing; HET: GNP; 1.80A {Homo sapiens}

Probab=99.47  E-value=1.3e-13  Score=115.63  Aligned_cols=137  Identities=15%  Similarity=0.132  Sum_probs=79.0

Q ss_pred             CCCCCcEEEEEeCC---------CCChHHHHHHHhcCcccc-ccCCCCce--EEEE----------------EEEEecCC
Q 025346          111 PNHKSGYVAVLGKP---------NVGKSTLANQMIGQKLSI-VTNKPQTT--RHRI----------------LGICSGPE  162 (254)
Q Consensus       111 ~~~~~~~~~~~G~~---------~~gKssl~~~~~~~~~~~-~~~~~~tt--~~~~----------------~~~~~~~~  162 (254)
                      ......+|+++|.+         |+|||||++++.+.++.. ...+.+++  .+..                ....+...
T Consensus        15 ~~~~~~ki~lvG~~~~~~~~~~~~vGKSsLi~~l~~~~~~~~~~~~~~t~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~   94 (255)
T 3c5h_A           15 YFQGTYNISVVGLSGTEKEKGQCGIGKSCLCNRFVRPSADEFHLDHTSVLSTSDFGGRVVNNDHFLYWGEVSRSLEDCVE   94 (255)
T ss_dssp             SCCSCEEEEEEESCCCTTTTTTCCCSHHHHHHHHHCCSTTTCCSCCCCEECHHHHTSTTTTTCSEEEEEEEC--------
T ss_pred             CCCceeEEEEECCCccccccCCCCcCHHHHHHHHHhccCCccccccCCcccccccceeEeecccccccccccccccCCcE
Confidence            34556799999999         999999999999843111 12222222  1000                00123445


Q ss_pred             eeEEEEe------cCCCcccchhhhhHHHHHH--------HHHHcc---------------------CccEEEEEEeCCC
Q 025346          163 YQMILYD------TPGIIEKKIHMLDSMMMKN--------VRSAGI---------------------NADCIVVLVDACK  207 (254)
Q Consensus       163 ~~~~liD------tpG~~~~~~~~~~~~~~~~--------~~~~~~---------------------~~d~iv~vid~~~  207 (254)
                      ..+.+||      |||........+...+...        ...++.                     ++|++++|+|+++
T Consensus        95 ~~l~i~D~~~~~D~~~~~~~~~~~~~~~~~~~g~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ad~vilV~D~t~  174 (255)
T 3c5h_A           95 CKMHIVEQTEFIDDQTFQPHRSTALQPYIKRAAATKLASAEKLMYFCTDQLGLEQDFEQKQMPDGKLLVDGFLLGIDVSR  174 (255)
T ss_dssp             -CEEEEEECCCEETTTCSBTTGGGCCCHHHHHTCSEEECTTCBCCCCGGGTTCGGGSCCCBCGGGEEECCEEEEEEECBC
T ss_pred             EEEEEEEccccccccccccccccccccccccchhhhhhhhhhhhhhccccccccccccccccccccccCCEEEEEEECCC
Confidence            6788888      6665433221111111000        001122                     6999999999976


Q ss_pred             ----CchhHHHHHHHhhcc-cCCCCCEEEEEecCCCCChHhHHHH
Q 025346          208 ----APERIDEILEEGVGD-HKDKLPILLVLNKKDLIKPGEIAKK  247 (254)
Q Consensus       208 ----~~~~~~~~~~~~~~~-~~~~~piivV~nK~Dl~~~~~~~~~  247 (254)
                          ++..+..|+..+... ...+.|+++|+||+|+...+.+++.
T Consensus       175 ~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~~v~~~  219 (255)
T 3c5h_A          175 GMNRNFDDQLKFVSNLYNQLAKTKKPIVVVLTKCDEGVERYIRDA  219 (255)
T ss_dssp             ----CHHHHHHHHHHHHHHHHHTTCCEEEEEECGGGBCHHHHHHH
T ss_pred             CchhhHHHHHHHHHHHHHHhccCCCCEEEEEEcccccccHHHHHH
Confidence                345566666665543 2357999999999999887666443

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=99.47  E-value=3.8e-15  Score=136.86  Aligned_cols=116  Identities=20%  Similarity=0.234  Sum_probs=81.3

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEec-CCeeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSG-PEYQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~-~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      ++.++|+++|.+++|||||++++.+..+. ....+++|.+.....+.. .+..+.||||||....  ..+       ...
T Consensus         2 ~r~pkV~IvG~~~vGKTSLl~~L~~~~~~-~~~~~giT~~i~~~~v~~~~g~~i~~iDTPGhe~f--~~~-------~~~   71 (537)
T 3izy_P            2 PRSPVVTIMGHVDHGKTTLLDKLRKTQVA-AMEAGGITQHIGAFLVSLPSGEKITFLDTPGHAAF--SAM-------RAR   71 (537)
T ss_dssp             CCCCBCEEEESTTTTHHHHHHHHHHHHHH-HSSSCCBCCCTTSCCBCSSCSSCCBCEECSSSCCT--TTS-------BBS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCcc-cccCCceeEEEeEEEEEeCCCCEEEEEECCChHHH--HHH-------HHH
Confidence            35678999999999999999999987765 335556665443333333 4568999999995432  222       123


Q ss_pred             HccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          192 AGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      .+..+|++++|+|++++.............  ..+.|+++|+||+|+..
T Consensus        72 ~~~~aD~vILVVDa~dg~~~qt~e~l~~~~--~~~vPiIVViNKiDl~~  118 (537)
T 3izy_P           72 GTQVTDIVILVVAADDGVMKQTVESIQHAK--DAHVPIVLAINKCDKAE  118 (537)
T ss_dssp             SSBSBSSCEEECBSSSCCCHHHHHHHHHHH--TTTCCEEECCBSGGGTT
T ss_pred             HHccCCEEEEEEECCCCccHHHHHHHHHHH--HcCCcEEEEEecccccc
Confidence            467899999999999865443322222222  34689999999999975

>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=99.45  E-value=5.3e-13  Score=119.27  Aligned_cols=119  Identities=18%  Similarity=0.217  Sum_probs=73.8

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCcccc--ccCCCCceEEEEEE---EEe--------c----C--------CeeEEE
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSI--VTNKPQTTRHRILG---ICS--------G----P--------EYQMIL  167 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~--~~~~~~tt~~~~~~---~~~--------~----~--------~~~~~l  167 (254)
                      ....+++++|..++|||||++++.+.....  ....++.|......   ...        .    +        ...+.+
T Consensus         6 ~~~~~I~iiG~~d~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i~i   85 (408)
T 1s0u_A            6 QAEVNIGMVGHVDHGKTSLTKALTGVWTDRHSEELRRGISIRLGYADCEIRKCPQCGTYTTKPRCPNCLAETEFLRRVSF   85 (408)
T ss_dssp             CCCEEEEEESCTTSSHHHHHHHHHSCCCCC-------CCCCCCEEEEEEEEECTTTCCEESSSBCTTSCCBCEEEEEEEE
T ss_pred             CCceEEEEEcCCCCCHHHHHHHHhCCccccCcccccCCcEEEecccccccccccccccccccccccccCcccccccEEEE
Confidence            345789999999999999999998653221  11123334321111   100        0    1        167999


Q ss_pred             EecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCc-h-hHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          168 YDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAP-E-RIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       168 iDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~-~-~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      |||||.         ..+...+...+..+|++++|+|++++. . ...+.+.. +... ...|+++|+||+|+.+.+
T Consensus        86 iDtPGh---------~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~-~~~l-~~~~iivv~NK~Dl~~~~  151 (408)
T 1s0u_A           86 VDSPGH---------ETLMATMLSGASLMDGAILVIAANEPCPQPQTKEHLMA-LEIL-GIDKIIIVQNKIDLVDEK  151 (408)
T ss_dssp             EECSSH---------HHHHHHHHTTCSCCSEEEEEEETTSCSSCHHHHHHHHH-HHHT-TCCCEEEEEECTTSSCTT
T ss_pred             EECCCH---------HHHHHHHHHhHhhCCEEEEEEECCCCCCCchhHHHHHH-HHHc-CCCeEEEEEEccCCCCHH
Confidence            999993         223344555677889999999999853 2 22333322 2222 235899999999998754

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=99.44  E-value=1.9e-13  Score=126.32  Aligned_cols=119  Identities=19%  Similarity=0.208  Sum_probs=76.7

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceE-EEEEEE------E----ecCCeeEEEEecCCCcccchhh
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTR-HRILGI------C----SGPEYQMILYDTPGIIEKKIHM  180 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~-~~~~~~------~----~~~~~~~~liDtpG~~~~~~~~  180 (254)
                      .....+|+++|.+|+|||||++++.+.++.  ..+.+|.. ......      +    ...+..+.+|||||.  ..+..
T Consensus        38 ~~~~~kV~lvG~~~vGKSSLl~~l~~~~~~--~~~~~t~g~~~~~~~~~~~~~v~~~~~~~~~~~~i~Dt~G~--e~~~~  113 (535)
T 3dpu_A           38 HLQEIKVHLIGDGMAGKTSLLKQLIGETFD--PKESQTHGLNVVTKQAPNIKGLENDDELKECLFHFWDFGGQ--EIMHA  113 (535)
T ss_dssp             CCCEEEEEEESSSCSSHHHHHHHHHC-------------CCCEEEEEGGGSGGGTTCSTTTTCEEEEECCCSC--CTTTT
T ss_pred             cccceEEEEECCCCCCHHHHHHHHhcCCCC--CCCCCccceEEEEeccccccceeecCCCceEEEEEEECCcH--HHHHH
Confidence            345579999999999999999999988764  22222221 111111      1    123578999999994  33333


Q ss_pred             hhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          181 LDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       181 ~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      ...       .++..+|++++|+|+++. +....|+..+... ..+.|+++|+||+|+...++
T Consensus       114 ~~~-------~~l~~~d~ii~V~D~s~~-~~~~~~~~~l~~~-~~~~pvilV~NK~Dl~~~~~  167 (535)
T 3dpu_A          114 SHQ-------FFMTRSSVYMLLLDSRTD-SNKHYWLRHIEKY-GGKSPVIVVMNKIDENPSYN  167 (535)
T ss_dssp             TCH-------HHHHSSEEEEEEECGGGG-GGHHHHHHHHHHH-SSSCCEEEEECCTTTCTTCC
T ss_pred             HHH-------HHccCCcEEEEEEeCCCc-hhHHHHHHHHHHh-CCCCCEEEEEECCCcccccc
Confidence            333       235679999999999874 5556666554443 35799999999999986544

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=99.44  E-value=7.8e-15  Score=136.84  Aligned_cols=118  Identities=19%  Similarity=0.135  Sum_probs=58.4

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCccccc------------------------------cCCCCceEEEEEEEEecC
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQKLSIV------------------------------TNKPQTTRHRILGICSGP  161 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~------------------------------~~~~~tt~~~~~~~~~~~  161 (254)
                      .....+|+++|.+++|||||+++|+.......                              ...+++|.+.....+...
T Consensus       174 ~k~~~~I~iiG~~d~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~GiTid~~~~~~~~~  253 (592)
T 3mca_A          174 PKPVVHLVVTGHVDSGKSTMLGRIMFELGEINSRSMQKLHNEAANSGKGSFSYAWLLDTTEEERARGVTMDVASTTFESD  253 (592)
T ss_dssp             CCCEEEEEEECCSSSTHHHHHHHHHHHHHCC-------------------------------------------------
T ss_pred             CCCccEEEEEcCCCCCHHHHHHHHHHHcCCcchHHHHHHHHhHhhcCCcchhhhhhhccchhhhcCCeeEEeeEEEEEeC
Confidence            34567899999999999999999975321111                              113456666666666667


Q ss_pred             CeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCc-------hhHHHHHHHhhcccCCCCC-EEEEE
Q 025346          162 EYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAP-------ERIDEILEEGVGDHKDKLP-ILLVL  233 (254)
Q Consensus       162 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~-------~~~~~~~~~~~~~~~~~~p-iivV~  233 (254)
                      +..+.||||||+.+.....         ...+..+|++|+|+|++++.       .........+...  .++| +++|+
T Consensus       254 ~~~i~iiDTPGh~~f~~~~---------~~~~~~aD~alLVVDa~~g~~e~gi~~~~qt~e~l~~~~~--lgip~iIvvi  322 (592)
T 3mca_A          254 KKIYEIGDAPGHRDFISGM---------IAGASSADFAVLVVDSSQNNFERGFLENGQTREHAYLLRA--LGISEIVVSV  322 (592)
T ss_dssp             -----CCEEESSSEEEEEC---------CC-------CCSEEEEEECCSSTTSCSCSSHHHHHHHHHH--SSCCCEEEEE
T ss_pred             CeEEEEEECCChHHHHHHH---------HHHHhhCCEEEEEEECCCCccccccccchHHHHHHHHHHH--cCCCeEEEEE
Confidence            7899999999976543221         23357899999999998631       2222222222222  2455 99999


Q ss_pred             ecCCCCC
Q 025346          234 NKKDLIK  240 (254)
Q Consensus       234 nK~Dl~~  240 (254)
                      ||+|+..
T Consensus       323 NKiDl~~  329 (592)
T 3mca_A          323 NKLDLMS  329 (592)
T ss_dssp             ECGGGGT
T ss_pred             ecccccc
Confidence            9999976

>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=99.44  E-value=1.7e-14  Score=131.50  Aligned_cols=115  Identities=18%  Similarity=0.232  Sum_probs=78.5

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      ++.++++++|+.++|||||++++.+..+. ....++.|.+.....+..++..+.+|||||+....  .+       +...
T Consensus         2 ~R~~~V~IvGhvd~GKTTLl~~L~~~~v~-~~e~~GIT~~i~~~~v~~~~~~i~~iDTPGhe~f~--~~-------~~~~   71 (501)
T 1zo1_I            2 PRAPVVTIMGHVDHGKTSLLEYIRSTKVA-SGEAGGITQHIGAYHVETENGMITFLDTPGHAAFT--SM-------RARG   71 (501)
T ss_dssp             CCCCCEEEEESTTSSSHHHHHHHHHHHHS-BTTBCCCCCCSSCCCCCTTSSCCCEECCCTTTCCT--TS-------BCSS
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHcCCCc-cccCCCeeEeEEEEEEEECCEEEEEEECCCcHHHH--HH-------HHHH
Confidence            45678999999999999999999876543 23334444433333445567789999999964432  21       1234


Q ss_pred             ccCccEEEEEEeCCCCchh-HHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          193 GINADCIVVLVDACKAPER-IDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~~~~-~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      +..+|++++|+|++++... ..+.+... .  ..+.|+++|+||+|+..
T Consensus        72 ~~~aD~aILVVda~~g~~~qT~e~l~~~-~--~~~vPiIVviNKiDl~~  117 (501)
T 1zo1_I           72 AQATDIVVLVVAADDGVMPQTIEAIQHA-K--AAQVPVVVAVNKIDKPE  117 (501)
T ss_dssp             SBSCSSEEEEEETTTBSCTTTHHHHHHH-H--HTTCCEEEEEECSSSST
T ss_pred             HhhCCEEEEEeecccCccHHHHHHHHHH-H--hcCceEEEEEEeccccc
Confidence            6789999999999874322 22222222 1  24689999999999975

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=99.43  E-value=4.5e-13  Score=127.12  Aligned_cols=117  Identities=16%  Similarity=0.205  Sum_probs=77.2

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCc--ccc---------ccC------CCCceEEEEEEEEecCCeeEEEEecCCCcc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQK--LSI---------VTN------KPQTTRHRILGICSGPEYQMILYDTPGIIE  175 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~--~~~---------~~~------~~~tt~~~~~~~~~~~~~~~~liDtpG~~~  175 (254)
                      ...++++++|.+|+|||||+++++...  +..         +.+      .+++|.......+.+.+..+.+|||||+.+
T Consensus         8 ~~~~~I~IvG~~~aGKSTL~~~Ll~~~~~~~~~g~v~~~~~~~D~~~~e~~~giTi~~~~~~~~~~~~~i~liDTPG~~d   87 (693)
T 2xex_A            8 EKTRNIGIMAHIDAGKTTTTERILYYTGRIHKIGETHEGASQMDWMEQEQDRGITITSAATTAAWEGHRVNIIDTPGHVD   87 (693)
T ss_dssp             TTEEEEEEECCGGGTHHHHHHHHHHHHSSCC-------------------------CCSEEEEEETTEEEEEECCCCCSS
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCceecccchhhhhcCceEeeeeEEEEECCeeEEEEECcCCcc
Confidence            446789999999999999999998521  110         111      123333333445566788999999999755


Q ss_pred             cchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHH-HHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          176 KKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERID-EILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       176 ~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~-~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      ..         ..+...+..+|++++|+|++++..... ..+.. +.  ..+.|+++|+||+|+...
T Consensus        88 f~---------~~~~~~l~~aD~~llVvDa~~g~~~~~~~~~~~-~~--~~~~p~ilviNK~Dl~~~  142 (693)
T 2xex_A           88 FT---------VEVERSLRVLDGAVTVLDAQSGVEPQTETVWRQ-AT--TYGVPRIVFVNKMDKLGA  142 (693)
T ss_dssp             CC---------HHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHH-HH--HTTCCEEEEEECTTSTTC
T ss_pred             hH---------HHHHHHHHHCCEEEEEECCCCCCcHHHHHHHHH-HH--HcCCCEEEEEECCCcccc
Confidence            32         223445677999999999988654433 23332 22  247899999999999864

>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=99.42  E-value=5.7e-13  Score=126.38  Aligned_cols=117  Identities=18%  Similarity=0.223  Sum_probs=76.6

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccc-----cc------cC------CCCceEEEEEEEEecCCeeEEEEecCCCcc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLS-----IV------TN------KPQTTRHRILGICSGPEYQMILYDTPGIIE  175 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~-----~~------~~------~~~tt~~~~~~~~~~~~~~~~liDtpG~~~  175 (254)
                      .+.++++++|.+|+|||||+++++.....     .+      .+      ..+.|.......+.+.+..+.+|||||+.+
T Consensus        10 ~~~~~I~IvG~~~aGKTTL~~~Ll~~~g~~~~~g~v~~~~~~~d~~~~E~~~giTi~~~~~~~~~~~~~i~liDTPG~~d   89 (691)
T 1dar_A           10 KRLRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFWKDHRINIIDTPGHVD   89 (691)
T ss_dssp             GGEEEEEEEECTTSCHHHHHHHHHHHHCC----------------------------CCEEEEEETTEEEEEECCCSSTT
T ss_pred             ccccEEEEECCCCCCHHHHHHHHHHhcCCCcccceecCCceeccCchhhhhcccccccceEEEEECCeEEEEEECcCccc
Confidence            34578999999999999999999842110     00      00      223333333444566788999999999654


Q ss_pred             cchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHH-HHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          176 KKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERID-EILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       176 ~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~-~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      ..         ..+...+..+|++|+|+|++++..... ..+....   ..++|+++|+||+|+...
T Consensus        90 f~---------~~~~~~l~~aD~~ilVvDa~~g~~~~t~~~~~~~~---~~~~p~ivviNKiD~~~~  144 (691)
T 1dar_A           90 FT---------IEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQAE---KYKVPRIAFANKMDKTGA  144 (691)
T ss_dssp             CH---------HHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHH---HTTCCEEEEEECTTSTTC
T ss_pred             hH---------HHHHHHHHHCCEEEEEEECCCCcchhhHHHHHHHH---HcCCCEEEEEECCCcccC
Confidence            32         234455778999999999998654433 2233222   247899999999999865

>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=99.42  E-value=4.6e-13  Score=121.68  Aligned_cols=115  Identities=18%  Similarity=0.207  Sum_probs=67.9

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCc--cc----------------------cccC------CCCceEEEEEEEEecCCe
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQK--LS----------------------IVTN------KPQTTRHRILGICSGPEY  163 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~--~~----------------------~~~~------~~~tt~~~~~~~~~~~~~  163 (254)
                      ...+++++|..++|||||+++++...  +.                      .+.+      ..+.|.+.....+..++.
T Consensus        42 ~~~~i~iiG~vd~GKSTLi~~Ll~~~g~~~~~~~~~~~~~~~~~G~~~~~~~~~~D~~~~er~~giTi~~~~~~~~~~~~  121 (467)
T 1r5b_A           42 EHVNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEEREKGKTVEVGRAYFETEHR  121 (467)
T ss_dssp             EEEEEEEEECGGGTHHHHHHHHHHHTTSSCHHHHHHHHHHTCC----------------------------CCEEECSSE
T ss_pred             CeeEEEEEECCCCCHHHHHHHHHHHhCCCChHHHHHHHhHHHhcCCcchhhhhhcccchhhhhcCceEEeeeEEEecCCe
Confidence            34689999999999999999997421  10                      0011      223444443345566788


Q ss_pred             eEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCc--------hhHHHHHHHhhcccCCCCC-EEEEEe
Q 025346          164 QMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAP--------ERIDEILEEGVGDHKDKLP-ILLVLN  234 (254)
Q Consensus       164 ~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~--------~~~~~~~~~~~~~~~~~~p-iivV~n  234 (254)
                      .+.+|||||+.+.         ...+...+..+|++|+|+|++++.        ....+.+... .  ..++| +++|+|
T Consensus       122 ~~~iiDtPGh~~f---------~~~~~~~~~~aD~~ilVvDa~~g~~e~sf~~~~qt~e~l~~~-~--~~~vp~iivviN  189 (467)
T 1r5b_A          122 RFSLLDAPGHKGY---------VTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLA-R--TQGINHLVVVIN  189 (467)
T ss_dssp             EEEECCCCC--------------------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHH-H--HTTCSSEEEEEE
T ss_pred             EEEEEECCCcHHH---------HHHHHhhcccCCEEEEEEeCCcCccccccCCCCcHHHHHHHH-H--HcCCCEEEEEEE
Confidence            9999999995332         233445678999999999998863        1222322222 1  23577 999999


Q ss_pred             cCCCCC
Q 025346          235 KKDLIK  240 (254)
Q Consensus       235 K~Dl~~  240 (254)
                      |+|+..
T Consensus       190 K~Dl~~  195 (467)
T 1r5b_A          190 KMDEPS  195 (467)
T ss_dssp             CTTSTT
T ss_pred             CccCCC
Confidence            999964

>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=99.41  E-value=2.4e-12  Score=122.30  Aligned_cols=117  Identities=16%  Similarity=0.158  Sum_probs=77.5

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCc--ccc---c------cC------CCCceEEEEEEEEecCC-------eeEEEE
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQK--LSI---V------TN------KPQTTRHRILGICSGPE-------YQMILY  168 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~--~~~---~------~~------~~~tt~~~~~~~~~~~~-------~~~~li  168 (254)
                      .+.++++++|..++|||||+++++...  +..   +      .+      ..+.|.......+.+.+       ..+.+|
T Consensus         8 ~~~~~I~IiG~~~~GKTTL~~~Ll~~~g~~~~~g~v~~g~~~~D~~~~E~~rgiTi~~~~~~~~~~~~~~~~~~~~i~li   87 (704)
T 2rdo_7            8 ARYRNIGISAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTAFWSGMAKQYEPHRINII   87 (704)
T ss_pred             ccccEEEEECCCCCCHHHHHHHHHHhcCCcccccccCCCceeecChhhHHhcCceeeeceEEEEECCccccCCceeEEEE
Confidence            456789999999999999999997531  110   0      01      12333333333344444       889999


Q ss_pred             ecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHH-HHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          169 DTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERID-EILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       169 DtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~-~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      ||||..+..         ..+...+..+|++|+|+|++++..... ..+... .  ..++|+++|+||+|+...
T Consensus        88 DTPG~~df~---------~~~~~~l~~aD~aIlVvDa~~gv~~qt~~~~~~~-~--~~~ip~ilviNKiD~~~~  149 (704)
T 2rdo_7           88 DTPGHVDFT---------IEVERSMRVLDGAVMVYCAVGGVQPQSETVWRQA-N--KYKVPRIAFVNKMDRMGA  149 (704)
T ss_pred             eCCCccchH---------HHHHHHHHHCCEEEEEEeCCCCCcHHHHHHHHHH-H--HcCCCEEEEEeCCCcccc
Confidence            999964422         334455778999999999998654332 233222 2  347899999999999765

>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=99.38  E-value=2e-12  Score=126.55  Aligned_cols=117  Identities=21%  Similarity=0.240  Sum_probs=76.2

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCcccc---------------ccCCCCceEEEEEEEEecCCeeEEEEecCCCcccc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSI---------------VTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK  177 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~---------------~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~  177 (254)
                      ....+|+++|.+++|||||++++.+.....               .....+.|.......+...+..+.+|||||+.+  
T Consensus       294 k~~lnIvIIGhvDvGKSTLInrLt~~~~~~G~a~f~~~a~lD~~~~ErerGITIdva~v~f~~~~~kI~IIDTPGHed--  371 (1289)
T 3avx_A          294 KPHVNVGTIGHVDHGKTTLTAAITTVLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDTPTRHYAHVDCPGHAD--  371 (1289)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHHHHHHSCC---------------------CCSCEEEECSSCEEEEEECCCHHH--
T ss_pred             CCeeEEEEEcCCCCCHHHHHHHHHhhhccccccccccccccccccccccCceeEEEEEEEEcCCCEEEEEEECCChHH--
Confidence            445789999999999999999998641100               001123333322233556678999999999432  


Q ss_pred             hhhhhHHHHHHHHHHccCccEEEEEEeCCCCchh-HHHHHHHhhcccCCCCC-EEEEEecCCCCCh
Q 025346          178 IHMLDSMMMKNVRSAGINADCIVVLVDACKAPER-IDEILEEGVGDHKDKLP-ILLVLNKKDLIKP  241 (254)
Q Consensus       178 ~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~-~~~~~~~~~~~~~~~~p-iivV~nK~Dl~~~  241 (254)
                             +.......+..+|++|+|+|++++... ..+++.. +..  .++| +++|+||+|+.+.
T Consensus       372 -------F~~~mi~gas~AD~aILVVDAtdGv~~QTrEhL~l-l~~--lgIP~IIVVINKiDLv~d  427 (1289)
T 3avx_A          372 -------YVKNMITGAAQMDGAILVVAATDGPMPQTREHILL-GRQ--VGVPYIIVFLNKCDMVDD  427 (1289)
T ss_dssp             -------HHHHHHHTSCCCSEEEEEEETTTCSCTTHHHHHHH-HHH--HTCSCEEEEEECCTTCCC
T ss_pred             -------HHHHHHHHHhhCCEEEEEEcCCccCcHHHHHHHHH-HHH--cCCCeEEEEEeecccccc
Confidence                   334555678999999999999885432 3333332 222  3578 8999999999863

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=99.37  E-value=1.2e-12  Score=121.80  Aligned_cols=114  Identities=23%  Similarity=0.283  Sum_probs=67.4

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccc--------cC------CCCceEEEEEEEE-----ecCCeeEEEEecCCCcc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIV--------TN------KPQTTRHRILGIC-----SGPEYQMILYDTPGIIE  175 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~--------~~------~~~tt~~~~~~~~-----~~~~~~~~liDtpG~~~  175 (254)
                      .++++++|+.++|||||+++++.......        .+      ..+.|.......+     ++....+.+|||||+.+
T Consensus         4 irnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGiTi~~~~~~~~~~~~~g~~~~l~liDTPGh~d   83 (599)
T 3cb4_D            4 IRNFSIIAHIDHGKSTLSDRIIQICGGLSDREMEAQVLDSMDLERERGITIKAQSVTLDYKASDGETYQLNFIDTPGHVD   83 (599)
T ss_dssp             EEEEEEECCC----CCHHHHHHHHTTC--------------------------CEEEEEEECTTSCEEEEEEEECCCCGG
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhcCCcccccccccccccchhhhcccceeeeeEEEEEEecCCCCeEEEEEEECCCchH
Confidence            46899999999999999999986321100        00      1222322222222     22347899999999654


Q ss_pred             cchhhhhHHHHHHHHHHccCccEEEEEEeCCCCch--hHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          176 KKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPE--RIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       176 ~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~--~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      ..         ..+...+..+|++++|+|++++..  ....+... .   ..++|+++|+||+|+...
T Consensus        84 F~---------~ev~~~l~~aD~aILVVDa~~gv~~qt~~~~~~~-~---~~~ipiIvViNKiDl~~a  138 (599)
T 3cb4_D           84 FS---------YEVSRSLAACEGALLVVDAGQGVEAQTLANCYTA-M---EMDLEVVPVLNKIDLPAA  138 (599)
T ss_dssp             GH---------HHHHHHHHHCSEEEEEEETTTCCCTHHHHHHHHH-H---HTTCEEEEEEECTTSTTC
T ss_pred             HH---------HHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHH-H---HCCCCEEEeeeccCcccc
Confidence            32         233445778999999999988543  22233222 2   246899999999999864

>2ywe_A GTP-binding protein LEPA; G domain, beta-barrel, ferredoxin-like domain, structural GE NPPSFA; 2.05A {Aquifex aeolicus} PDB: 2ywf_A* 2ywg_A* 2ywh_A*

Probab=99.37  E-value=1.2e-12  Score=121.79  Aligned_cols=115  Identities=25%  Similarity=0.313  Sum_probs=69.7

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccc--------cC------CCCceEEEE--EEEE---ecCCeeEEEEecCCCcc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIV--------TN------KPQTTRHRI--LGIC---SGPEYQMILYDTPGIIE  175 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~--------~~------~~~tt~~~~--~~~~---~~~~~~~~liDtpG~~~  175 (254)
                      .++++++|+.++|||||+++++.......        .+      ..+.|....  ...+   ++....+.+|||||+.+
T Consensus         6 irnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGITI~~~~~~~~~~~~dg~~~~inliDTPGh~d   85 (600)
T 2ywe_A            6 VRNFCIIAHVDHGKSTLADRLLEYTGAISEREKREQLLDTLDVERERGITVKMQAVRMFYKAKDGNTYKLHLIDTPGHVD   85 (600)
T ss_dssp             EEEEEEECC--CCHHHHHHHHHHHHTC-----------------------CCCCSEEEEEECTTSCEEEEEEECCCCSGG
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhccCCcccccccccccccchhhhcccceeeeeEEEEEEEcCCCCeEEEEEEECCCcHh
Confidence            46899999999999999999986321100        00      011121111  1111   22346899999999755


Q ss_pred             cchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHH-HHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          176 KKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERID-EILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       176 ~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~-~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      ..         ..+...+..+|++++|+|++++..... ..+....   ..++|+++|+||+|+...
T Consensus        86 F~---------~ev~r~l~~aD~aILVVDa~~gv~~qt~~~~~~a~---~~~ipiIvviNKiDl~~a  140 (600)
T 2ywe_A           86 FS---------YEVSRALAACEGALLLIDASQGIEAQTVANFWKAV---EQDLVIIPVINKIDLPSA  140 (600)
T ss_dssp             GH---------HHHHHHHHTCSEEEEEEETTTBCCHHHHHHHHHHH---HTTCEEEEEEECTTSTTC
T ss_pred             HH---------HHHHHHHHhCCEEEEEEECCCCccHHHHHHHHHHH---HCCCCEEEEEeccCcccc
Confidence            32         233445788999999999998654322 2222222   247899999999999764

>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=99.35  E-value=5.9e-13  Score=123.97  Aligned_cols=114  Identities=24%  Similarity=0.270  Sum_probs=72.8

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCC-CceEEEEEEEEe------------------cCCeeEEEEecCCCc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKP-QTTRHRILGICS------------------GPEYQMILYDTPGII  174 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~-~tt~~~~~~~~~------------------~~~~~~~liDtpG~~  174 (254)
                      +.++++++|++++|||||++++++..+..  ..+ +.|.........                  .....+.+|||||+.
T Consensus         4 r~~~V~IvGh~d~GKTTLl~~L~~~~v~~--~e~ggiT~~ig~~~~~~~~~~~~~~~~~~~~~v~~~~~~i~liDTPGhe   81 (594)
T 1g7s_A            4 RSPIVSVLGHVDHGKTTLLDHIRGSAVAS--REAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHE   81 (594)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHHHHSC--C----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTS
T ss_pred             CCcEEEEECCCCCcHHHHHHHHhcccCcc--ccCCceecccCeEEEeechhhhhccccccccccccccCCEEEEECCCcH
Confidence            46789999999999999999998765431  111 222211111111                  112259999999965


Q ss_pred             ccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          175 EKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       175 ~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      +..  .+.       ...+..+|++|+|+|++++...........+.  ..++|+++|+||+|+..
T Consensus        82 ~F~--~~~-------~r~~~~aD~aILVvDa~~Gv~~qT~e~l~~l~--~~~vPiIVViNKiDl~~  136 (594)
T 1g7s_A           82 AFT--TLR-------KRGGALADLAILIVDINEGFKPQTQEALNILR--MYRTPFVVAANKIDRIH  136 (594)
T ss_dssp             CCT--TSB-------CSSSBSCSEEEEEEETTTCCCHHHHHHHHHHH--HTTCCEEEEEECGGGST
T ss_pred             HHH--HHH-------HHHHhhCCEEEEEEECCCCccHhHHHHHHHHH--HcCCeEEEEeccccccc
Confidence            432  221       13467899999999999965443322222222  25789999999999974

>3zvr_A Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mitochondrial fission, GT stalk, PH, BSE, membrane fission; HET: 1PE; 3.10A {Rattus norvegicus} PDB: 3snh_A

Probab=99.34  E-value=1.3e-11  Score=117.15  Aligned_cols=127  Identities=20%  Similarity=0.226  Sum_probs=79.3

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEE----------------------------------------
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHR----------------------------------------  153 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~----------------------------------------  153 (254)
                      ..++|+++|.+++||||++|.+++..+...+..+ +|+.+                                        
T Consensus        50 ~lp~I~vvG~~saGKSSllnaL~g~~~LP~g~g~-~Tr~Pl~l~l~~~~~~~~~~l~~~~~~~~~~~~v~~~I~~~~~~~  128 (772)
T 3zvr_A           50 DLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGI-VTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETDRV  128 (772)
T ss_dssp             CCSEEEEEECTTTCHHHHHHHHHSSCCSCCSSSC-SCSSCEEEEEEECSSCEEECSTTTTCCBCCHHHHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCCccCcCCcc-ccccceEEEeecCCcchhheeccCCcccCCHHHHHHHHHHHHhhh
Confidence            4568999999999999999999998763222221 22110                                        


Q ss_pred             -----------E-EEEEecCCeeEEEEecCCCcccc----hhhhhHHHHHHHHHHc-cCccEEEEEEeCCCCchhHHH-H
Q 025346          154 -----------I-LGICSGPEYQMILYDTPGIIEKK----IHMLDSMMMKNVRSAG-INADCIVVLVDACKAPERIDE-I  215 (254)
Q Consensus       154 -----------~-~~~~~~~~~~~~liDtpG~~~~~----~~~~~~~~~~~~~~~~-~~~d~iv~vid~~~~~~~~~~-~  215 (254)
                                 + ..........+.|+||||+....    ...+..........++ ..+|++++|+|++......+. .
T Consensus       129 ~g~~~~is~~~i~l~I~~P~~~qL~LVDTPGi~~~~~~~qp~di~~~i~~lv~~yi~~~aDlIL~VVDAs~~~~~~d~l~  208 (772)
T 3zvr_A          129 TGTNKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALK  208 (772)
T ss_dssp             HCSTTCCCSCCEEEEEEETTCCSEEEEECCCCCCCCSSCCCCHHHHHHHHHHHHHHTSTTEEEEEEEETTSCSSSCHHHH
T ss_pred             cCCCCcccccceEEEEecCCCCceEEEECCCcccCCCCCCcHHHHHHHHHHHHHHHhcCCcEEEEEEcCCCCcchhHHHH
Confidence                       0 11111223468999999987632    1111222223333333 688999999999885543333 2


Q ss_pred             HHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          216 LEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       216 ~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      +...+.  ..+.|+++|+||+|++++..
T Consensus       209 ll~~L~--~~g~pvIlVlNKiDlv~~~~  234 (772)
T 3zvr_A          209 IAKEVD--PQGQRTIGVITKLDLMDEGT  234 (772)
T ss_dssp             HHHHHC--TTCSSEEEEEECTTSSCTTC
T ss_pred             HHHHHH--hcCCCEEEEEeCcccCCcch
Confidence            333333  34689999999999987644

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=99.34  E-value=3.5e-12  Score=117.91  Aligned_cols=117  Identities=20%  Similarity=0.225  Sum_probs=81.7

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccc-----cc----------cC------CCCceEEEEEEEEecCCeeEEEEecCC
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLS-----IV----------TN------KPQTTRHRILGICSGPEYQMILYDTPG  172 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~-----~~----------~~------~~~tt~~~~~~~~~~~~~~~~liDtpG  172 (254)
                      +.++++|+|+.++|||||..+++...-.     .+          .+      ..+.|.......+.+.+..++|+||||
T Consensus        30 r~RNiaIiaHvdaGKTTLtE~lL~~tG~i~~~G~V~~~~~~~~~~~D~~~~EreRGITI~s~~~~~~~~~~~iNlIDTPG  109 (548)
T 3vqt_A           30 RRRTFAIISHPDAGKTTLTEKLLLFGGAIQMAGSVKARKAARHATSDWMAMERERGISVTTSVMQFPYRDRVVNLLDTPG  109 (548)
T ss_dssp             TEEEEEEECCTTSSHHHHHHHHHHHTTCHHHHHHHHHC--------------------CTTTEEEEEETTEEEEEECCCC
T ss_pred             ccceEEEEeCCCCCHHHHHHHHHHhcCcccccceeecCccccccccCChHHHHHCCCcEeeceEEEEECCEEEEEEeCCC
Confidence            4678999999999999999999732110     01          11      112222222334678899999999999


Q ss_pred             CcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          173 IIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      +.+..         ....+.++-+|++|+|+|+..+.+.....+.....  ..++|.++++||+|....
T Consensus       110 HvDF~---------~Ev~raL~~~DgAvlVvda~~GV~~qT~~v~~~a~--~~~lp~i~fINK~Dr~~a  167 (548)
T 3vqt_A          110 HQDFS---------EDTYRVLTAVDSALVVIDAAKGVEAQTRKLMDVCR--MRATPVMTFVNKMDREAL  167 (548)
T ss_dssp             GGGCS---------HHHHHHHHSCSEEEEEEETTTBSCHHHHHHHHHHH--HTTCCEEEEEECTTSCCC
T ss_pred             cHHHH---------HHHHHHHHhcCceEEEeecCCCcccccHHHHHHHH--HhCCceEEEEecccchhc
Confidence            87765         33445578899999999999987666554444333  357999999999999764

>2qag_C Septin-7; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=99.32  E-value=2.2e-11  Score=108.76  Aligned_cols=130  Identities=18%  Similarity=0.240  Sum_probs=70.8

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccC------CCCceEEEEEE-EEe--cCCeeEEEEecCCCcccch-----hh
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTN------KPQTTRHRILG-ICS--GPEYQMILYDTPGIIEKKI-----HM  180 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~------~~~tt~~~~~~-~~~--~~~~~~~liDtpG~~~~~~-----~~  180 (254)
                      ..+|+++|++|+|||||++.+++..+.....      ...++.....+ ...  .....+.+|||+|+.....     ..
T Consensus        31 sf~I~lvG~sGaGKSTLln~L~g~~~~~~~~~~~~~~~~~t~~~~~i~~v~q~~~~~~~Ltv~Dt~g~~~~~~~~~~~~~  110 (418)
T 2qag_C           31 EFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSNCWQP  110 (418)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHTTCCCCCCCCCSCC-----CCEEEEEECC------CEEEEEEECC-----------CHH
T ss_pred             CEEEEEECCCCCcHHHHHHHHhCCCCCCCCCCCcccCCccceeeeeEEEEEecCCcccceeeeechhhhhhccchhhHHH
Confidence            3578999999999999999999876531210      11222211111 112  2234789999999864321     11


Q ss_pred             hhHHHHHHHHHH-----------ccC--ccEEEEEEeCC-CCchhHHH-HHHHhhcccCCCCCEEEEEecCCCCChHhHH
Q 025346          181 LDSMMMKNVRSA-----------GIN--ADCIVVLVDAC-KAPERIDE-ILEEGVGDHKDKLPILLVLNKKDLIKPGEIA  245 (254)
Q Consensus       181 ~~~~~~~~~~~~-----------~~~--~d~iv~vid~~-~~~~~~~~-~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~  245 (254)
                      +.......+..+           +..  +++++|+++.+ .++...+. ++..+ .   .+.|+++|+||+|+..++++.
T Consensus       111 i~~~i~~~~~~~l~qr~~IaRal~~d~~~~vlL~ldePt~~~L~~~d~~~lk~L-~---~~v~iIlVinK~Dll~~~ev~  186 (418)
T 2qag_C          111 VIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRL-H---EKVNIIPLIAKADTLTPEECQ  186 (418)
T ss_dssp             HHHHHHHHHHHHTTTSCC-CCCCCCCC-CCEEEEECCC-CCSCCHHHHHHHHHH-T---TTSEEEEEEESTTSSCHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhccCCCeeEEEEEecCcccCCCHHHHHHHHHH-h---ccCcEEEEEEcccCccHHHHH
Confidence            111111222222           223  44567777665 56666653 44333 2   378999999999999988776


Q ss_pred             HHH
Q 025346          246 KKL  248 (254)
Q Consensus       246 ~~~  248 (254)
                      ...
T Consensus       187 ~~k  189 (418)
T 2qag_C          187 QFK  189 (418)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            543

>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=99.31  E-value=1.1e-11  Score=117.07  Aligned_cols=116  Identities=24%  Similarity=0.166  Sum_probs=78.4

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCcccc-----c------cC------CCCceEEEEEEEEecCCeeEEEEecCCCcc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSI-----V------TN------KPQTTRHRILGICSGPEYQMILYDTPGIIE  175 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~-----~------~~------~~~tt~~~~~~~~~~~~~~~~liDtpG~~~  175 (254)
                      .+..+++++|++|+|||||++++++.....     +      .+      ..+.|.......+.+....+.+|||||..+
T Consensus         7 ~~~~~i~IiG~~gaGKTTLl~~L~~~~~~~~~~G~V~~g~~~~d~~~~e~~~giti~~~~~~~~~~~~~~nliDTpG~~~   86 (665)
T 2dy1_A            7 AMIRTVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLFRGHRVFLLDAPGYGD   86 (665)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEETTEEEEEEECCCSGG
T ss_pred             CCCcEEEEECCCCChHHHHHHHHHHhcCCCCccceecCCcccccCCHHHHhcCCeEEecceEEeeCCEEEEEEeCCCccc
Confidence            456789999999999999999998432210     0      00      012233333344556788999999999643


Q ss_pred             cchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCC
Q 025346          176 KKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLI  239 (254)
Q Consensus       176 ~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~  239 (254)
                      ..         ..+..++..+|++++|+|++++.......+.....  ..++|+++|+||+|+.
T Consensus        87 f~---------~~~~~~l~~ad~~ilVvD~~~g~~~qt~~~~~~~~--~~~ip~ilv~NKiD~~  139 (665)
T 2dy1_A           87 FV---------GEIRGALEAADAALVAVSAEAGVQVGTERAWTVAE--RLGLPRMVVVTKLDKG  139 (665)
T ss_dssp             GH---------HHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHH--HTTCCEEEEEECGGGC
T ss_pred             hH---------HHHHHHHhhcCcEEEEEcCCcccchhHHHHHHHHH--HccCCEEEEecCCchh
Confidence            21         33445577899999999998866544333333232  2478999999999997

>1udx_A The GTP-binding protein OBG; TGS domain, riken structural genomics/proteomics initiative, RSGI, structural genomics; 2.07A {Thermus thermophilus} SCOP: b.117.1.1 c.37.1.8 d.242.1.1

Probab=99.30  E-value=6.2e-12  Score=112.29  Aligned_cols=128  Identities=26%  Similarity=0.313  Sum_probs=87.6

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCC-eeEEEEecCCCcccchh--hhhHHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPE-YQMILYDTPGIIEKKIH--MLDSMMMKNVRS  191 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~-~~~~liDtpG~~~~~~~--~~~~~~~~~~~~  191 (254)
                      ...++++|++|+|||||++.+.+.... +.+++++|.....+.+...+ ..+.++||||+......  .+..    .+..
T Consensus       157 g~~VgLVG~~gAGKSTLL~~Lsg~~~~-i~~~~ftTl~p~~G~V~~~~~~~~~l~DtpGli~~a~~~~~L~~----~fl~  231 (416)
T 1udx_A          157 IADVGLVGYPNAGKSSLLAAMTRAHPK-IAPYPFTTLSPNLGVVEVSEEERFTLADIPGIIEGASEGKGLGL----EFLR  231 (416)
T ss_dssp             SCSEEEECCGGGCHHHHHHHHCSSCCE-ECCCTTCSSCCEEEEEECSSSCEEEEEECCCCCCCGGGSCCSCH----HHHH
T ss_pred             CCEEEEECCCCCcHHHHHHHHHcCCcc-ccCcccceecceeeEEEecCcceEEEEeccccccchhhhhhhhH----HHHH
Confidence            457999999999999999999987653 67788887766666666554 78999999998643211  1111    1223


Q ss_pred             HccCccEEEEEEeCC-CCchhHHHHHHHhhccc--CCCCCEEEEEecCCCCChHhHHHH
Q 025346          192 AGINADCIVVLVDAC-KAPERIDEILEEGVGDH--KDKLPILLVLNKKDLIKPGEIAKK  247 (254)
Q Consensus       192 ~~~~~d~iv~vid~~-~~~~~~~~~~~~~~~~~--~~~~piivV~nK~Dl~~~~~~~~~  247 (254)
                      ....++.+++++|++ ++...+..+..++....  ....|.++|+||+|+.....+...
T Consensus       232 ~~era~~lL~vvDls~~~~~~ls~g~~el~~la~aL~~~P~ILVlNKlDl~~~~~~~~l  290 (416)
T 1udx_A          232 HIARTRVLLYVLDAADEPLKTLETLRKEVGAYDPALLRRPSLVALNKVDLLEEEAVKAL  290 (416)
T ss_dssp             HHTSSSEEEEEEETTSCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTSCHHHHHHH
T ss_pred             HHHHHHhhhEEeCCccCCHHHHHHHHHHHHHHhHHhhcCCEEEEEECCChhhHHHHHHH
Confidence            457899999999996 33444444443332211  125799999999999887433333

>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=99.30  E-value=3.2e-12  Score=123.64  Aligned_cols=114  Identities=22%  Similarity=0.297  Sum_probs=73.8

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccC---------------CCCceEEEEEE--EE--------------ecCC
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTN---------------KPQTTRHRILG--IC--------------SGPE  162 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~---------------~~~tt~~~~~~--~~--------------~~~~  162 (254)
                      ..++|+++|..++|||||+++++.........               ..+.|......  .+              +..+
T Consensus        18 ~~rnI~IiG~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~D~~~~E~~rgiTI~~~~~~~~~~~~~~~~~~i~~~~~~~~   97 (842)
T 1n0u_A           18 NVRNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGNS   97 (842)
T ss_dssp             GEEEEEEECCGGGTHHHHHHHHHHHHBCCBC------------------CCCBCCCEEEEEEECCHHHHHHCSSCCCSSE
T ss_pred             cccEEEEECCCCCCHHHHHHHHHHhcCCcccccCCCceeecCchhhhhcceeEeeceeEEEecccccccccccccccCCC
Confidence            35689999999999999999998653211111               11112111111  11              1236


Q ss_pred             eeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHH-HHHHhhcccCCCCCEEEEEecCCCC
Q 025346          163 YQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDE-ILEEGVGDHKDKLPILLVLNKKDLI  239 (254)
Q Consensus       163 ~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~-~~~~~~~~~~~~~piivV~nK~Dl~  239 (254)
                      ..+.+|||||+.+..         ..+..+++.+|++|+|+|++++...... .+....   ..++|+++|+||+|+.
T Consensus        98 ~~i~liDTPG~~df~---------~~~~~~l~~aD~ailVvDa~~g~~~qt~~~~~~~~---~~~~p~ilviNK~D~~  163 (842)
T 1n0u_A           98 FLINLIDSPGHVDFS---------SEVTAALRVTDGALVVVDTIEGVCVQTETVLRQAL---GERIKPVVVINKVDRA  163 (842)
T ss_dssp             EEEEEECCCCCCSSC---------HHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHH---HTTCEEEEEEECHHHH
T ss_pred             ceEEEEECcCchhhH---------HHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHH---HcCCCeEEEEECCCcc
Confidence            789999999976543         2344557899999999999986443332 233222   2468999999999987

>1jal_A YCHF protein; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; 2.40A {Haemophilus influenzae} SCOP: c.37.1.8 d.15.10.2

Probab=99.24  E-value=5.1e-12  Score=110.71  Aligned_cols=90  Identities=23%  Similarity=0.269  Sum_probs=62.0

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCC-----------------eeEEEEecCCCcccc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPE-----------------YQMILYDTPGIIEKK  177 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~-----------------~~~~liDtpG~~~~~  177 (254)
                      ..+++++|.+|+|||||+|++.+... .+.++|++|.....+.+..++                 ..+.+|||||+....
T Consensus         2 ~~kI~IVG~pnvGKSTL~n~Lt~~~~-~v~~~p~tTi~p~~g~v~~~~~r~~~l~~~~~~~~~~~~~i~lvDtpGl~~~a   80 (363)
T 1jal_A            2 GFKCGIVGLPNVGKSTLFNALTKAGI-EAANYPFCTIEPNTGVVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVAGA   80 (363)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTC-------CCCCCCCCSSEEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCTTH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCCC-cccCCCCceECceEEEEecCCcccceeeeeecccceeeeEEEEEECCCCcccc
Confidence            35799999999999999999998874 477888888766555554443                 469999999976432


Q ss_pred             hhhhhHHHHHHHHHHccCccEEEEEEeCCC
Q 025346          178 IHMLDSMMMKNVRSAGINADCIVVLVDACK  207 (254)
Q Consensus       178 ~~~~~~~~~~~~~~~~~~~d~iv~vid~~~  207 (254)
                      ..  .......+..+++.+|++++|+|+++
T Consensus        81 ~~--~~gl~~~fl~~ir~ad~il~VvD~~~  108 (363)
T 1jal_A           81 SK--GEGLGNKFLANIRETDAIGHVVRCFE  108 (363)
T ss_dssp             HH--HGGGTCCHHHHHHTCSEEEEEEECSC
T ss_pred             cc--cchHHHHHHHHHHhcCeEEEEEecCC
Confidence            11  01111234456789999999999986

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=99.24  E-value=5.7e-12  Score=110.58  Aligned_cols=115  Identities=22%  Similarity=0.291  Sum_probs=69.8

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhc------CccccccCCCCceEE-------------------EEEE-----------
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIG------QKLSIVTNKPQTTRH-------------------RILG-----------  156 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~------~~~~~~~~~~~tt~~-------------------~~~~-----------  156 (254)
                      .+.+.|+++|.+|+|||||++.+..      .++..+...+.++..                   ....           
T Consensus        77 ~~~~~I~i~G~~G~GKSTl~~~L~~~l~~~g~kV~vi~~Dp~~~~~~g~~l~d~~~~~~~~~~~~~~i~~~~~~~~~~~~  156 (355)
T 3p32_A           77 GNAHRVGITGVPGVGKSTAIEALGMHLIERGHRVAVLAVDPSSTRTGGSILGDKTRMARLAVHPNAYIRPSPTSGTLGGV  156 (355)
T ss_dssp             CCSEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEEEC----------------CHHHHTCTTEEEECCC--CCHHHH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHHHHhCCCceEEEecCCCCCcccchhccchhhHHhhccCCCeeEEECCCCccccch
Confidence            3567899999999999999999863      232222222222210                   0000           


Q ss_pred             ---------EEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCC
Q 025346          157 ---------ICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKL  227 (254)
Q Consensus       157 ---------~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~  227 (254)
                               .+...+..+.||||||+.+..            ...+..+|++++|+|.+.....  .   . +...-.+.
T Consensus       157 ~~~t~d~i~~~~~~~~~~iiiDTpGi~~~~------------~~~~~~aD~vl~V~d~~~~~~~--~---~-l~~~~~~~  218 (355)
T 3p32_A          157 TRATRETVVLLEAAGFDVILIETVGVGQSE------------VAVANMVDTFVLLTLARTGDQL--Q---G-IKKGVLEL  218 (355)
T ss_dssp             HHHHHHHHHHHHHTTCCEEEEEECSCSSHH------------HHHHTTCSEEEEEEESSTTCTT--T---T-CCTTSGGG
T ss_pred             hHHHHHHHHHHhhCCCCEEEEeCCCCCcHH------------HHHHHhCCEEEEEECCCCCccH--H---H-HHHhHhhc
Confidence                     012246789999999975431            1225889999999998764222  1   1 11111246


Q ss_pred             CEEEEEecCCCCChHhHH
Q 025346          228 PILLVLNKKDLIKPGEIA  245 (254)
Q Consensus       228 piivV~nK~Dl~~~~~~~  245 (254)
                      |+++|+||+|+.......
T Consensus       219 p~ivVlNK~Dl~~~~~~~  236 (355)
T 3p32_A          219 ADIVVVNKADGEHHKEAR  236 (355)
T ss_dssp             CSEEEEECCCGGGHHHHH
T ss_pred             CCEEEEECCCCcChhHHH
Confidence            999999999998665443

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=99.22  E-value=2.9e-12  Score=112.96  Aligned_cols=128  Identities=23%  Similarity=0.251  Sum_probs=82.1

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCc------cccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccc--hhhhhHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQK------LSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK--IHMLDSMMM  186 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~------~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~--~~~~~~~~~  186 (254)
                      ..+++++|.+|+|||||+|++++..      ...++..+++|.......+..   .+.++||||+....  .+.+..   
T Consensus       160 ~~~i~~vG~~nvGKStliN~L~~~~~~~~~~~~~~~~~~gtT~~~~~~~~~~---~~~liDtPG~~~~~~~~~~l~~---  233 (368)
T 3h2y_A          160 GKDVYVVGCTNVGKSTFINRMIKEFSDETENVITTSHFPGTTLDLIDIPLDE---ESSLYDTPGIINHHQMAHYVGK---  233 (368)
T ss_dssp             TSCEEEEEBTTSSHHHHHHHHHHHHTTSCSSCCEEECCC----CEEEEESSS---SCEEEECCCBCCTTSGGGGSCH---
T ss_pred             cceEEEecCCCCChhHHHHHHHhhhccccccceecCCCCCeecceEEEEecC---CeEEEeCCCcCcHHHHHHHhhH---
Confidence            3579999999999999999999753      334678889998766654332   38999999987643  122222   


Q ss_pred             HHHHHH--ccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHHHHHHHh
Q 025346          187 KNVRSA--GINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLEVTT  252 (254)
Q Consensus       187 ~~~~~~--~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~~~~~~~  252 (254)
                      +.....  ....+.++|+++....  ...+..  .+.+.  ..+.|+++|+||+|..+..+.+...+.++
T Consensus       234 ~~l~~~~~~~~i~~~~~~l~~~~~~~~g~l~~--~d~l~--~~~~~~~~v~nk~d~~~~~~~~~~~~~~~  299 (368)
T 3h2y_A          234 QSLKLITPTKEIKPMVFQLNEEQTLFFSGLAR--FDYVS--GGRRAFTCHFSNRLTIHRTKLEKADELYK  299 (368)
T ss_dssp             HHHHHHSCSSCCCCEEEEECTTEEEEETTTEE--EEEEE--SSSEEEEEEECTTSCEEEEEHHHHHHHHH
T ss_pred             HHHHHhccccccCceEEEEcCCCEEEEcceEE--EEEec--CCCceEEEEecCccccccccHHHHHHHHH
Confidence            222222  4678899999998532  111110  11122  34689999999999998877766655543

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=99.21  E-value=1.5e-12  Score=114.80  Aligned_cols=126  Identities=22%  Similarity=0.275  Sum_probs=83.7

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcC-----ccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccc--hhhhhHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQ-----KLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK--IHMLDSMMMK  187 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~-----~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~--~~~~~~~~~~  187 (254)
                      ..+++++|.+|+|||||+|.+++.     ....+++.+++|..........   .+.++||||+....  .+.+...   
T Consensus       162 ~~~i~~vG~~nvGKStliN~L~~~~~~~~~~~~~~~~~gtT~~~~~~~~~~---~~~liDtPG~~~~~~~~~~l~~~---  235 (369)
T 3ec1_A          162 GGDVYVVGCTNVGKSTFINRIIEEATGKGNVITTSYFPGTTLDMIEIPLES---GATLYDTPGIINHHQMAHFVDAR---  235 (369)
T ss_dssp             TSCEEEECCTTSSHHHHHHHHHHHHHHTTCCCEEEECTTSSCEEEEEECST---TCEEEECCSCCCCSSGGGGSCTT---
T ss_pred             cCcEEEEcCCCCchHHHHHHHHhhccCCccceeecCCCCeEEeeEEEEeCC---CeEEEeCCCcCcHHHHHHHHhHH---
Confidence            357999999999999999999986     4445788999998876654332   38999999987543  1112111   


Q ss_pred             HHHHH--ccCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHHHHHH
Q 025346          188 NVRSA--GINADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLEV  250 (254)
Q Consensus       188 ~~~~~--~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~~~~~  250 (254)
                      .....  ....+.++|+++....  ...+..  .+.+.  ..+.|+++++||+|..+..+++...+.
T Consensus       236 ~l~~~~~~~~i~~~~~~l~~~~~~~~g~l~~--l~~l~--~~~~~~~~v~~k~d~~~~~~~~~~~~~  298 (369)
T 3ec1_A          236 DLKIITPKREIHPRVYQLNEGQTLFFGGLAR--LDYIK--GGRRSFVCYMANELTVHRTKLEKADSL  298 (369)
T ss_dssp             THHHHSCSSCCCCEEEEECTTEEEEETTTEE--EEEEE--SSSEEEEEEECTTSCEEEEEGGGHHHH
T ss_pred             HHHHHhcccccCceEEEEcCCceEEECCEEE--EEEcc--CCCceEEEEecCCcccccccHHHHHHH
Confidence            11122  2678999999998542  111111  11122  346899999999999877655544443

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=99.20  E-value=1.8e-11  Score=106.86  Aligned_cols=115  Identities=21%  Similarity=0.336  Sum_probs=69.1

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhc------CccccccCCCCceEE--------------------EEEEE---------
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIG------QKLSIVTNKPQTTRH--------------------RILGI---------  157 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~------~~~~~~~~~~~tt~~--------------------~~~~~---------  157 (254)
                      .+...++++|++|+||||+++.+.+      .+...+...+.++..                    .+...         
T Consensus        54 ~~~~~i~i~G~~g~GKSTl~~~l~~~~~~~~~~v~v~~~d~~~~~~~~~il~d~~~~~~~~~~~~~~i~~~~~~~~l~g~  133 (341)
T 2p67_A           54 GNTLRLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIAVDPSSPVTGGSILGDKTRMNDLARAEAAFIRPVPSSGHLGGA  133 (341)
T ss_dssp             SCSEEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC---------------CTTTTCTTEEEEEECC-----CH
T ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEEeecCCcCCCCcceecccchHHhhccCCCceeecCccccccchh
Confidence            4567899999999999999999963      333333333333220                    00000         


Q ss_pred             ----------EecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCC
Q 025346          158 ----------CSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKL  227 (254)
Q Consensus       158 ----------~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~  227 (254)
                                +...+..+.+|||||+.+...            .....+|++++|+|++.... .    .. +.....+.
T Consensus       134 ~~~~~~~~~~~~~~~~~i~liDTpG~~~~~~------------~~~~~aD~vl~Vvd~~~~~~-~----~~-l~~~~~~~  195 (341)
T 2p67_A          134 SQRARELMLLCEAAGYDVVIVETVGVGQSET------------EVARMVDCFISLQIAGGGDD-L----QG-IKKGLMEV  195 (341)
T ss_dssp             HHHHHHHHHHHHHTTCSEEEEEEECCTTHHH------------HHHTTCSEEEEEECC-----------CC-CCHHHHHH
T ss_pred             HHHHHHHHHHhhccCCCEEEEeCCCccchHH------------HHHHhCCEEEEEEeCCccHH-H----HH-HHHhhhcc
Confidence                      013467899999999764321            12478999999999975321 0    00 00000146


Q ss_pred             CEEEEEecCCCCChHhHH
Q 025346          228 PILLVLNKKDLIKPGEIA  245 (254)
Q Consensus       228 piivV~nK~Dl~~~~~~~  245 (254)
                      |.++|+||+|+.......
T Consensus       196 p~ivv~NK~Dl~~~~~~~  213 (341)
T 2p67_A          196 ADLIVINKDDGDNHTNVA  213 (341)
T ss_dssp             CSEEEECCCCTTCHHHHH
T ss_pred             cCEEEEECCCCCChHHHH
Confidence            889999999998765443

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=99.20  E-value=8.2e-12  Score=109.34  Aligned_cols=112  Identities=23%  Similarity=0.239  Sum_probs=64.8

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcC------ccccccCCCCceE-------------------------EEEEEEE---
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQ------KLSIVTNKPQTTR-------------------------HRILGIC---  158 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~------~~~~~~~~~~tt~-------------------------~~~~~~~---  158 (254)
                      .....++++|++|+|||||+|++++.      ++......+.+..                         ....+.+   
T Consensus        72 ~~~~~v~lvG~pgaGKSTLln~L~~~~~~~~~~v~V~~~dp~~~~~~g~~l~d~~rm~~~~~~~~~~v~~~~~~~~lgg~  151 (349)
T 2www_A           72 PLAFRVGLSGPPGAGKSTFIEYFGKMLTERGHKLSVLAVDPSSCTSGGSLLGDKTRMTELSRDMNAYIRPSPTRGTLGGV  151 (349)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEECCC----------------CCSTTCTTEEEECC---------
T ss_pred             cCceEEEEEcCCCCCHHHHHHHHHHHhhhcCCeEEEEeecCCCCCcCcchhchHHHHHHhcCCCCEEEEecCCccccccc
Confidence            44678999999999999999999862      2222222222111                         0000000   


Q ss_pred             -----------ecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCC
Q 025346          159 -----------SGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKL  227 (254)
Q Consensus       159 -----------~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~  227 (254)
                                 ...+..+.++||||+....            ......+|++++|+|++.+... ......+     ...
T Consensus       152 tr~~~~~~~~~~~~~~~~iliDT~Gi~~~~------------~~l~~~~d~vl~V~d~~~~~~~-~~i~~~i-----l~~  213 (349)
T 2www_A          152 TRTTNEAILLCEGAGYDIILIETVGVGQSE------------FAVADMVDMFVLLLPPAGGDEL-QGIKRGI-----IEM  213 (349)
T ss_dssp             CTTHHHHHHHHHHTTCSEEEEECCCC--CH------------HHHHTTCSEEEEEECCC------------------CCS
T ss_pred             hHHHHHHHHhhccCCCCEEEEECCCcchhh------------hhHHhhCCEEEEEEcCCcchhH-HHhHHHH-----Hhc
Confidence                       1356789999999975331            1225689999999999864221 1111111     245


Q ss_pred             CEEEEEecCCCCChH
Q 025346          228 PILLVLNKKDLIKPG  242 (254)
Q Consensus       228 piivV~nK~Dl~~~~  242 (254)
                      |.++|+||+|+.+..
T Consensus       214 ~~ivVlNK~Dl~~~~  228 (349)
T 2www_A          214 ADLVAVTKSDGDLIV  228 (349)
T ss_dssp             CSEEEECCCSGGGHH
T ss_pred             CCEEEEeeecCCCch
Confidence            889999999998654

>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC, mitosis, GDP, C cycle, cell division, GTP-binding, nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB: 2qa5_A* 3ftq_A*

Probab=99.20  E-value=8.3e-11  Score=100.88  Aligned_cols=128  Identities=19%  Similarity=0.195  Sum_probs=65.1

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCC-------CCceE-EEEEEEE--ecCCeeEEEEecCCCccc-----chh
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNK-------PQTTR-HRILGIC--SGPEYQMILYDTPGIIEK-----KIH  179 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~-------~~tt~-~~~~~~~--~~~~~~~~liDtpG~~~~-----~~~  179 (254)
                      ..+|+++|++|+|||||++++++......+..       ..+.. .......  ......+.+|||+|+...     .+.
T Consensus        18 ~~~I~lvG~nG~GKSTLl~~L~g~~~~~~~gi~~~g~~~~~t~~~~~~~~~~q~~~~~~~ltv~Dt~g~~~~~~~~e~~~   97 (301)
T 2qnr_A           18 EFTLMVVGESGLGKSTLINSLFLTDLYPERVISGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCRDCFK   97 (301)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHHC------------------------CEEEEC---CCEEEEEEEEC-----------CT
T ss_pred             CEEEEEECCCCCCHHHHHHHHhCCCccCCCCcccCCcccCCcceEeeEEEEecCCCcccCcchhhhhhhhhhcCcHHHHH
Confidence            45789999999999999999987632212111       11111 1111112  223457999999997421     122


Q ss_pred             hhhHHHHHHHHHHcc-------------CccEEEEEEeCCC-CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHH
Q 025346          180 MLDSMMMKNVRSAGI-------------NADCIVVLVDACK-APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIA  245 (254)
Q Consensus       180 ~~~~~~~~~~~~~~~-------------~~d~iv~vid~~~-~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~  245 (254)
                      .+..........++.             .+++++|+++.+. +++....   .+++....+.|+++|+||+|+..++++.
T Consensus        98 ~l~~~l~~~~~~~~~~~sgg~rqrv~~ara~~ll~ldePt~~~Ld~~~~---~~l~~l~~~~~iilV~~K~Dl~~~~e~~  174 (301)
T 2qnr_A           98 TIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPFGHGLKPLDV---AFMKAIHNKVNIVPVIAKADTLTLKERE  174 (301)
T ss_dssp             THHHHHHHHHHHHHHHHTSSCCTTCCCCCCCEEEEEECSSSSSCCHHHH---HHHHHHTTTSCEEEEECCGGGSCHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhCHHhhhhhhhhhhhheeeeecCcccCCCHHHH---HHHHHHHhcCCEEEEEEeCCCCCHHHHH
Confidence            222211111111111             2455777777544 4665543   2222233567999999999999876654

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=99.18  E-value=3.1e-10  Score=101.24  Aligned_cols=137  Identities=15%  Similarity=0.210  Sum_probs=77.8

Q ss_pred             CCCcE--EEEEeCCCCChHHHHHHHhcCcccc--c-cCCCCceEEEEEEEEecCC--eeEEEEecCCCcccch-----hh
Q 025346          113 HKSGY--VAVLGKPNVGKSTLANQMIGQKLSI--V-TNKPQTTRHRILGICSGPE--YQMILYDTPGIIEKKI-----HM  180 (254)
Q Consensus       113 ~~~~~--~~~~G~~~~gKssl~~~~~~~~~~~--~-~~~~~tt~~~~~~~~~~~~--~~~~liDtpG~~~~~~-----~~  180 (254)
                      ..+..  ++++|++|+|||||+|.+++..+..  . ...++.+...+.......+  ..+.++|++|+.....     ..
T Consensus        38 ~~Gei~~vaLvG~nGaGKSTLln~L~G~~l~g~~~~~~~~~~~~~~i~~v~Q~~~l~~~ltv~D~~~~g~~~~~~~~~~~  117 (427)
T 2qag_B           38 SQGFCFNILCVGETGLGKSTLMDTLFNTKFEGEPATHTQPGVQLQSNTYDLQESNVRLKLTIVSTVGFGDQINKEDSYKP  117 (427)
T ss_dssp             C-CCEEEEEEECSTTSSSHHHHHHHHTSCC-------CCSSCEEEEEEEEEEC--CEEEEEEEEEECCCC-CCHHHHSHH
T ss_pred             cCCCeeEEEEECCCCCCHHHHHHHHhCccccCCcCCCCCccceEeeEEEEeecCccccccchhhhhhhhhccccchhhhH
Confidence            34445  9999999999999999999875321  1 1123344433333333333  3689999999865321     11


Q ss_pred             hhHHHHHHH----HHHc---------cCc--c-EEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhH
Q 025346          181 LDSMMMKNV----RSAG---------INA--D-CIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEI  244 (254)
Q Consensus       181 ~~~~~~~~~----~~~~---------~~~--d-~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~  244 (254)
                      +.......+    ..+.         ..+  | +++|++|+..+....+..+...+   ..+.|+|+|.||+|.+.+.++
T Consensus       118 i~~~i~~q~~~~L~e~~~i~r~l~~~~d~rVh~~v~fI~d~~~~l~~~Dieilk~L---~~~~~vI~Vi~KtD~Lt~~E~  194 (427)
T 2qag_B          118 IVEFIDAQFEAYLQEELKIRRVLHTYHDSRIHVCLYFIAPTGHSLKSLDLVTMKKL---DSKVNIIPIIAKADAISKSEL  194 (427)
T ss_dssp             HHHHHHHHHHHHHHHC--CCCCCCCSCC--CCEEEEEECCCC---CHHHHHHHHHT---CSCSEEEEEESCGGGSCHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhhhhhhcccccccccEEEEEEeCCCCCCCHHHHHHHHHH---hhCCCEEEEEcchhccchHHH
Confidence            111111221    1111         112  2 46667777776666654443333   357899999999999999888


Q ss_pred             HHHHHHHh
Q 025346          245 AKKLEVTT  252 (254)
Q Consensus       245 ~~~~~~~~  252 (254)
                      ......+.
T Consensus       195 ~~l~~~I~  202 (427)
T 2qag_B          195 TKFKIKIT  202 (427)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            76665553

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=99.15  E-value=9.5e-11  Score=111.56  Aligned_cols=118  Identities=18%  Similarity=0.147  Sum_probs=76.9

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccc-----cccC------------CCCceEEEEEEEEec-------CCeeEEEE
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLS-----IVTN------------KPQTTRHRILGICSG-------PEYQMILY  168 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~-----~~~~------------~~~tt~~~~~~~~~~-------~~~~~~li  168 (254)
                      .+.++++|+|+.++|||||..+++...-.     .+..            ..+.|.......+.+       .+..++++
T Consensus        11 ~~IRNi~IiaHvd~GKTTL~d~LL~~~g~i~~~g~v~~~~~~~D~~~~E~eRGITI~s~~~s~~~~~~~~~~~~~~iNlI   90 (709)
T 4fn5_A           11 NRYRNIGICAHVDAGKTTTTERVLFYTGVNHKLGEVHDGAATTDWMVQEQERGITITSAAVTTFWKGSRGQYDNYRVNVI   90 (709)
T ss_dssp             GGEEEEEEECCSSSCHHHHHHHHHHHHHHHHHC------------------------CCEEEEEECCTTSCSCCEEEEEE
T ss_pred             HHCeEEEEEcCCCCCHHHHHHHHHHhcCCCCcCceecCCCccCCChHHHHHcCCeEEeeeEEEEeccCcCCCCCEEEEEE
Confidence            44578999999999999999999743211     1111            011111111111222       35789999


Q ss_pred             ecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          169 DTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       169 DtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      ||||+.+..         ....+.++-+|++|+|+|+..+.+...+.+.....  ..++|.++|+||+|....
T Consensus        91 DTPGHvDF~---------~Ev~~aLr~~DgavlvVDaveGV~~qT~~v~~~a~--~~~lp~i~~iNKiDr~~a  152 (709)
T 4fn5_A           91 DTPGHVDFT---------IEVERSLRVLDGAVVVFCGTSGVEPQSETVWRQAN--KYGVPRIVYVNKMDRQGA  152 (709)
T ss_dssp             CCCSCTTCH---------HHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHH--HHTCCEEEEEECSSSTTC
T ss_pred             eCCCCcccH---------HHHHHHHHHhCeEEEEEECCCCCchhHHHHHHHHH--HcCCCeEEEEccccccCc
Confidence            999987765         33445577899999999999987665544333332  247999999999999754

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=99.15  E-value=1.6e-11  Score=115.49  Aligned_cols=116  Identities=20%  Similarity=0.199  Sum_probs=80.4

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccc-----ccc------CCC------CceEEEEEEEEecCCeeEEEEecCCCcccc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLS-----IVT------NKP------QTTRHRILGICSGPEYQMILYDTPGIIEKK  177 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~-----~~~------~~~------~tt~~~~~~~~~~~~~~~~liDtpG~~~~~  177 (254)
                      .++|+++|+.++|||||..+++...-.     .+.      +..      +.|.......+.+.+..++++||||+.+..
T Consensus         2 IRNi~IiaHvD~GKTTL~e~LL~~~G~i~~~g~v~~g~~~~D~~~~EreRGITI~s~~~~~~~~~~~iNlIDTPGH~DF~   81 (638)
T 3j25_A            2 IINIGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGITSFQWENTKVNIIDTPGHMDFL   81 (638)
T ss_dssp             CCCCEEECCSTTSSHHHHHHHHHHHTCCSSCSSCCCSCCSTTCSTTHHHHSSCSSCCCCCCBCSSCBCCCEECCCSSSTH
T ss_pred             eeEEEEEcCCCCCHHHHHHHHHHHcCCCccccccccCCcccCCcHHHHhCCCcEEeeeEEEEECCEEEEEEECCCcHHHH
Confidence            457999999999999999999732111     011      110      222222333456788999999999987764


Q ss_pred             hhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          178 IHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       178 ~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                               ....+.++-+|++|+|+|+..+.+.....+.....  ..++|.++++||+|....
T Consensus        82 ---------~Ev~raL~~~DgavlVVDa~~GV~~qT~~v~~~a~--~~~lp~i~~INKmDr~~a  134 (638)
T 3j25_A           82 ---------AEVYRSLSVLDGAILLISAKDGVQAQTRILFHALR--KMGIPTIFFINKIDQNGI  134 (638)
T ss_dssp             ---------HHHHHHHTTCSEEECCEESSCTTCSHHHHHHHHHH--HHTCSCEECCEECCSSSC
T ss_pred             ---------HHHHHHHHHhCEEEEEEeCCCCCcHHHHHHHHHHH--HcCCCeEEEEeccccccC
Confidence                     33445578999999999999987655444333333  236899999999999754

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=99.09  E-value=6.8e-10  Score=93.71  Aligned_cols=133  Identities=17%  Similarity=0.293  Sum_probs=75.9

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCcccccc-------CCCCceEEEEEEEE-ecC--CeeEEEEecCCCcccch-----hh
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVT-------NKPQTTRHRILGIC-SGP--EYQMILYDTPGIIEKKI-----HM  180 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~-------~~~~tt~~~~~~~~-~~~--~~~~~liDtpG~~~~~~-----~~  180 (254)
                      .+++++|++|+|||||+|.+++...+..+       +.+.+......+.+ ...  ...+.++|++|+.....     ..
T Consensus         3 f~v~lvG~nGaGKSTLln~L~g~~~~~~G~i~~~g~~i~~~~~~~~i~~v~q~~~~~~~ltv~d~~~~g~~~~~~~~~~~   82 (270)
T 3sop_A            3 FNIMVVGQSGLGKSTLVNTLFKSQVSRKASSWNREEKIPKTVEIKAIGHVIEEGGVKMKLTVIDTPGFGDQINNENCWEP   82 (270)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHHHHC------------CCCCCSCCEEEESCC----CCEEEEECCCC--CCSBCTTCSHH
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCCCCCCCccccCCcccCcceeeeeeEEEeecCCCcCCceEEechhhhhhcccHHHHHH
Confidence            47999999999999999999975432111       11122211112221 111  23689999999865321     11


Q ss_pred             hhHHHHHHHH----HH----------ccCccEEEEEEeCC-CCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHH
Q 025346          181 LDSMMMKNVR----SA----------GINADCIVVLVDAC-KAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIA  245 (254)
Q Consensus       181 ~~~~~~~~~~----~~----------~~~~d~iv~vid~~-~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~  245 (254)
                      +.......+.    ..          ...+++.++++|.. .+....+..+...+.   ...++++|+||+|.+.++++.
T Consensus        83 i~~~~~~~~~~~~~~~LS~G~~qrv~iaRal~~lllldep~~gL~~lD~~~l~~L~---~~~~vI~Vi~K~D~lt~~e~~  159 (270)
T 3sop_A           83 IEKYINEQYEKFLKEEVNIARKKRIPDTRVHCCLYFISPTGHSLRPLDLEFMKHLS---KVVNIIPVIAKADTMTLEEKS  159 (270)
T ss_dssp             HHHHHHHHHHHHHHHHSCTTCCSSCCCCSCCEEEEEECCCSSSCCHHHHHHHHHHH---TTSEEEEEETTGGGSCHHHHH
T ss_pred             HHHHHHHHHHhhhHHhcCcccchhhhhheeeeeeEEEecCCCcCCHHHHHHHHHHH---hcCcEEEEEeccccCCHHHHH
Confidence            2222211211    11          22368889999965 566665544333333   228999999999999998876


Q ss_pred             HHHHHH
Q 025346          246 KKLEVT  251 (254)
Q Consensus       246 ~~~~~~  251 (254)
                      .....+
T Consensus       160 ~~k~~i  165 (270)
T 3sop_A          160 EFKQRV  165 (270)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            655444

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}

Probab=99.08  E-value=8.8e-11  Score=103.89  Aligned_cols=91  Identities=23%  Similarity=0.216  Sum_probs=53.0

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCC-----------------eeEEEEecCCCccc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPE-----------------YQMILYDTPGIIEK  176 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~-----------------~~~~liDtpG~~~~  176 (254)
                      ...+++++|.+|+|||||+|++.+.++ .++++|++|.....+.+...+                 ..+.+|||||+...
T Consensus        21 ~~~kvgIVG~pnvGKSTL~n~Ltg~~~-~~~~~p~tTi~p~~g~v~v~~~r~~~l~~~~~p~~~~~~~i~lvDtpGl~~~   99 (396)
T 2ohf_A           21 TSLKIGIVGLPNVGKSTFFNVLTNSQA-SAENFPFCTIDPNESRVPVPDERFDFLCQYHKPASKIPAFLNVVDIAGLVKG   99 (396)
T ss_dssp             SCCCEEEECCSSSSHHHHHHHHHC--------------CCSEEEEECCCHHHHHHHHHHCCSEEECCEEEEEECCC----
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCCCc-cccCCCccccCceeEEEEECCccceeeccccCcccccccccEEEECCCcccc
Confidence            456899999999999999999999877 578889888776666554432                 24999999997643


Q ss_pred             chhhhhHHHHHHHHHHccCccEEEEEEeCCC
Q 025346          177 KIHMLDSMMMKNVRSAGINADCIVVLVDACK  207 (254)
Q Consensus       177 ~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~  207 (254)
                      ...  .......+..+++.+|++++|+|+++
T Consensus       100 as~--~~glg~~~l~~ir~aD~Il~VvD~~~  128 (396)
T 2ohf_A          100 AHN--GQGLGNAFLSHISACDGIFHLTRAFE  128 (396)
T ss_dssp             ---------CCHHHHHHHTSSSEEEEEEC--
T ss_pred             cch--hhHHHHHHHHHHHhcCeEEEEEecCC
Confidence            211  11222345677899999999999864

>4fid_A G protein alpha subunit; RAS-like domain, all-helical domain, GTP binding, nucleotide signaling protein, transducer, lipoprotein; HET: MLY MSE GDP; 2.62A {Entamoeba histolytica}

Probab=99.08  E-value=3e-10  Score=98.61  Aligned_cols=78  Identities=17%  Similarity=0.133  Sum_probs=56.8

Q ss_pred             EEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCC------------CchhHHHHHHHhhcc
Q 025346          155 LGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACK------------APERIDEILEEGVGD  222 (254)
Q Consensus       155 ~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~------------~~~~~~~~~~~~~~~  222 (254)
                      ...+...+..+.+|||+|  +.       .++..|..++++++++|||+|+++            ...+...++..+...
T Consensus       153 ~~~~~~~~v~l~iwDtaG--Qe-------~~R~~w~~yy~~a~~iIfV~diS~ydq~l~e~~~~nr~~es~~~~~~i~~~  223 (340)
T 4fid_A          153 EYDFVVKDIPFHLIDVGG--QR-------SERKXWVSFFSDVDCAIFVTSLAEYDMKLYEDGNTSRLTESIAVFKDIMTN  223 (340)
T ss_dssp             EEEEESSSCEEEEEECCS--CH-------HHHHHHHTTSCSCSEEEEEEEGGGTTCBCC--CCSBHHHHHHHHHHHHHHC
T ss_pred             EEEEEeeeeeeccccCCC--cc-------cccccHHHHhccCCEEEEEEECCccccccccccccchHHHHHHHHHHHhhh
Confidence            344556778999999999  32       234567788999999999999972            233445566665543


Q ss_pred             c-CCCCCEEEEEecCCCCCh
Q 025346          223 H-KDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       223 ~-~~~~piivV~nK~Dl~~~  241 (254)
                      . ..+.|+++|+||+|+...
T Consensus       224 ~~~~~~piiLv~NK~DL~~e  243 (340)
T 4fid_A          224 EFLKGAVKLIFLNKMDLFEE  243 (340)
T ss_dssp             GGGTTSEEEEEEECHHHHHH
T ss_pred             hccCCCeEEEEEECchhhhh
Confidence            2 367999999999998653

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=99.02  E-value=2.8e-10  Score=95.02  Aligned_cols=128  Identities=21%  Similarity=0.179  Sum_probs=73.5

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHh-----cCccccccCCCCceEE------------EEEEEE-----------------
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMI-----GQKLSIVTNKPQTTRH------------RILGIC-----------------  158 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~-----~~~~~~~~~~~~tt~~------------~~~~~~-----------------  158 (254)
                      .+...+++.|.+|+||||+++.+.     +.+...+...+..+..            ......                 
T Consensus        12 ~~~~i~~~~GkgGvGKTTl~~~La~~l~~g~~v~vvd~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (262)
T 1yrb_A           12 MASMIVVFVGTAGSGKTTLTGEFGRYLEDNYKVAYVNLDTGVKELPYEPSIDVREFVTVEEIMREGYGPNGAIVESYDRL   91 (262)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHHHHTTTSCEEEEECCSSCSCCSSCCSEEGGGTCCHHHHHTTTCCHHHHHHHHHHHH
T ss_pred             cceEEEEEeCCCCCCHHHHHHHHHHHHHCCCeEEEEeCCCCccccCCCCCCChhhcccHHHHhhccCCCCCcEEecHHHH
Confidence            445688999999999999999998     6665544433321100            000000                 


Q ss_pred             ------------e-cCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHH--HHHh-hcc
Q 025346          159 ------------S-GPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEI--LEEG-VGD  222 (254)
Q Consensus       159 ------------~-~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~--~~~~-~~~  222 (254)
                                  . .....+.+|||||..+.  ...... .......+.. +++++++|+.........+  .... ...
T Consensus        92 ~~~~~~l~~~l~~~~~~~d~iiiDtpG~~~~--~~~~~l-~~~~~~~~~~-~~iv~vvD~~~~~~~~~~~~~~~~~~~~~  167 (262)
T 1yrb_A           92 MEKFNEYLNKILRLEKENDYVLIDTPGQMET--FLFHEF-GVRLMENLPY-PLVVYISDPEILKKPNDYCFVRFFALLID  167 (262)
T ss_dssp             HTTHHHHHHHHHHHHHHCSEEEEECCSSHHH--HHHSHH-HHHHHHTSSS-CEEEEEECGGGCCSHHHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHhhcCCEEEEeCCCccch--hhhhhh-HHHHHHHHhh-ceEEeccchhhhcCHHHHHHHHHHHHHHh
Confidence                        0 01247999999996432  111111 1223334566 9999999986543322211  1111 001


Q ss_pred             cCCCCCEEEEEecCCCCChHhH
Q 025346          223 HKDKLPILLVLNKKDLIKPGEI  244 (254)
Q Consensus       223 ~~~~~piivV~nK~Dl~~~~~~  244 (254)
                      ...+.|+++|+||+|+....++
T Consensus       168 ~~~~~p~~iv~NK~D~~~~~~~  189 (262)
T 1yrb_A          168 LRLGATTIPALNKVDLLSEEEK  189 (262)
T ss_dssp             HHHTSCEEEEECCGGGCCHHHH
T ss_pred             cccCCCeEEEEecccccccccH
Confidence            1236899999999999887644

>2dby_A GTP-binding protein; GDP, structural genomics, NPPSFA, natio project on protein structural and functional analyses; HET: GDP; 1.76A {Thermus thermophilus} PDB: 2dwq_A

Probab=99.01  E-value=1.2e-10  Score=102.43  Aligned_cols=87  Identities=22%  Similarity=0.284  Sum_probs=62.6

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEec---------------------CCeeEEEEecCCCc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSG---------------------PEYQMILYDTPGII  174 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~---------------------~~~~~~liDtpG~~  174 (254)
                      .+++++|.+|+|||||+|++.+.. ..+.+++++|.....+....                     .+..+.+|||||+.
T Consensus         2 ~~v~IVG~pnvGKSTL~n~L~~~~-~~v~~~p~~Ti~pn~g~~~v~~~~l~~~~~~~~~~~~~~~~~~~~i~lvDtpGl~   80 (368)
T 2dby_A            2 LAVGIVGLPNVGKSTLFNALTRAN-ALAANYPFATIDKNVGVVPLEDERLYALQRTFAKGERVPPVVPTHVEFVDIAGLV   80 (368)
T ss_dssp             CSEEEECCSSSSHHHHHHHHHHHH-TTCSSCCGGGGSTTEEEEECCCHHHHHHHHHHCBTTBCCCEECCEEEEEECCSCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCC-CcccCCCCceeccceeeEecChHHHHHHHHHhcccccccccCCceEEEEECCCcc
Confidence            468999999999999999999875 34677777776544444322                     13569999999986


Q ss_pred             ccch--hhhhHHHHHHHHHHccCccEEEEEEeCCC
Q 025346          175 EKKI--HMLDSMMMKNVRSAGINADCIVVLVDACK  207 (254)
Q Consensus       175 ~~~~--~~~~~~~~~~~~~~~~~~d~iv~vid~~~  207 (254)
                      ....  +.+.    ..+...++.+|++++|+|+++
T Consensus        81 ~~a~~~~~lg----~~fl~~ir~ad~ii~VvD~~~  111 (368)
T 2dby_A           81 KGAHKGEGLG----NQFLAHIREVAAIAHVLRCFP  111 (368)
T ss_dssp             CCCCSSSCTT----HHHHHHHHTCSEEEEEEECCC
T ss_pred             ccccccchHH----HHHHHHHHhCCEEEEEEECCC
Confidence            5321  1122    334456789999999999986

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=98.97  E-value=6.2e-10  Score=90.46  Aligned_cols=110  Identities=15%  Similarity=0.203  Sum_probs=65.3

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCc-----cccccCCCCceEE--------EEEEEE------------------ecCC
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQK-----LSIVTNKPQTTRH--------RILGIC------------------SGPE  162 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~-----~~~~~~~~~tt~~--------~~~~~~------------------~~~~  162 (254)
                      ..++++++|.+|+|||||+++++...     ...+...++++.+        ......                  ...+
T Consensus        29 ~~~~i~i~G~~g~GKTTl~~~l~~~~~~~~~~~~i~~d~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  108 (221)
T 2wsm_A           29 GTVAVNIMGAIGSGKTLLIERTIERIGNEVKIGAMLGDVVSKADYERVRRFGIKAEAISTGKECHLDAHMIYHRLKKFSD  108 (221)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHHHHHTTTSCEEEEECSCCCHHHHHHHHTTTCEEEECCCTTCSSCCHHHHHTTGGGGTT
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHHhccCCeEEEEecCCCCchhHHHHHhCCCcEEEecCCceeecccHHHHHHHHhcCC
Confidence            34689999999999999999998642     2222223322100        000111                  1234


Q ss_pred             eeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          163 YQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       163 ~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      ..+.+|||+|....+.            .+....+.+++|+|++.......... ..     .+.|+++|+||+|+.+.
T Consensus       109 ~d~iiidt~G~~~~~~------------~~~~~~~~~i~vvd~~~~~~~~~~~~-~~-----~~~~~iiv~NK~Dl~~~  169 (221)
T 2wsm_A          109 CDLLLIENVGNLICPV------------DFDLGENYRVVMVSVTEGDDVVEKHP-EI-----FRVADLIVINKVALAEA  169 (221)
T ss_dssp             CSEEEEEEEEBSSGGG------------GCCCSCSEEEEEEEGGGCTTHHHHCH-HH-----HHTCSEEEEECGGGHHH
T ss_pred             CCEEEEeCCCCCCCCc------------hhccccCcEEEEEeCCCcchhhhhhh-hh-----hhcCCEEEEecccCCcc
Confidence            5789999999422210            01125678999999987543322111 11     24789999999999643

>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=98.96  E-value=6e-10  Score=98.64  Aligned_cols=93  Identities=22%  Similarity=0.215  Sum_probs=69.1

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCC-----------------eeEEEEecCCCcc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPE-----------------YQMILYDTPGIIE  175 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~-----------------~~~~liDtpG~~~  175 (254)
                      ..+.+++++|.+|+|||||+|.+++.....++++|++|.....+.+...+                 ..+.++||||+..
T Consensus        18 ~~g~~vgiVG~pnaGKSTL~n~Ltg~~~a~~~~~p~tTi~p~~G~v~v~~~r~~~l~~~~~~~~~v~~~i~lvD~pGl~~   97 (392)
T 1ni3_A           18 GNNLKTGIVGMPNVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGLTK   97 (392)
T ss_dssp             SSCCEEEEEECSSSSHHHHHHHHHHSTTTSTTCCSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGGCC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHCCCcccccCCCceeecceeeeeeeCCcchhhhhhhcccccccCcceEEEecccccc
Confidence            34668999999999999999999998875688999998876666655443                 3589999999754


Q ss_pred             cchhhhhHHHHHHHHHHccCccEEEEEEeCCC
Q 025346          176 KKIHMLDSMMMKNVRSAGINADCIVVLVDACK  207 (254)
Q Consensus       176 ~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~  207 (254)
                      ....  ...+...+...+..+|++++|+|+.+
T Consensus        98 ~~s~--~e~L~~~fl~~ir~~d~il~Vvd~~~  127 (392)
T 1ni3_A           98 GAST--GVGLGNAFLSHVRAVDAIYQVVRAFD  127 (392)
T ss_dssp             CCCS--SSSSCHHHHHHHTTCSEEEEEEECCC
T ss_pred             CCcH--HHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            3211  11111234556789999999999864

>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=98.94  E-value=1.2e-09  Score=94.52  Aligned_cols=79  Identities=19%  Similarity=0.161  Sum_probs=55.5

Q ss_pred             EEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCC-------C-----CchhHHHHHHHhhc
Q 025346          154 ILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDAC-------K-----APERIDEILEEGVG  221 (254)
Q Consensus       154 ~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~-------~-----~~~~~~~~~~~~~~  221 (254)
                      ....+...+..+.+|||+|  +..       ++..|..++++++++|||+|++       +     ...+...++..+..
T Consensus       158 ~~~~~~~~~v~l~iwDtgG--Qe~-------~R~~w~~yf~~~~~iIfV~dls~ydq~l~d~~~~nr~~es~~~~~~i~~  228 (327)
T 3ohm_A          158 IEYPFDLQSVIFRMVDVGG--QRS-------ERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIIT  228 (327)
T ss_dssp             EEEEEEETTEEEEEEEECC--SHH-------HHTTGGGGCSSCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHT
T ss_pred             EEEEEEeeceeeEEEEcCC--chh-------HHHHHHHHhCCCCEEEEEEECccccccccccccHhHHHHHHHHHHHHhh
Confidence            3344556788999999999  332       2344667899999999999775       2     12344455666554


Q ss_pred             cc-CCCCCEEEEEecCCCCCh
Q 025346          222 DH-KDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       222 ~~-~~~~piivV~nK~Dl~~~  241 (254)
                      .. ..+.|+++++||+|+...
T Consensus       229 ~~~~~~~~iiL~~NK~DL~~~  249 (327)
T 3ohm_A          229 YPWFQNSSVILFLNKKDLLEE  249 (327)
T ss_dssp             SGGGTTCEEEEEEECHHHHHH
T ss_pred             hhccCCceEEEEEECchhhhh
Confidence            32 367999999999998653

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=98.93  E-value=1.1e-09  Score=95.21  Aligned_cols=112  Identities=23%  Similarity=0.344  Sum_probs=66.5

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHh------cCccccccCCCCceEE-------------------EEEE----------
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMI------GQKLSIVTNKPQTTRH-------------------RILG----------  156 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~------~~~~~~~~~~~~tt~~-------------------~~~~----------  156 (254)
                      ..++..++++|++|+|||||++.+.      +.+.......+.++..                   ....          
T Consensus        52 ~~~g~~v~i~G~~GaGKSTLl~~l~g~~~~~~g~v~i~~~d~~~~~~~~~~~~~~~~i~~v~q~~~~~~~~~~~~~~l~G  131 (337)
T 2qm8_A           52 TGRAIRVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPSSTRTGGSILGDKTRMARLAIDRNAFIRPSPSSGTLGG  131 (337)
T ss_dssp             CCCSEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECGGGGSSCCCSSCCGGGSTTGGGCTTEEEECCCCCSSHHH
T ss_pred             cCCCeEEEEECCCCCCHHHHHHHHHHhhhhCCCEEEEEEEcCcccccccchHHHhhhheeeccCcccccccCcccccccc
Confidence            3456789999999999999999998      3333322222211110                   0000          


Q ss_pred             ----------EEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCC
Q 025346          157 ----------ICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDK  226 (254)
Q Consensus       157 ----------~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~  226 (254)
                                .+...+..+.++||||+.+...            .....+|++++|+|.+.+.. .    ..+.. ....
T Consensus       132 ~tr~~~e~~~~~~~~~~~~iliDT~Gi~~~~~------------~v~~~~d~vl~v~d~~~~~~-~----~~i~~-~i~~  193 (337)
T 2qm8_A          132 VAAKTRETMLLCEAAGFDVILVETVGVGQSET------------AVADLTDFFLVLMLPGAGDE-L----QGIKK-GIFE  193 (337)
T ss_dssp             HHHHHHHHHHHHHHTTCCEEEEEECSSSSCHH------------HHHTTSSEEEEEECSCC-----------CCT-THHH
T ss_pred             hHHHHHHHHHHHhcCCCCEEEEECCCCCcchh------------hHHhhCCEEEEEEcCCCccc-H----HHHHH-HHhc
Confidence                      0123577899999999865421            12468999999999864321 1    11100 0012


Q ss_pred             CCEEEEEecCCCCCh
Q 025346          227 LPILLVLNKKDLIKP  241 (254)
Q Consensus       227 ~piivV~nK~Dl~~~  241 (254)
                      .+.++|+||+|+...
T Consensus       194 ~~~ivvlNK~Dl~~~  208 (337)
T 2qm8_A          194 LADMIAVNKADDGDG  208 (337)
T ss_dssp             HCSEEEEECCSTTCC
T ss_pred             cccEEEEEchhccCc
Confidence            466888899998653

>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=98.92  E-value=1.6e-09  Score=94.78  Aligned_cols=75  Identities=17%  Similarity=0.183  Sum_probs=54.4

Q ss_pred             EEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCC------------chhHHHHHHHhhcc-
Q 025346          156 GICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKA------------PERIDEILEEGVGD-  222 (254)
Q Consensus       156 ~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~------------~~~~~~~~~~~~~~-  222 (254)
                      ..+...+..+.+|||+|.  ..+.       ..|..++.+++++|||+|+++.            ..+...++..+... 
T Consensus       186 ~~~~~~~~~l~iwDt~GQ--e~~r-------~~w~~yf~~a~~iIfV~dls~~d~~l~ed~~~nr~~e~~~~~~~i~~~~  256 (353)
T 1cip_A          186 THFTFKDLHFKMFDVGGQ--RSER-------KKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNK  256 (353)
T ss_dssp             EEEEETTEEEEEEEECCS--GGGG-------GGGGGGCTTCSEEEEEEEGGGGGCEETTEEEEEHHHHHHHHHHHHHTCG
T ss_pred             EEEeeCCeeEEEEeCCCc--hhhh-------HHHHHHHhcCCEEEEEEECccccccccccchhhhHHHHHHHHHHHHcCc
Confidence            344556789999999994  3322       3345678999999999999872            34445566665553 


Q ss_pred             cCCCCCEEEEEecCCCC
Q 025346          223 HKDKLPILLVLNKKDLI  239 (254)
Q Consensus       223 ~~~~~piivV~nK~Dl~  239 (254)
                      ...+.|+++|+||+|+.
T Consensus       257 ~~~~~piiLv~NK~DL~  273 (353)
T 1cip_A          257 WFTDTSIILFLNKKDLF  273 (353)
T ss_dssp             GGTTSEEEEEEECHHHH
T ss_pred             cccCCcEEEEEECcCch
Confidence            23679999999999985

>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=98.74  E-value=1.7e-08  Score=85.71  Aligned_cols=62  Identities=31%  Similarity=0.449  Sum_probs=40.4

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK  177 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~  177 (254)
                      ....+++++|.+|+|||||+|++.+.+...+++.|++|+.......   +..+.++||||+....
T Consensus       118 ~~~~~v~~vG~~nvGKSsliN~l~~~~~~~~~~~~g~T~~~~~~~~---~~~~~l~DtpG~~~~~  179 (282)
T 1puj_A          118 PRAIRALIIGIPNVGKSTLINRLAKKNIAKTGDRPGITTSQQWVKV---GKELELLDTPGILWPK  179 (282)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHTSCCC------------CCEEE---TTTEEEEECCCCCCSC
T ss_pred             CCCceEEEEecCCCchHHHHHHHhcCceeecCCCCCeeeeeEEEEe---CCCEEEEECcCcCCCC
Confidence            4567899999999999999999999887778889999877643222   3478999999987654

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=98.73  E-value=2.2e-08  Score=91.34  Aligned_cols=120  Identities=18%  Similarity=0.237  Sum_probs=70.1

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHh------cCccccccCCCCce--------------EEEEEEE---------------E
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMI------GQKLSIVTNKPQTT--------------RHRILGI---------------C  158 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~------~~~~~~~~~~~~tt--------------~~~~~~~---------------~  158 (254)
                      +...|+++|.+|+||||+++.+.      +.+...+...+...              ...+...               .
T Consensus       100 ~~~vI~ivG~~GvGKTTl~~kLA~~l~~~G~kVllVd~D~~r~aa~~qL~~~~~~~~i~v~~~~~~~dp~~i~~~al~~~  179 (504)
T 2j37_W          100 KQNVIMFVGLQGSGKTTTCSKLAYYYQRKGWKTCLICADTFRAGAFDQLKQNATKARIPFYGSYTEMDPVIIASEGVEKF  179 (504)
T ss_dssp             --EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEECCSSSHHHHHHHHHHHHHTCCEEECCCCSCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEeccccchhHHHHHHHHhhccCceEEccCCCCCHHHHHHHHHHHH
Confidence            45689999999999999999998      66544333321100              0011100               0


Q ss_pred             ecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCE-EEEEecCC
Q 025346          159 SGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPI-LLVLNKKD  237 (254)
Q Consensus       159 ~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~pi-ivV~nK~D  237 (254)
                      ...+..+.||||||........+.. . ..... ...+|.+++|+|+..+..... ....+..    ..|+ .+|+||+|
T Consensus       180 ~~~~~DvvIIDTpG~~~~~~~l~~e-l-~~~~~-~i~pd~vllVvDa~~g~~~~~-~a~~~~~----~~~i~gvVlNK~D  251 (504)
T 2j37_W          180 KNENFEIIIVDTSGRHKQEDSLFEE-M-LQVAN-AIQPDNIVYVMDASIGQACEA-QAKAFKD----KVDVASVIVTKLD  251 (504)
T ss_dssp             HHTTCCEEEEEECCCCTTCHHHHHH-H-HHHHH-HHCCSEEEEEEETTCCTTHHH-HHHHHHH----HHCCCCEEEECTT
T ss_pred             HHCCCcEEEEeCCCCcccchhHHHH-H-HHHHh-hhcCceEEEEEeccccccHHH-HHHHHHh----hcCceEEEEeCCc
Confidence            1156789999999976432111111 1 11112 237899999999988644222 2222111    2575 89999999


Q ss_pred             CCCh
Q 025346          238 LIKP  241 (254)
Q Consensus       238 l~~~  241 (254)
                      ....
T Consensus       252 ~~~~  255 (504)
T 2j37_W          252 GHAK  255 (504)
T ss_dssp             SCCC
T ss_pred             cccc
Confidence            9754

>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=98.60  E-value=6.7e-08  Score=89.63  Aligned_cols=62  Identities=29%  Similarity=0.385  Sum_probs=43.0

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEE-------ecCCeeEEEEecCCCcccc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGIC-------SGPEYQMILYDTPGIIEKK  177 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~-------~~~~~~~~liDtpG~~~~~  177 (254)
                      +..+|+++|.+|+|||||+|++++.....  +.+++|+....+..       ...+..+.++||||+.+..
T Consensus        37 ~~~~VaivG~pnvGKStLiN~L~g~~~~~--~~~~tt~~~T~gi~~~~~~~~~~~~~~i~LiDTpGi~~~~  105 (592)
T 1f5n_A           37 PMVVVAIVGLYRTGKSYLMNKLAGKKKGF--SLGSTVQSHTKGIWMWCVPHPKKPGHILVLLDTEGLGDVE  105 (592)
T ss_dssp             BEEEEEEEEBTTSSHHHHHHHHTTCSSCS--CCCCSSSCCCCSEEEEEEECSSSTTCEEEEEEECCBCCGG
T ss_pred             CCcEEEEECCCCCCHHHHHHhHcCCCCcc--ccCCCCCCceeEEEEeecccccCCCceEEEecCCCcCccc
Confidence            44679999999999999999999987431  33333322222221       2356789999999987644

>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=98.48  E-value=2.3e-07  Score=83.18  Aligned_cols=117  Identities=15%  Similarity=0.231  Sum_probs=67.2

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcC------ccccccCCCC------------------------ceEEEE----EEEEec
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQ------KLSIVTNKPQ------------------------TTRHRI----LGICSG  160 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~------~~~~~~~~~~------------------------tt~~~~----~~~~~~  160 (254)
                      +..++++|.+|+||||+++.+...      +...+...+.                        ++.+..    ......
T Consensus        99 ~~vI~ivG~~GvGKTTla~~La~~l~~~G~kVllv~~D~~r~~a~~qL~~~~~~~gv~v~~~~~~~~dp~~i~~~~l~~~  178 (432)
T 2v3c_C           99 QNVILLVGIQGSGKTTTAAKLARYIQKRGLKPALIAADTYRPAAYEQLKQLAEKIHVPIYGDETRTKSPVDIVKEGMEKF  178 (432)
T ss_dssp             CCCEEEECCSSSSTTHHHHHHHHHHHHHHCCEEEECCSCCCTTGGGSSHHHHHHSSCCEECCSSSCCSSSTTHHHHHHTT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeccccCchHHHHHHHhhhccCcceEecCCCCCCHHHHHHHHHHHh
Confidence            457999999999999999998752      2221111100                        111100    000012


Q ss_pred             CCeeEEEEecCCCcccchhhhhHHHHHHHHH--HccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCC-C-EEEEEecC
Q 025346          161 PEYQMILYDTPGIIEKKIHMLDSMMMKNVRS--AGINADCIVVLVDACKAPERIDEILEEGVGDHKDKL-P-ILLVLNKK  236 (254)
Q Consensus       161 ~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~--~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~-p-iivV~nK~  236 (254)
                      .+..+.++||||.....     ...+.....  .+..+|.+++|+|+..+.... .....    +.... | ..+|+||+
T Consensus       179 ~~~D~vIIDT~G~~~~~-----~~l~~~l~~i~~~~~~d~vllVvda~~g~~~~-~~~~~----~~~~~~~i~gvVlnK~  248 (432)
T 2v3c_C          179 KKADVLIIDTAGRHKEE-----KGLLEEMKQIKEITNPDEIILVIDGTIGQQAG-IQAKA----FKEAVGEIGSIIVTKL  248 (432)
T ss_dssp             SSCSEEEEECCCSCSSH-----HHHHHHHHHTTSSSCCSEEEEEEEGGGGGGHH-HHHHH----HHTTSCSCEEEEEECS
T ss_pred             hCCCEEEEcCCCCcccc-----HHHHHHHHHHHHHhcCcceeEEeeccccHHHH-HHHHH----HhhcccCCeEEEEeCC
Confidence            45679999999975432     111122222  233789999999997754322 22222    12335 5 88999999


Q ss_pred             CCCCh
Q 025346          237 DLIKP  241 (254)
Q Consensus       237 Dl~~~  241 (254)
                      |....
T Consensus       249 D~~~~  253 (432)
T 2v3c_C          249 DGSAK  253 (432)
T ss_dssp             SSCST
T ss_pred             CCccc
Confidence            98654

>1azs_C GS-alpha; complex (lyase/hydrolase), hydrolase, signal transducing protein, cyclase, effector enzyme; HET: GSP FKP; 2.30A {Bos taurus} SCOP: a.66.1.1 c.37.1.8 PDB: 1azt_A* 3c14_C* 3c15_C* 3c16_C* 1cjt_C* 1cjk_C* 1cju_C* 1cjv_C* 1tl7_C* 1cs4_C* 1u0h_C* 2gvd_C* 2gvz_C* 3e8a_C* 3g82_C* 3maa_C* 1cul_C* 3sn6_A*

Probab=98.48  E-value=1.6e-07  Score=83.32  Aligned_cols=76  Identities=13%  Similarity=0.209  Sum_probs=55.8

Q ss_pred             EEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCC------------CchhHHHHHHHhhcc-
Q 025346          156 GICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACK------------APERIDEILEEGVGD-  222 (254)
Q Consensus       156 ~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~------------~~~~~~~~~~~~~~~-  222 (254)
                      ..+...+..+.+|||+|.  ..+.       ..+..++.+++++|||+|+++            ++.....++..+... 
T Consensus       210 ~~~~~~~v~l~iwDtaGQ--e~~r-------~~w~~yf~~a~~iIfV~dis~ydq~l~ed~~~ns~~e~~~~~~~i~~~~  280 (402)
T 1azs_C          210 TKFQVDKVNFHMFDVGGQ--RDER-------RKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNR  280 (402)
T ss_dssp             EEEEETTEEEEEEEECCS--GGGG-------GGGGGGTTTCCEEEEEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCT
T ss_pred             EEeecCCccceecccchh--hhhh-------hhhHhhccCCCEEEEEEECcccccccccccccchHHHHHHHHHHHHhcc
Confidence            344556789999999994  3333       334567899999999999987            234556677766654 


Q ss_pred             cCCCCCEEEEEecCCCCC
Q 025346          223 HKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       223 ~~~~~piivV~nK~Dl~~  240 (254)
                      ...+.|++||+||+|+..
T Consensus       281 ~~~~~piiLvgNK~DL~~  298 (402)
T 1azs_C          281 WLRTISVILFLNKQDLLA  298 (402)
T ss_dssp             TCSSCCEEEEEECHHHHH
T ss_pred             cCCCCeEEEEEEChhhhh
Confidence            236799999999999854

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.47  E-value=5.2e-08  Score=81.73  Aligned_cols=59  Identities=36%  Similarity=0.495  Sum_probs=38.8

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK  177 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~  177 (254)
                      .+++++|.+|+|||||+|++.+.....+++.+++|........   +..+.+|||||+....
T Consensus       100 ~~v~~vG~~~vGKSslin~l~~~~~~~~~~~~g~T~~~~~~~~---~~~~~l~DtpG~~~~~  158 (262)
T 3cnl_A          100 ARVLIVGVPNTGKSTIINKLKGKRASSVGAQPGITKGIQWFSL---ENGVKILDTPGILYKN  158 (262)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTCC----------CCSCEEEC---TTSCEEESSCEECCCC
T ss_pred             hheEEeCCCCCCHHHHHHHHhcccccccCCCCCCccceEEEEe---CCCEEEEECCCcccCc
Confidence            5899999999999999999999887667778887765432221   3478999999987654

>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=98.45  E-value=1.2e-07  Score=83.07  Aligned_cols=76  Identities=21%  Similarity=0.119  Sum_probs=53.3

Q ss_pred             EEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCC------------chhHHHHHHHhhcc
Q 025346          155 LGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKA------------PERIDEILEEGVGD  222 (254)
Q Consensus       155 ~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~------------~~~~~~~~~~~~~~  222 (254)
                      ...+...+..+.+|||+|...         +...+..++.+++++|||+|+++.            ..+...++..+...
T Consensus       193 ~~~~~~~~~~l~i~Dt~Gq~~---------~r~~w~~~f~~~~~iIfv~dls~~dq~l~ed~~~n~~~es~~~~~~i~~~  263 (362)
T 1zcb_A          193 EYDFEIKNVPFKMVDVGGQRS---------ERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNN  263 (362)
T ss_dssp             EEEEEETTEEEEEEEECC----------------CTTSCTTCCEEEEEEETTCTTCEETTEEEEEHHHHHHHHHHHHHTC
T ss_pred             EEEeeeCCeEEEEEeccchhh---------hhhhHHHHhCCCCEEEEEEECccccccccccccccHHHHHHHHHHHHhcc
Confidence            344556688999999999422         224455678999999999999872            34445566666553


Q ss_pred             -cCCCCCEEEEEecCCCC
Q 025346          223 -HKDKLPILLVLNKKDLI  239 (254)
Q Consensus       223 -~~~~~piivV~nK~Dl~  239 (254)
                       ...+.|+++|+||+|+.
T Consensus       264 ~~~~~~piILv~NK~DL~  281 (362)
T 1zcb_A          264 RVFSNVSIILFLNKTDLL  281 (362)
T ss_dssp             GGGTTSEEEEEEECHHHH
T ss_pred             hhhCCCCEEEEEEChhhh
Confidence             23679999999999986

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=98.44  E-value=2.8e-07  Score=74.82  Aligned_cols=26  Identities=19%  Similarity=0.248  Sum_probs=22.8

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      +.++++++|.+|+|||||+++++...
T Consensus        37 ~~~~i~ivG~~gvGKTtl~~~l~~~~   62 (226)
T 2hf9_A           37 GVVAFDFMGAIGSGKTLLIEKLIDNL   62 (226)
T ss_dssp             TCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHh
Confidence            35789999999999999999998653

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=98.35  E-value=2.8e-06  Score=79.46  Aligned_cols=77  Identities=17%  Similarity=0.178  Sum_probs=40.6

Q ss_pred             eeEEEEecCCCcccchhh----hhHHHHHHHHHHccCc-cEEEEEEeCCCCch--hHHHHHHHhhcccCCCCCEEEEEec
Q 025346          163 YQMILYDTPGIIEKKIHM----LDSMMMKNVRSAGINA-DCIVVLVDACKAPE--RIDEILEEGVGDHKDKLPILLVLNK  235 (254)
Q Consensus       163 ~~~~liDtpG~~~~~~~~----~~~~~~~~~~~~~~~~-d~iv~vid~~~~~~--~~~~~~~~~~~~~~~~~piivV~nK  235 (254)
                      ..+.++|.||+...+...    ........+..++... .+++.+++......  ........+   ...+.++++|+||
T Consensus       147 p~LlLlDePGi~~~~t~~LD~~~~~~i~~li~~~l~~~~~iil~vvt~~~d~a~~~~l~la~~v---~~~g~rtI~VlTK  223 (608)
T 3szr_A          147 PDLTLIDLPGITRVAVGNQPADIGYKIKTLIKKYIQRQETISLVVVPSNVDIATTEALSMAQEV---DPEGDRTIGILTK  223 (608)
T ss_dssp             CCEEEEECCC------CCSSCSHHHHHHHHHHHHTTSSSCCEEEEEESSSCTTTCHHHHHHHHH---CSSCCSEEEEEEC
T ss_pred             CceeEeeCCCccccccCCCCHHHHHHHHHHHHHHHhcCCCCceEEEeccchhccHHHHHHHHHH---hhcCCceEEEecc
Confidence            358999999976543221    2223334455555544 55556666543221  222222222   2346799999999


Q ss_pred             CCCCChH
Q 025346          236 KDLIKPG  242 (254)
Q Consensus       236 ~Dl~~~~  242 (254)
                      .|++...
T Consensus       224 ~Dlv~~g  230 (608)
T 3szr_A          224 PDLVDKG  230 (608)
T ss_dssp             GGGSSSS
T ss_pred             hhhcCcc
Confidence            9998654

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=98.35  E-value=2e-06  Score=76.50  Aligned_cols=116  Identities=22%  Similarity=0.232  Sum_probs=63.7

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccc----cccCCCCceEEEEEEEEecC-CeeEEEEecCCCcccchhhhhHHHHHH
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLS----IVTNKPQTTRHRILGICSGP-EYQMILYDTPGIIEKKIHMLDSMMMKN  188 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~----~~~~~~~tt~~~~~~~~~~~-~~~~~liDtpG~~~~~~~~~~~~~~~~  188 (254)
                      ....++++|++|+|||||+|.+.+....    .......+++..+  ..... ...+.++|+||+.... ....... +.
T Consensus        68 ~~~~valvG~nGaGKSTLln~L~Gl~~p~~GsI~~~g~~~t~~~~--v~q~~~~~~ltv~D~~g~~~~~-~~~~~~L-~~  143 (413)
T 1tq4_A           68 SVLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERH--PYKHPNIPNVVFWDLPGIGSTN-FPPDTYL-EK  143 (413)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHTCCTTSTTSCCCCC----CCCE--EEECSSCTTEEEEECCCGGGSS-CCHHHHH-HH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHhCCCCccCceEEECCeecceeEE--eccccccCCeeehHhhcccchH-HHHHHHH-HH
Confidence            3448999999999999999999984321    1111111222111  11222 2368999999975321 1222221 11


Q ss_pred             HHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCC
Q 025346          189 VRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLI  239 (254)
Q Consensus       189 ~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~  239 (254)
                      .  .+...+.+++ ++... .+..+..+...+..  .+.|+++|.||.|++
T Consensus       144 ~--~L~~~~~~~~-lS~G~-~~kqrv~la~aL~~--~~~p~~lV~tkpdll  188 (413)
T 1tq4_A          144 M--KFYEYDFFII-ISATR-FKKNDIDIAKAISM--MKKEFYFVRTKVDSD  188 (413)
T ss_dssp             T--TGGGCSEEEE-EESSC-CCHHHHHHHHHHHH--TTCEEEEEECCHHHH
T ss_pred             c--CCCccCCeEE-eCCCC-ccHHHHHHHHHHHh--cCCCeEEEEecCccc
Confidence            1  1233455554 77664 33333333333332  368999999999986

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=98.34  E-value=1.6e-07  Score=80.38  Aligned_cols=99  Identities=16%  Similarity=0.161  Sum_probs=63.1

Q ss_pred             HHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCC-
Q 025346          130 TLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKA-  208 (254)
Q Consensus       130 sl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~-  208 (254)
                      +++.++....+.. ..+.+|..+........+ ..+.+|||    ++++..+..       .++.++|++++|+|++++ 
T Consensus        32 sl~~~~~~~~f~~-~~~~pTiGd~~~~~~~~~-~~~~iwD~----qer~~~l~~-------~~~~~ad~vilV~D~~~~~   98 (301)
T 1u0l_A           32 ERILCKLRGKFRL-QNLKIYVGDRVEYTPDET-GSGVIENV----LHRKNLLTK-------PHVANVDQVILVVTVKMPE   98 (301)
T ss_dssp             CEEEEEECGGGTT-TTCCCCTTCEEEEECCCS-SSEEEEEE----CCCSCEETT-------TTEESCCEEEEEECSSTTC
T ss_pred             cEEEEEEcccccc-cCCCCCCccEEEEEEcCC-CeEEEEEE----ccccceeec-------cccccCCEEEEEEeCCCCC
Confidence            5777777666631 233333333333223232 37999999    333444332       468999999999999874 


Q ss_pred             --chhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhH
Q 025346          209 --PERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEI  244 (254)
Q Consensus       209 --~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~  244 (254)
                        +..+..|+..+..   .++|+++|+||+|+.+.+++
T Consensus        99 ~s~~~l~~~l~~~~~---~~~piilv~NK~DL~~~~~v  133 (301)
T 1u0l_A           99 TSTYIIDKFLVLAEK---NELETVMVINKMDLYDEDDL  133 (301)
T ss_dssp             CCHHHHHHHHHHHHH---TTCEEEEEECCGGGCCHHHH
T ss_pred             CCHHHHHHHHHHHHH---CCCCEEEEEeHHHcCCchhH
Confidence              3455666654432   47899999999999887654

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=98.34  E-value=3.4e-06  Score=75.57  Aligned_cols=122  Identities=16%  Similarity=0.202  Sum_probs=69.4

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHh------cCccccccCCCCce--------------EEEEEEE---------------E
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMI------GQKLSIVTNKPQTT--------------RHRILGI---------------C  158 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~------~~~~~~~~~~~~tt--------------~~~~~~~---------------~  158 (254)
                      ++..++++|.+|+||||++..+.      +.+...+...+...              .......               .
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l~~~G~kVllv~~D~~R~aa~eqL~~~~~~~gvpv~~~~~~~dp~~i~~~al~~a  178 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYFQKRGYKVGVVCSDTWRPGAYHQLRQLLDRYHIEVFGNPQEKDAIKLAKEGVDYF  178 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEECCCSSTHHHHHHHHHHGGGTCEEECCTTCCCHHHHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCcchhHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHH
Confidence            45689999999999999999887      33332222111100              0000000               0


Q ss_pred             ecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCC
Q 025346          159 SGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDL  238 (254)
Q Consensus       159 ~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl  238 (254)
                      ...+..+.++||||........+...  ..+.. ...+|.+++|+|+..+..... ....+..   .-.+..+|+||+|.
T Consensus       179 ~~~~~DvVIIDTaGrl~~d~~lm~el--~~i~~-~~~pd~vlLVvDA~~gq~a~~-~a~~f~~---~~~i~gVIlTKlD~  251 (443)
T 3dm5_A          179 KSKGVDIIIVDTAGRHKEDKALIEEM--KQISN-VIHPHEVILVIDGTIGQQAYN-QALAFKE---ATPIGSIIVTKLDG  251 (443)
T ss_dssp             HHTTCSEEEEECCCCSSCCHHHHHHH--HHHHH-HHCCSEEEEEEEGGGGGGHHH-HHHHHHH---SCTTEEEEEECCSS
T ss_pred             HhCCCCEEEEECCCcccchHHHHHHH--HHHHH-hhcCceEEEEEeCCCchhHHH-HHHHHHh---hCCCeEEEEECCCC
Confidence            01347899999999755432222221  22222 346899999999987533322 2222221   12356799999999


Q ss_pred             CChH
Q 025346          239 IKPG  242 (254)
Q Consensus       239 ~~~~  242 (254)
                      ....
T Consensus       252 ~~~g  255 (443)
T 3dm5_A          252 SAKG  255 (443)
T ss_dssp             CSSH
T ss_pred             cccc
Confidence            7654

>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=98.26  E-value=6.8e-07  Score=78.09  Aligned_cols=71  Identities=14%  Similarity=0.136  Sum_probs=49.6

Q ss_pred             CCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCC----------C--CchhHHHHHHHhhccc-CCCC
Q 025346          161 PEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDAC----------K--APERIDEILEEGVGDH-KDKL  227 (254)
Q Consensus       161 ~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~----------~--~~~~~~~~~~~~~~~~-~~~~  227 (254)
                      ....+.+|||+|.  ..+..       .+..++++++++|+|+|++          +  .+.....++..+.... ..+.
T Consensus       181 ~~v~l~iwDtaGQ--e~~r~-------~~~~y~~~~~~iI~v~dis~ydq~l~e~~~~~s~~~~~~~~~~i~~~~~~~~~  251 (354)
T 2xtz_A          181 SGEVYRLFDVGGQ--RNERR-------KWIHLFEGVTAVIFCAAISEYDQTLFEDEQKNRMMETKELFDWVLKQPCFEKT  251 (354)
T ss_dssp             ---EEEEEEECCS--TTGGG-------GTGGGCTTEEEEEEEEEGGGTTCBCSSCTTSBHHHHHHHHHHHHHTCGGGSSC
T ss_pred             cceeeEEEECCCc--hhhhH-------HHHHHhCCCCEEEEEEECcccccccccccchhHHHHHHHHHHHHHhccccCCC
Confidence            4578999999994  33333       3456789999999999987          2  2344556666665532 3679


Q ss_pred             CEEEEEecCCCCC
Q 025346          228 PILLVLNKKDLIK  240 (254)
Q Consensus       228 piivV~nK~Dl~~  240 (254)
                      |+++|+||+|+..
T Consensus       252 piiLvgNK~DL~~  264 (354)
T 2xtz_A          252 SFMLFLNKFDIFE  264 (354)
T ss_dssp             EEEEEEECHHHHH
T ss_pred             eEEEEEECcchhh
Confidence            9999999999853

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=98.09  E-value=9e-06  Score=72.70  Aligned_cols=121  Identities=17%  Similarity=0.228  Sum_probs=66.3

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHh------cCccccccCCCCc--------------eEEEEEE---------------EE
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMI------GQKLSIVTNKPQT--------------TRHRILG---------------IC  158 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~------~~~~~~~~~~~~t--------------t~~~~~~---------------~~  158 (254)
                      ++..++++|++|+||||++..+.      +.++..+...+..              .......               ..
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~l~~~G~kVllv~~D~~r~~a~eqL~~~~~~~gv~~~~~~~~~dp~~i~~~al~~a  175 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYFYKKRGYKVGLVAADVYRPAAYDQLLQLGNQIGVQVYGEPNNQNPIEIAKKGVDIF  175 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHHHHHTTCCEEEEEECCSCHHHHHHHHHHHHTTTCCEECCTTCSCHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEecCccchhHHHHHHHHHHhcCCceeeccccCCHHHHHHHHHHHH
Confidence            45689999999999999999887      3322111100000              0000000               00


Q ss_pred             ecCCeeEEEEecCCCcc--cchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecC
Q 025346          159 SGPEYQMILYDTPGIIE--KKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKK  236 (254)
Q Consensus       159 ~~~~~~~~liDtpG~~~--~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~  236 (254)
                      ...+..+.++||||...  .....+.. . ..+... ..++.+++|+|+..+.... .....+...   -.+..+|+||+
T Consensus       176 ~~~~~DvvIIDTaGr~~~~~d~~lm~e-l-~~i~~~-~~pd~vlLVlDa~~gq~a~-~~a~~f~~~---~~~~gVIlTKl  248 (433)
T 3kl4_A          176 VKNKMDIIIVDTAGRHGYGEETKLLEE-M-KEMYDV-LKPDDVILVIDASIGQKAY-DLASRFHQA---SPIGSVIITKM  248 (433)
T ss_dssp             TTTTCSEEEEEECCCSSSCCTTHHHHH-H-HHHHHH-HCCSEEEEEEEGGGGGGGH-HHHHHHHHH---CSSEEEEEECG
T ss_pred             HhcCCCEEEEECCCCccccCCHHHHHH-H-HHHHHh-hCCcceEEEEeCccchHHH-HHHHHHhcc---cCCcEEEEecc
Confidence            12356799999999654  32222211 1 222222 2578999999998743322 222222211   14578999999


Q ss_pred             CCCCh
Q 025346          237 DLIKP  241 (254)
Q Consensus       237 Dl~~~  241 (254)
                      |....
T Consensus       249 D~~a~  253 (433)
T 3kl4_A          249 DGTAK  253 (433)
T ss_dssp             GGCSC
T ss_pred             ccccc
Confidence            98654

>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=97.87  E-value=4e-05  Score=68.77  Aligned_cols=64  Identities=23%  Similarity=0.235  Sum_probs=41.7

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcC---------------ccccccCCCCceEEEEEEEEec-----------CCeeEE
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQ---------------KLSIVTNKPQTTRHRILGICSG-----------PEYQMI  166 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~---------------~~~~~~~~~~tt~~~~~~~~~~-----------~~~~~~  166 (254)
                      .+...|.|+|++++|||+|+|.+++.               +....+. .++++..+.+...+           ....+.
T Consensus        65 ~~v~vVsV~G~~~~GKStLLN~llg~~~~~~~~~wl~~~~~~~~~f~~-~~t~~~~T~GIw~~~~p~~~~~~~~~~~~vv  143 (447)
T 3q5d_A           65 KEVVAVSVAGAFRKGKSFLMDFMLRYMYNQESVDWVGDYNEPLTGFSW-RGGSERETTGIQIWSEIFLINKPDGKKVAVL  143 (447)
T ss_dssp             SBEEEEEEEESTTSSHHHHHHHHHHHHHCCSTTTSSCCTTSBCCSSCS-CCSSCCCCCEEEEESSCEEEECSSSCEEEEE
T ss_pred             CceEEEEEECCCCCcHHHHHHHHhhhcccccccccccccccccceecC-CCCCCCceeEEEEecCccccccCCCCcceEE
Confidence            34567999999999999999999864               2221221 22333333333222           246799


Q ss_pred             EEecCCCcccc
Q 025346          167 LYDTPGIIEKK  177 (254)
Q Consensus       167 liDtpG~~~~~  177 (254)
                      ++||||+.+..
T Consensus       144 llDTeG~~~~~  154 (447)
T 3q5d_A          144 LMDTQGTFDSQ  154 (447)
T ss_dssp             EEEEECCCSSH
T ss_pred             EEcCCcccccc
Confidence            99999987654

>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=97.85  E-value=5.2e-05  Score=64.52  Aligned_cols=119  Identities=18%  Similarity=0.238  Sum_probs=65.8

Q ss_pred             CcEEEEEeCCCCChHHHHHHHh------cCccccccCCCCce--------------EEEEEE---------------EEe
Q 025346          115 SGYVAVLGKPNVGKSTLANQMI------GQKLSIVTNKPQTT--------------RHRILG---------------ICS  159 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~------~~~~~~~~~~~~tt--------------~~~~~~---------------~~~  159 (254)
                      +..++++|++|+||||++..+.      +.+...+...+...              ......               ...
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~~~~~g~~v~l~~~D~~r~~a~~ql~~~~~~~~v~v~~~~~~~~p~~~~~~~l~~~~  177 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYFYKKKGFKVGLVGADVYRPAALEQLQQLGQQIGVPVYGEPGEKDVVGIAKRGVEKFL  177 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHHHHHTTCCEEEEECCCSSSHHHHHHHHHHHHHTCCEECCTTCCCHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEecCCCCHHHHHHHHHHhccCCeEEEecCCCCCHHHHHHHHHHHHH
Confidence            5678899999999999999887      23322111111000              000000               001


Q ss_pred             cCCeeEEEEecCCCcc--cchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCC-EEEEEecC
Q 025346          160 GPEYQMILYDTPGIIE--KKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLP-ILLVLNKK  236 (254)
Q Consensus       160 ~~~~~~~liDtpG~~~--~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~p-iivV~nK~  236 (254)
                      ..+..+.++||||...  .....+..  ...+. ....+|.+++|+|+..+. ........+.    ...| ..+|+||+
T Consensus       178 ~~~~D~ViIDTpg~~~~~~~~~l~~e--l~~i~-~~~~~d~vllVvda~~g~-~~~~~~~~~~----~~~~i~gvVlnk~  249 (297)
T 1j8m_F          178 SEKMEIIIVDTAGRHGYGEEAALLEE--MKNIY-EAIKPDEVTLVIDASIGQ-KAYDLASKFN----QASKIGTIIITKM  249 (297)
T ss_dssp             HTTCSEEEEECCCSCCTTCHHHHHHH--HHHHH-HHHCCSEEEEEEEGGGGG-GHHHHHHHHH----HTCTTEEEEEECG
T ss_pred             hCCCCEEEEeCCCCcccccHHHHHHH--HHHHH-HHhcCCEEEEEeeCCchH-HHHHHHHHHH----hhCCCCEEEEeCC
Confidence            1456799999999755  21111111  11111 234689999999997642 2222222221    2356 78899999


Q ss_pred             CCCCh
Q 025346          237 DLIKP  241 (254)
Q Consensus       237 Dl~~~  241 (254)
                      |....
T Consensus       250 D~~~~  254 (297)
T 1j8m_F          250 DGTAK  254 (297)
T ss_dssp             GGCTT
T ss_pred             CCCcc
Confidence            98654

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=97.81  E-value=5.4e-05  Score=67.78  Aligned_cols=120  Identities=23%  Similarity=0.240  Sum_probs=66.9

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHh-------cCccccccCCCCce--------------EEEEEE---------------E
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMI-------GQKLSIVTNKPQTT--------------RHRILG---------------I  157 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~-------~~~~~~~~~~~~tt--------------~~~~~~---------------~  157 (254)
                      ++..++++|.+|+||||++..+.       +.+...+...+...              .+.+..               .
T Consensus        99 ~~~vI~ivG~~GvGKTT~a~~LA~~l~~~~G~kVllvd~D~~r~~a~~ql~~~~~~~~l~v~~~~~~~dp~~i~~~~l~~  178 (433)
T 2xxa_A           99 PPAVVLMAGLQGAGKTTSVGKLGKFLREKHKKKVLVVSADVYRPAAIKQLETLAEQVGVDFFPSDVGQKPVDIVNAALKE  178 (433)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEECCCSSTTHHHHHHHHHHHHTCEECCCCSSSCHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEEecCCCCccHHHHHHhhcccCCeeEEeCCCCCCHHHHHHHHHHH
Confidence            35678899999999999999887       44433222222110              000000               0


Q ss_pred             EecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCC-EEEEEecC
Q 025346          158 CSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLP-ILLVLNKK  236 (254)
Q Consensus       158 ~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~p-iivV~nK~  236 (254)
                      ....+..+.|+||||........+...  ... .....++.+++|+|+..+... ......+.    ...+ .-+|+||+
T Consensus       179 ~~~~~~D~VIIDTpG~l~~~~~l~~~L--~~~-~~~~~p~~vllVvda~~g~~~-~~~~~~f~----~~l~i~gvVlnK~  250 (433)
T 2xxa_A          179 AKLKFYDVLLVDTAGRLHVDEAMMDEI--KQV-HASINPVETLFVVDAMTGQDA-ANTAKAFN----EALPLTGVVLTKV  250 (433)
T ss_dssp             HHHTTCSEEEEECCCCCTTCHHHHHHH--HHH-HHHSCCSEEEEEEETTBCTTH-HHHHHHHH----HHSCCCCEEEECT
T ss_pred             HHhCCCCEEEEECCCcccccHHHHHHH--HHH-HHhhcCcceeEEeecchhHHH-HHHHHHHh----ccCCCeEEEEecC
Confidence            012467899999999654321111111  111 224578999999999865332 22222221    1234 34789999


Q ss_pred             CCCCh
Q 025346          237 DLIKP  241 (254)
Q Consensus       237 Dl~~~  241 (254)
                      |....
T Consensus       251 D~~~~  255 (433)
T 2xxa_A          251 DGDAR  255 (433)
T ss_dssp             TSSSC
T ss_pred             CCCcc
Confidence            98643

>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=97.65  E-value=0.00022  Score=60.53  Aligned_cols=119  Identities=16%  Similarity=0.177  Sum_probs=64.5

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcC-------ccccccCCCC--ceE------------EEEEEE---------EecCCe
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQ-------KLSIVTNKPQ--TTR------------HRILGI---------CSGPEY  163 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~-------~~~~~~~~~~--tt~------------~~~~~~---------~~~~~~  163 (254)
                      ++..++++|++|+||||++..+.+.       ++..+...+.  ...            ......         ....+.
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~~l~~~~G~~V~lv~~D~~r~~a~eqL~~~~~~~gl~~~~~~~~~~l~~al~~~~~~  183 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAAISMLEKHKKIAFITTDTYRIAAVEQLKTYAELLQAPLEVCYTKEEFQQAKELFSEY  183 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHHHHTTCCCEEEEECCCSSTTHHHHHHHHHTTTTCCCCBCSSHHHHHHHHHHGGGS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCEEEEEecCcccchHHHHHHHHHHhcCCCeEecCCHHHHHHHHHHhcCC
Confidence            4568999999999999999987632       1111111110  000            000000         011346


Q ss_pred             eEEEEecCCCcccchhhhhHHHHHHHHHHcc--CccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          164 QMILYDTPGIIEKKIHMLDSMMMKNVRSAGI--NADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       164 ~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~--~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      .+.++||||.......     .+..+...+.  ..+.+++|+|++.....+.++...+    ..-...-+|+||.|....
T Consensus       184 dlvIiDT~G~~~~~~~-----~~~el~~~l~~~~~~~~~lVl~at~~~~~~~~~~~~~----~~l~~~giVltk~D~~~~  254 (296)
T 2px0_A          184 DHVFVDTAGRNFKDPQ-----YIDELKETIPFESSIQSFLVLSATAKYEDMKHIVKRF----SSVPVNQYIFTKIDETTS  254 (296)
T ss_dssp             SEEEEECCCCCTTSHH-----HHHHHHHHSCCCTTEEEEEEEETTBCHHHHHHHTTTT----SSSCCCEEEEECTTTCSC
T ss_pred             CEEEEeCCCCChhhHH-----HHHHHHHHHhhcCCCeEEEEEECCCCHHHHHHHHHHH----hcCCCCEEEEeCCCcccc
Confidence            7999999997543211     1222333333  4678899999887544444433222    111124567799998644

>1puj_A YLQF, conserved hypothetical protein YLQF; structural genomics, nysgxrc T18, GTPase, PSI, protein structure initiative; HET: GNP; 2.00A {Bacillus subtilis} SCOP: c.37.1.8

Probab=97.57  E-value=0.00014  Score=61.43  Aligned_cols=61  Identities=21%  Similarity=0.190  Sum_probs=45.0

Q ss_pred             HHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHHHHHHH
Q 025346          187 KNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLEVT  251 (254)
Q Consensus       187 ~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~~~~~~  251 (254)
                      .++...+..+|+|+.|+|+.++.......+..++    .+.|.++|+||+|+.+....+...+.+
T Consensus        15 ~~~~~~l~~aDvVl~VvDAr~p~~~~~~~l~~~l----~~kp~ilVlNK~DL~~~~~~~~~~~~~   75 (282)
T 1puj_A           15 REVTEKLKLIDIVYELVDARIPMSSRNPMIEDIL----KNKPRIMLLNKADKADAAVTQQWKEHF   75 (282)
T ss_dssp             HHHHHHGGGCSEEEEEEETTSTTTTSCHHHHHHC----SSSCEEEEEECGGGSCHHHHHHHHHHH
T ss_pred             HHHHHHHhhCCEEEEEEeCCCCCccCCHHHHHHH----CCCCEEEEEECcccCCHHHHHHHHHHH
Confidence            5566778999999999999885544323333333    468999999999999876666655554

>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=97.55  E-value=0.00085  Score=57.17  Aligned_cols=123  Identities=17%  Similarity=0.216  Sum_probs=64.4

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcC------ccccccCCCCc--------------eEEEEEEEE---------------
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQ------KLSIVTNKPQT--------------TRHRILGIC---------------  158 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~------~~~~~~~~~~t--------------t~~~~~~~~---------------  158 (254)
                      ++..++++|++|+||||+++.+.+.      ++.........              ....+....               
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagll~~~~g~V~l~g~D~~r~~a~~ql~~~~~~~~i~~v~q~~~~~p~~~v~~~v~~~  180 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCAGDTFRAAGGTQLSEWGKRLSIPVIQGPEGTDSAALAYDAVQAM  180 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEECCCCSSTTTTHHHHHHHHHHTCCEECCCTTCCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEeecCCChhHHHHHHHHHHhcCceEEEeCCCCCHHHHHHHHHHHH
Confidence            4668999999999999999998742      11111100000              000000000               


Q ss_pred             ecCCeeEEEEecCCCcccchhhhhHHH--HHHH-HHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEec
Q 025346          159 SGPEYQMILYDTPGIIEKKIHMLDSMM--MKNV-RSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNK  235 (254)
Q Consensus       159 ~~~~~~~~liDtpG~~~~~~~~~~~~~--~~~~-~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK  235 (254)
                      ...+....++||+|........+....  ...+ ......++.+++++|+....... ..+..+.+..  + ..++++||
T Consensus       181 ~~~~~d~~llDt~G~~~~~~~~~~eLs~~r~~iaRal~~~P~~~lLvLDa~t~~~~~-~~~~~~~~~~--~-~t~iivTh  256 (304)
T 1rj9_A          181 KARGYDLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQNGL-EQAKKFHEAV--G-LTGVIVTK  256 (304)
T ss_dssp             HHHTCSEEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBCTHHH-HHHHHHHHHH--C-CSEEEEEC
T ss_pred             HhCCCCEEEecCCCCCCchHHHHHHHHHHHHHHHHhhcCCCCeEEEEEcHHHHHHHH-HHHHHHHHHc--C-CcEEEEEC
Confidence            011345779999997654332222211  1111 12345688889999987754333 2333322211  2 34678899


Q ss_pred             CCCCC
Q 025346          236 KDLIK  240 (254)
Q Consensus       236 ~Dl~~  240 (254)
                      .|...
T Consensus       257 ~d~~a  261 (304)
T 1rj9_A          257 LDGTA  261 (304)
T ss_dssp             TTSSC
T ss_pred             Ccccc
Confidence            88653

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=97.54  E-value=0.00019  Score=61.83  Aligned_cols=121  Identities=18%  Similarity=0.148  Sum_probs=64.3

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCc------cccccCCCCc--------------eEEEEEEEE--------------
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQK------LSIVTNKPQT--------------TRHRILGIC--------------  158 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~------~~~~~~~~~t--------------t~~~~~~~~--------------  158 (254)
                      .++..++++|++|+||||+++.+.+.-      +.........              .........              
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag~l~~~~g~V~l~g~D~~r~~a~eql~~~~~~~gv~~v~q~~~~~p~~~v~e~l~~  206 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLANWLKNHGFSVVIAASDTFRAGAIEQLEEHAKRIGVKVIKHSYGADPAAVAYDAIQH  206 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEECCSSTTHHHHHHHHHHHTTCEEECCCTTCCHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHhcCCEEEEEeecccccchHHHHHHHHHHcCceEEeccccCCHHHHHHHHHHH
Confidence            456789999999999999999987531      1111000000              000000000              


Q ss_pred             -ecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCC
Q 025346          159 -SGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKD  237 (254)
Q Consensus       159 -~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~D  237 (254)
                       ...+..+.++||+|........+...  ..... .-.+|-.++++|+.... ........+.+..   ....+++||.|
T Consensus       207 ~~~~~~d~vliDtaG~~~~~~~l~~eL--~~i~r-al~~de~llvLDa~t~~-~~~~~~~~~~~~~---~it~iilTKlD  279 (328)
T 3e70_C          207 AKARGIDVVLIDTAGRSETNRNLMDEM--KKIAR-VTKPNLVIFVGDALAGN-AIVEQARQFNEAV---KIDGIILTKLD  279 (328)
T ss_dssp             HHHHTCSEEEEEECCSCCTTTCHHHHH--HHHHH-HHCCSEEEEEEEGGGTT-HHHHHHHHHHHHS---CCCEEEEECGG
T ss_pred             HHhccchhhHHhhccchhHHHHHHHHH--HHHHH-HhcCCCCEEEEecHHHH-HHHHHHHHHHHhc---CCCEEEEeCcC
Confidence             01234577899999755433333222  11112 23478899999987653 2223333322211   23477889999


Q ss_pred             CCC
Q 025346          238 LIK  240 (254)
Q Consensus       238 l~~  240 (254)
                      ...
T Consensus       280 ~~a  282 (328)
T 3e70_C          280 ADA  282 (328)
T ss_dssp             GCS
T ss_pred             Ccc
Confidence            643

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=97.46  E-value=0.00057  Score=61.91  Aligned_cols=121  Identities=15%  Similarity=0.209  Sum_probs=64.2

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcC------ccccccCCCCce-------E---EEEEEEE------------------
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQ------KLSIVTNKPQTT-------R---HRILGIC------------------  158 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~------~~~~~~~~~~tt-------~---~~~~~~~------------------  158 (254)
                      ..+..++++|++|+||||+++.+.+.      ++..........       .   .....++                  
T Consensus       291 ~~GeVI~LVGpNGSGKTTLl~~LAgll~~~~G~V~l~g~D~~r~aa~eQL~~~~~r~~I~vV~Q~~~~~p~~tV~e~l~~  370 (503)
T 2yhs_A          291 KAPFVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGDTFRAAAVEQLQVWGQRNNIPVIAQHTGADSASVIFDAIQA  370 (503)
T ss_dssp             CTTEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEECCCTTCHHHHHHHHHHHHHHTCCEECCSTTCCHHHHHHHHHHH
T ss_pred             cCCeEEEEECCCcccHHHHHHHHHHHhhhcCCeEEEecCcccchhhHHHHHHHHHhcCceEEecccCcCHHHHHHHHHHH
Confidence            45668999999999999999988753      221111111100       0   0000011                  


Q ss_pred             -ecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc-----cCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEE
Q 025346          159 -SGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG-----INADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLV  232 (254)
Q Consensus       159 -~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~-----~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV  232 (254)
                       ...+..+.++||+|........+...  .......     ...+-+++|+|++.+...+. ....+....  ++ ..+|
T Consensus       371 a~~~~~DvVLIDTaGrl~~~~~lm~EL--~kiv~iar~l~~~~P~evLLvLDattGq~al~-~ak~f~~~~--~i-tgvI  444 (503)
T 2yhs_A          371 AKARNIDVLIADTAGRLQNKSHLMEEL--KKIVRVMKKLDVEAPHEVMLTIDASTGQNAVS-QAKLFHEAV--GL-TGIT  444 (503)
T ss_dssp             HHHTTCSEEEECCCCSCCCHHHHHHHH--HHHHHHHHTTCTTCSSEEEEEEEGGGTHHHHH-HHHHHHHHT--CC-SEEE
T ss_pred             HHhcCCCEEEEeCCCccchhhhHHHHH--HHHHHHHHHhccCCCCeeEEEecCcccHHHHH-HHHHHHhhc--CC-CEEE
Confidence             01346789999999765443333211  1222211     23668899999877533332 222222211  22 3578


Q ss_pred             EecCCCC
Q 025346          233 LNKKDLI  239 (254)
Q Consensus       233 ~nK~Dl~  239 (254)
                      +||.|-.
T Consensus       445 lTKLD~t  451 (503)
T 2yhs_A          445 LTKLDGT  451 (503)
T ss_dssp             EECGGGC
T ss_pred             EEcCCCc
Confidence            8999964

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=97.44  E-value=0.00096  Score=57.27  Aligned_cols=74  Identities=18%  Similarity=0.318  Sum_probs=40.7

Q ss_pred             CCeeEEEEecCCCcccchhhhhHHHHHHHHHH-----ccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCC-EEEEEe
Q 025346          161 PEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA-----GINADCIVVLVDACKAPERIDEILEEGVGDHKDKLP-ILLVLN  234 (254)
Q Consensus       161 ~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~-----~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~p-iivV~n  234 (254)
                      .+..+.++||||........++..  ......     ...+|.+++|+++......+... ...    ....+ .-+|+|
T Consensus       190 ~~yD~VIIDTpg~l~~~~~l~~eL--~~~~~vi~~~~p~~~d~vllVl~a~~~~~~l~~~-~~~----~~~~~i~GvVlt  262 (320)
T 1zu4_A          190 QNYDLLLIDTAGRLQNKTNLMAEL--EKMNKIIQQVEKSAPHEVLLVIDATTGQNGVIQA-EEF----SKVADVSGIILT  262 (320)
T ss_dssp             TTCSEEEEECCCCGGGHHHHHHHH--HHHHHHHHTTCTTCCSEEEEEEEGGGTHHHHHHH-HHH----TTTSCCCEEEEE
T ss_pred             cCCCEEEEcCCCcccccHHHHHHH--HHHHHHHhcccCCCCceEEEEEECCCcHHHHHHH-HHH----hhcCCCcEEEEe
Confidence            356799999999654322222211  111111     13478999999998543333222 222    22233 357899


Q ss_pred             cCCCCCh
Q 025346          235 KKDLIKP  241 (254)
Q Consensus       235 K~Dl~~~  241 (254)
                      |+|....
T Consensus       263 k~d~~~~  269 (320)
T 1zu4_A          263 KMDSTSK  269 (320)
T ss_dssp             CGGGCSC
T ss_pred             CCCCCCc
Confidence            9997543

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=97.27  E-value=0.00037  Score=59.31  Aligned_cols=49  Identities=22%  Similarity=0.194  Sum_probs=37.3

Q ss_pred             HccCccEEEEEEeCCCC---chhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          192 AGINADCIVVLVDACKA---PERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~~---~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      ++.++|++++|+|++++   +..++.++..+..   .++|+++|+||+|+.++++
T Consensus        76 ~~~naD~vliV~d~~~p~~s~~~l~~~l~~~~~---~~~~~ilV~NK~DL~~~~~  127 (302)
T 2yv5_A           76 KVANVDRVIIVETLKMPEFNNYLLDNMLVVYEY---FKVEPVIVFNKIDLLNEEE  127 (302)
T ss_dssp             EEESCCEEEEEECSTTTTCCHHHHHHHHHHHHH---TTCEEEEEECCGGGCCHHH
T ss_pred             HHHhcCEEEEEEECCCCCCCHHHHHHHHHHHHh---CCCCEEEEEEcccCCCccc
Confidence            58999999999999864   2344556554322   5799999999999998763

>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=97.24  E-value=8.2e-05  Score=63.56  Aligned_cols=58  Identities=28%  Similarity=0.304  Sum_probs=32.8

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCC-------CceEEEEEEEEecCCeeEEEEecCCCcc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKP-------QTTRHRILGICSGPEYQMILYDTPGIIE  175 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~-------~tt~~~~~~~~~~~~~~~~liDtpG~~~  175 (254)
                      ++..++++|++|+|||||+|.+.+......+...       ++|.....  ....  .-.++||||+..
T Consensus       172 ~G~~~~lvG~sG~GKSTLln~L~g~~~~~~G~I~~~~~~G~~tt~~~~~--~~~~--~g~v~dtpg~~~  236 (307)
T 1t9h_A          172 QDKTTVFAGQSGVGKSSLLNAISPELGLRTNEISEHLGRGKHTTRHVEL--IHTS--GGLVADTPGFSS  236 (307)
T ss_dssp             TTSEEEEEESHHHHHHHHHHHHCC-------------------CCCCCE--EEET--TEEEESSCSCSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHhcccccccccceeeecCCCcccccHHHH--hhcC--CEEEecCCCccc
Confidence            3568999999999999999999976433222222       23322111  1111  247899999765

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=97.20  E-value=0.00018  Score=60.08  Aligned_cols=59  Identities=15%  Similarity=0.106  Sum_probs=41.6

Q ss_pred             HHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHHHHHHH
Q 025346          187 KNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLEVT  251 (254)
Q Consensus       187 ~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~~~~~~  251 (254)
                      .++...+..+|+|+.|+|+..+.......+. ++     ++|.++|+||+|+.+++..+...+.+
T Consensus        13 ~~~~~~l~~~D~vl~VvDar~P~~~~~~~l~-ll-----~k~~iivlNK~DL~~~~~~~~~~~~~   71 (262)
T 3cnl_A           13 RQIKDLLRLVNTVVEVRDARAPFATSAYGVD-FS-----RKETIILLNKVDIADEKTTKKWVEFF   71 (262)
T ss_dssp             HHHHHHHTTCSEEEEEEETTSTTTTSCTTSC-CT-----TSEEEEEEECGGGSCHHHHHHHHHHH
T ss_pred             HHHHHHHhhCCEEEEEeeCCCCCcCcChHHH-hc-----CCCcEEEEECccCCCHHHHHHHHHHH
Confidence            3455668999999999999875433211111 11     78999999999999887666555544

>3l82_B F-box only protein 4; TRFH domain, helix, GTPase domain, acetylation, ADP- ribosylation, alternative splicing, cell cycle, cell division; 2.40A {Homo sapiens}

Probab=97.18  E-value=0.00072  Score=54.40  Aligned_cols=57  Identities=9%  Similarity=0.093  Sum_probs=37.5

Q ss_pred             HHHHHHHHccCccEEEEEEeCCCCc-hhHHHHH---HHhhccc--CCCCCEEEEEecC-CCCCh
Q 025346          185 MMKNVRSAGINADCIVVLVDACKAP-ERIDEIL---EEGVGDH--KDKLPILLVLNKK-DLIKP  241 (254)
Q Consensus       185 ~~~~~~~~~~~~d~iv~vid~~~~~-~~~~~~~---~~~~~~~--~~~~piivV~nK~-Dl~~~  241 (254)
                      ++..|..|+.++|++|||+|+++.. .+....+   ..++...  ..+.|++|.+||. |+...
T Consensus       115 lRplWr~Yy~~TdglIfVVDSsD~~R~eak~EL~eL~~mL~ee~~L~gapLLVlANKqqDlp~A  178 (227)
T 3l82_B          115 VIPQIQKVCEVVDGFIYVANAEAHKRHEWQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVKR  178 (227)
T ss_dssp             --CCHHHHHHHCSEEEEEEECBTTCCCCHHHHHHHHHHHSCTTSSCSCSCEEEEEEESSTTSCB
T ss_pred             HHHHHHHHhcCCCEEEEEeccccHhHHHHHHHHHHHHHHhcchhhhCCCeEEEEeCCCcCccCC
Confidence            3345778899999999999998742 1233333   3333332  2678999999995 67543

>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=97.13  E-value=0.0018  Score=55.26  Aligned_cols=24  Identities=21%  Similarity=0.286  Sum_probs=20.7

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ++..++++|++|+||||++..+.+
T Consensus       103 ~~~vi~ivG~~GsGKTTl~~~LA~  126 (306)
T 1vma_A          103 PPFVIMVVGVNGTGKTTSCGKLAK  126 (306)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHH
Confidence            455799999999999999998874

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=97.08  E-value=0.00078  Score=57.29  Aligned_cols=25  Identities=20%  Similarity=0.343  Sum_probs=21.8

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      .+..++++|++|+|||||+|.+. ..
T Consensus       164 ~G~i~~l~G~sG~GKSTLln~l~-~~  188 (302)
T 2yv5_A          164 EGFICILAGPSGVGKSSILSRLT-GE  188 (302)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHH-SC
T ss_pred             cCcEEEEECCCCCCHHHHHHHHH-Hh
Confidence            35679999999999999999998 53

>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A

Probab=97.07  E-value=0.00043  Score=61.69  Aligned_cols=119  Identities=18%  Similarity=0.188  Sum_probs=62.8

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcC------ccccccCCCCc--------------eEEEEEEE------------E---
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQ------KLSIVTNKPQT--------------TRHRILGI------------C---  158 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~------~~~~~~~~~~t--------------t~~~~~~~------------~---  158 (254)
                      ++..++++|++|+||||++..+.+.      ++..+...+..              ....+...            +   
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~~l~~~g~~Vllvd~D~~r~aa~~qL~~~~~~~gv~v~~~~~~~~p~~i~~~~l~~~  176 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEEKA  176 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEECCSSCHHHHHHHHHHHHHHTCCEEECCTTCCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEeeccccCchhHHHHHHhcccCCccEEecCCCCCHHHHHHHHHHHH
Confidence            4567889999999999999987632      11111100000              00011100            0   


Q ss_pred             ecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCC-EEEEEecCC
Q 025346          159 SGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLP-ILLVLNKKD  237 (254)
Q Consensus       159 ~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~p-iivV~nK~D  237 (254)
                      ...+..+.++||||........+...  ..... ...++.+++|+|+....... .....+..    ..+ .-+|+||+|
T Consensus       177 ~~~~~DvVIIDTaG~l~~d~~l~~el--~~i~~-~~~pd~vlLVvDa~tgq~av-~~a~~f~~----~l~i~GVIlTKlD  248 (425)
T 2ffh_A          177 RLEARDLILVDTAGRLQIDEPLMGEL--ARLKE-VLGPDEVLLVLDAMTGQEAL-SVARAFDE----KVGVTGLVLTKLD  248 (425)
T ss_dssp             HHTTCSEEEEECCCCSSCCHHHHHHH--HHHHH-HHCCSEEEEEEEGGGTTHHH-HHHHHHHH----HTCCCEEEEESGG
T ss_pred             HHCCCCEEEEcCCCcccccHHHHHHH--HHhhh-ccCCceEEEEEeccchHHHH-HHHHHHHh----cCCceEEEEeCcC
Confidence            01456799999999654321112111  11111 23688999999987643222 22222211    222 567889999


Q ss_pred             CCC
Q 025346          238 LIK  240 (254)
Q Consensus       238 l~~  240 (254)
                      ...
T Consensus       249 ~~~  251 (425)
T 2ffh_A          249 GDA  251 (425)
T ss_dssp             GCS
T ss_pred             Ccc
Confidence            754

>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=96.99  E-value=0.00047  Score=60.08  Aligned_cols=27  Identities=30%  Similarity=0.460  Sum_probs=23.4

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCcc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKL  140 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~  140 (254)
                      .+..++++|++|+|||||+|.+.+...
T Consensus       214 ~G~~~~lvG~sG~GKSTLln~L~g~~~  240 (358)
T 2rcn_A          214 TGRISIFAGQSGVGKSSLLNALLGLQN  240 (358)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHCCSS
T ss_pred             CCCEEEEECCCCccHHHHHHHHhcccc
Confidence            355899999999999999999998654

>4dzz_A Plasmid partitioning protein PARF; deviant walker BOX, DNA segregation, unknown function; HET: ADP; 1.80A {Escherichia coli} PDB: 4e03_A* 4e07_A* 4e09_A*

Probab=96.91  E-value=0.0012  Score=52.18  Aligned_cols=68  Identities=12%  Similarity=0.154  Sum_probs=43.2

Q ss_pred             CeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcc--cCCCCCEEEEEecCCCC
Q 025346          162 EYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGD--HKDKLPILLVLNKKDLI  239 (254)
Q Consensus       162 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~--~~~~~piivV~nK~Dl~  239 (254)
                      ...+.++|||+....           .....+..+|.+++++..+.........+..+...  ...+.++.+|+|++|..
T Consensus        75 ~yD~viiD~~~~~~~-----------~~~~~l~~ad~viiv~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~vv~N~~~~~  143 (206)
T 4dzz_A           75 DYDFAIVDGAGSLSV-----------ITSAAVMVSDLVIIPVTPSPLDFSAAGSVVTVLEAQAYSRKVEARFLITRKIEM  143 (206)
T ss_dssp             TSSEEEEECCSSSSH-----------HHHHHHHHCSEEEEEECSCTTTHHHHHHHHHHHTTSCGGGCCEEEEEECSBCTT
T ss_pred             CCCEEEEECCCCCCH-----------HHHHHHHHCCEEEEEecCCHHHHHHHHHHHHHHHHHHhCCCCcEEEEEeccCCC
Confidence            467999999984421           12233556899999999877433344433333221  13457789999999964


Q ss_pred             C
Q 025346          240 K  240 (254)
Q Consensus       240 ~  240 (254)
                      .
T Consensus       144 ~  144 (206)
T 4dzz_A          144 A  144 (206)
T ss_dssp             E
T ss_pred             c
Confidence            3

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=96.89  E-value=0.00078  Score=58.96  Aligned_cols=54  Identities=24%  Similarity=0.204  Sum_probs=36.4

Q ss_pred             HHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          185 MMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       185 ~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      +...+..+.+.++++++|+|+++........+...    ..+.|+++|+||+|+.+.+
T Consensus        59 f~~~l~~i~~~~~~il~VvD~~d~~~~~~~~l~~~----~~~~p~ilV~NK~DL~~~~  112 (368)
T 3h2y_A           59 FLRILNGIGKSDALVVKIVDIFDFNGSWLPGLHRF----VGNNKVLLVGNKADLIPKS  112 (368)
T ss_dssp             HHHHHHHHHHSCCEEEEEEETTSHHHHCCTTHHHH----SSSSCEEEEEECGGGSCTT
T ss_pred             HHHHHHHHhccCcEEEEEEECCCCcccHHHHHHHH----hCCCcEEEEEEChhcCCcc
Confidence            33445566778899999999987432221222222    2378999999999998654

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=96.80  E-value=0.0006  Score=54.38  Aligned_cols=28  Identities=21%  Similarity=0.400  Sum_probs=23.5

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      +..++..++++|++|+|||||++.+++.
T Consensus        15 ~~~~g~~ivl~GPSGaGKsTL~~~L~~~   42 (197)
T 3ney_A           15 YFQGRKTLVLIGASGVGRSHIKNALLSQ   42 (197)
T ss_dssp             -CCSCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCCCCEEEEECcCCCCHHHHHHHHHhh
Confidence            4456678999999999999999999864

>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=96.76  E-value=0.001  Score=56.43  Aligned_cols=26  Identities=27%  Similarity=0.259  Sum_probs=22.8

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCcc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKL  140 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~  140 (254)
                      ...++++|++|+|||||+|.+.+...
T Consensus       169 geiv~l~G~sG~GKSTll~~l~g~~~  194 (301)
T 1u0l_A          169 GKISTMAGLSGVGKSSLLNAINPGLK  194 (301)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHSTTCC
T ss_pred             CCeEEEECCCCCcHHHHHHHhccccc
Confidence            45799999999999999999997653

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=96.68  E-value=0.0024  Score=54.47  Aligned_cols=59  Identities=19%  Similarity=0.198  Sum_probs=39.3

Q ss_pred             HccCccEEEEEEeCCCCchhHHHHHHHhhc-ccCCCCCEEEEEecCCCCChHh----HHHHHHHH
Q 025346          192 AGINADCIVVLVDACKAPERIDEILEEGVG-DHKDKLPILLVLNKKDLIKPGE----IAKKLEVT  251 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~~~~~~~~~~~~~~~-~~~~~~piivV~nK~Dl~~~~~----~~~~~~~~  251 (254)
                      .+.++|.+++|+|+..+..... .+...+. ....++|.++|+||+||.++.+    +....+.+
T Consensus        83 ~~anvD~v~~V~~~~~p~~~~~-~i~r~L~~~~~~~~~~vivlnK~DL~~~~~~~~~~~~~~~~y  146 (307)
T 1t9h_A           83 PICNVDQAVLVFSAVQPSFSTA-LLDRFLVLVEANDIQPIICITKMDLIEDQDTEDTIQAYAEDY  146 (307)
T ss_dssp             TEECCCEEEEEEESTTTTCCHH-HHHHHHHHHHTTTCEEEEEEECGGGCCCHHHHHHHHHHHHHH
T ss_pred             HHHhCCEEEEEEeCCCCCCCHH-HHHHHHHHHHHCCCCEEEEEECCccCchhhhHHHHHHHHHHH
Confidence            3789999999999986443333 3333321 1135789999999999998754    44444443

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=96.68  E-value=0.00097  Score=58.35  Aligned_cols=51  Identities=27%  Similarity=0.232  Sum_probs=36.2

Q ss_pred             HHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          187 KNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       187 ~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      ..+..+...++++++|+|++++.......+...+    .+.|+++|+||+|+.+.
T Consensus        63 ~~L~~~~~~~~lil~VvD~~d~~~s~~~~l~~~l----~~~piilV~NK~DLl~~  113 (369)
T 3ec1_A           63 SMLHRIGESKALVVNIVDIFDFNGSFIPGLPRFA----ADNPILLVGNKADLLPR  113 (369)
T ss_dssp             HHHHHHHHHCCEEEEEEETTCSGGGCCSSHHHHC----TTSCEEEEEECGGGSCT
T ss_pred             HHHHHhhccCcEEEEEEECCCCCCchhhHHHHHh----CCCCEEEEEEChhcCCC
Confidence            3444556788999999999986543322233322    36899999999999875

>4ido_A Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HET: GDP; 2.09A {Homo sapiens} PDB: 4idn_A* 3q5d_A* 3q5e_A* 4idq_A* 4idp_A* 3qnu_A* 3qof_A*

Probab=96.67  E-value=0.0088  Score=53.54  Aligned_cols=65  Identities=23%  Similarity=0.242  Sum_probs=39.7

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhc------------------CccccccCCCCceEEEEEEE----E---ecCCeeEEE
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIG------------------QKLSIVTNKPQTTRHRILGI----C---SGPEYQMIL  167 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~------------------~~~~~~~~~~~tt~~~~~~~----~---~~~~~~~~l  167 (254)
                      .+...|.++|..++|||+|+|.+++                  ..|........+|.......    .   ++....+.+
T Consensus        65 ~~v~vvsv~G~~~~gks~l~N~ll~~~~~~~~~~w~~~~~~~~~gF~~~~~~~~~TkGIWmw~~p~~~~~~~g~~~~vll  144 (457)
T 4ido_A           65 KEVVAVSVAGAFRKGKSFLMDFMLRYMYNQESVDWVGDYNEPLTGFSWRGGSERETTGIQIWSEIFLINKPDGKKVAVLL  144 (457)
T ss_dssp             SBEEEEEEEEBTTSSHHHHHHHHHHHHHCTTCTTTTCCTTCCCCSSCCCCSSSCCCCSEEEESSCEEEECTTSCEEEEEE
T ss_pred             CceEEEEEECCCCCchhHHHHHHHHHhhcccccccccccccCCCCceeCCCCCCcCceEEEecCcccccCCCCCeeEEEE
Confidence            3445788999999999999996541                  12321112223444333221    1   233467999


Q ss_pred             EecCCCcccc
Q 025346          168 YDTPGIIEKK  177 (254)
Q Consensus       168 iDtpG~~~~~  177 (254)
                      +||.|+.+..
T Consensus       145 lDTEG~~d~~  154 (457)
T 4ido_A          145 MDTQGTFDSQ  154 (457)
T ss_dssp             EEECCBTCTT
T ss_pred             EeccCCCCcc
Confidence            9999987654

>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase, ultrahigh resolution, protein transport; 1.10A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B* 1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B* 2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A 1ffh_A 2ng1_A*

Probab=96.62  E-value=0.016  Score=48.92  Aligned_cols=119  Identities=18%  Similarity=0.174  Sum_probs=61.8

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcC------ccccccCCCCc--------------eEEEEEEE------------E---
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQ------KLSIVTNKPQT--------------TRHRILGI------------C---  158 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~------~~~~~~~~~~t--------------t~~~~~~~------------~---  158 (254)
                      ++..++++|++|+||||++..+.+.      +.......+..              ........            +   
T Consensus        97 ~~~~i~i~g~~G~GKTT~~~~la~~~~~~~~~v~l~~~d~~~~~~~~ql~~~~~~~~l~~~~~~~~~~p~~l~~~~l~~~  176 (295)
T 1ls1_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEEKA  176 (295)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEECCSSCHHHHHHHHHHHHHHTCCEEECCTTCCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEecCCcccHhHHHHHHHhcccCCeEEEEcCCCCCHHHHHHHHHHHH
Confidence            4567889999999999999987642      11111100000              00011000            0   


Q ss_pred             ecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCC-EEEEEecCC
Q 025346          159 SGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLP-ILLVLNKKD  237 (254)
Q Consensus       159 ~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~p-iivV~nK~D  237 (254)
                      ...+..+.++||||........+...  ...... ..++.+++|+|+... ............    ..+ .-+|+||+|
T Consensus       177 ~~~~~D~viiDtpp~~~~d~~~~~~l--~~~~~~-~~~~~~~lv~~~~~~-~~~~~~~~~~~~----~~~i~givlnk~d  248 (295)
T 1ls1_A          177 RLEARDLILVDTAGRLQIDEPLMGEL--ARLKEV-LGPDEVLLVLDAMTG-QEALSVARAFDE----KVGVTGLVLTKLD  248 (295)
T ss_dssp             HHHTCCEEEEECCCCSSCCHHHHHHH--HHHHHH-HCCSEEEEEEEGGGT-HHHHHHHHHHHH----HTCCCEEEEECGG
T ss_pred             HhCCCCEEEEeCCCCccccHHHHHHH--HHHhhh-cCCCEEEEEEeCCCc-HHHHHHHHHHhh----cCCCCEEEEECCC
Confidence            01346799999998654322222221  111111 258888999998754 222222222211    223 457899999


Q ss_pred             CCC
Q 025346          238 LIK  240 (254)
Q Consensus       238 l~~  240 (254)
                      ...
T Consensus       249 ~~~  251 (295)
T 1ls1_A          249 GDA  251 (295)
T ss_dssp             GCS
T ss_pred             CCc
Confidence            754

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=96.62  E-value=0.0012  Score=51.50  Aligned_cols=25  Identities=24%  Similarity=0.457  Sum_probs=21.7

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ++..++++|++|+|||||++.+.+.
T Consensus         4 ~g~~i~i~GpsGsGKSTL~~~L~~~   28 (180)
T 1kgd_A            4 MRKTLVLLGAHGVGRRHIKNTLITK   28 (180)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhh
Confidence            3457999999999999999999863

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=96.61  E-value=0.00023  Score=64.34  Aligned_cols=101  Identities=13%  Similarity=0.099  Sum_probs=52.7

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEE----EEecCCeeEEEEecCCCcccchhhhhHH---HH
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILG----ICSGPEYQMILYDTPGIIEKKIHMLDSM---MM  186 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~----~~~~~~~~~~liDtpG~~~~~~~~~~~~---~~  186 (254)
                      ....|+++|.+|+||||+.+++...-..   ... .+......    ...+......+||+.|  +..+......   ..
T Consensus        38 ~~~~IvlvGlpGsGKSTia~~La~~l~~---~~~-~t~~~~~d~~r~~~~g~~~~~~ifd~~g--~~~~r~re~~~~~~l  111 (469)
T 1bif_A           38 CPTLIVMVGLPARGKTYISKKLTRYLNF---IGV-PTREFNVGQYRRDMVKTYKSFEFFLPDN--EEGLKIRKQCALAAL  111 (469)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHH---TTC-CEEEEEHHHHHHHHHCSCCCGGGGCTTC--HHHHHHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHHhc---cCC-CceEEecchhhhhhccCCCcccccCCCC--HHHHHHHHHHHHHHH
Confidence            3458999999999999999998754211   111 11110000    0001112334677776  2111111111   11


Q ss_pred             HHHHHHccCccEEEEEEeCCCCchhHHHHHHHhh
Q 025346          187 KNVRSAGINADCIVVLVDACKAPERIDEILEEGV  220 (254)
Q Consensus       187 ~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~  220 (254)
                      .....++....+.++|+|+++........+....
T Consensus       112 ~~~~~~l~~~~G~~vV~D~tn~~~~~R~~~~~~~  145 (469)
T 1bif_A          112 NDVRKFLSEEGGHVAVFDATNTTRERRAMIFNFG  145 (469)
T ss_dssp             HHHHHHHHTTCCSEEEEESCCCSHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCEEEEeCCCCCHHHHHHHHHHH
Confidence            2224556567888999999986554444444433

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=96.56  E-value=0.001  Score=52.88  Aligned_cols=23  Identities=30%  Similarity=0.418  Sum_probs=20.3

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +..++++|++|+|||||++.+.+
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            45799999999999999999986

>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=96.56  E-value=0.00037  Score=55.10  Aligned_cols=36  Identities=25%  Similarity=0.319  Sum_probs=24.9

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccc-cccCCCCceEE
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLS-IVTNKPQTTRH  152 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~-~~~~~~~tt~~  152 (254)
                      .|+++||+|+|||||+++++..... .....+.||+.
T Consensus         3 pIVi~GPSG~GK~Tl~~~L~~~~~~~~~~svs~TTR~   39 (186)
T 1ex7_A            3 PIVISGPSGTGKSTLLKKLFAEYPDSFGFSVSSTTRT   39 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHCTTTEEECCCEECSC
T ss_pred             EEEEECCCCCCHHHHHHHHHHhCCCCeEEEEEEeccC
Confidence            4899999999999999999854211 12344455543

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=96.43  E-value=0.0015  Score=52.71  Aligned_cols=27  Identities=22%  Similarity=0.378  Sum_probs=22.3

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..++..++++|++|+|||||++.+.+.
T Consensus        20 i~~G~~~~lvGpsGsGKSTLl~~L~g~   46 (218)
T 1z6g_A           20 MNNIYPLVICGPSGVGKGTLIKKLLNE   46 (218)
T ss_dssp             --CCCCEEEECSTTSSHHHHHHHHHHH
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            445668999999999999999999864

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=96.42  E-value=0.00049  Score=64.11  Aligned_cols=50  Identities=20%  Similarity=0.228  Sum_probs=36.8

Q ss_pred             HhhhhhccCCcCCCCCCCchhhhhccccCCCCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346           81 SSFLSLSEKPDRNMASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus        81 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..+.++...|......+.++..        ...++..++++|++|+|||||++.+.+-
T Consensus       355 i~~~~v~~~y~~~~~~l~~isl--------~i~~G~~~~ivG~sGsGKSTll~~l~g~  404 (598)
T 3qf4_B          355 IEFKNVWFSYDKKKPVLKDITF--------HIKPGQKVALVGPTGSGKTTIVNLLMRF  404 (598)
T ss_dssp             EEEEEEECCSSSSSCSCCSEEE--------ECCTTCEEEEECCTTSSTTHHHHHHTTS
T ss_pred             EEEEEEEEECCCCCccccceEE--------EEcCCCEEEEECCCCCcHHHHHHHHhcC
Confidence            3555666666544445565553        4566789999999999999999999874

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=96.34  E-value=0.0028  Score=49.42  Aligned_cols=26  Identities=27%  Similarity=0.422  Sum_probs=22.6

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      .++..++++|++|+||||+++.+.+.
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            34567999999999999999999875

>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=96.33  E-value=0.0012  Score=54.24  Aligned_cols=28  Identities=21%  Similarity=0.229  Sum_probs=24.2

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ...++..++++|++|+|||||++.+.+-
T Consensus        24 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   51 (243)
T 1mv5_A           24 EAQPNSIIAFAGPSGGGKSTIFSLLERF   51 (243)
T ss_dssp             EECTTEEEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3456678999999999999999999875

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=96.32  E-value=0.0022  Score=50.53  Aligned_cols=25  Identities=16%  Similarity=0.367  Sum_probs=21.7

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ++..++++|++|+||||+++.+.+.
T Consensus         6 ~g~ii~l~Gp~GsGKSTl~~~L~~~   30 (205)
T 3tr0_A            6 KANLFIISAPSGAGKTSLVRALVKA   30 (205)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHhh
Confidence            3457999999999999999999864

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=96.32  E-value=0.0022  Score=51.10  Aligned_cols=27  Identities=26%  Similarity=0.293  Sum_probs=22.1

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..++..++++|++|+|||||++.+.+.
T Consensus        17 i~~Gei~~l~GpnGsGKSTLl~~l~gl   43 (207)
T 1znw_A           17 AAVGRVVVLSGPSAVGKSTVVRCLRER   43 (207)
T ss_dssp             --CCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            345668999999999999999998864

>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=96.30  E-value=0.00069  Score=56.90  Aligned_cols=28  Identities=36%  Similarity=0.443  Sum_probs=24.0

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ...++..++++|++|+|||||++.+.+-
T Consensus        30 ~i~~Ge~~~iiGpnGsGKSTLl~~l~Gl   57 (275)
T 3gfo_A           30 NIKRGEVTAILGGNGVGKSTLFQNFNGI   57 (275)
T ss_dssp             EEETTSEEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHcC
Confidence            3455678999999999999999999875

>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=96.28  E-value=0.0023  Score=51.80  Aligned_cols=26  Identities=19%  Similarity=0.282  Sum_probs=22.3

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      +++..++++|++|+|||||++.+.+.
T Consensus        14 ~~G~ii~l~GpsGsGKSTLlk~L~g~   39 (219)
T 1s96_A           14 AQGTLYIVSAPSGAGKSSLIQALLKT   39 (219)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhcc
Confidence            45668999999999999999999864

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=96.27  E-value=0.0021  Score=50.20  Aligned_cols=22  Identities=32%  Similarity=0.723  Sum_probs=19.9

Q ss_pred             EEEEEeCCCCChHHHHHHHhcC
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      +++++|++|+|||||++.+.+.
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            5899999999999999998864

>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=96.22  E-value=0.0006  Score=58.15  Aligned_cols=50  Identities=16%  Similarity=0.165  Sum_probs=35.7

Q ss_pred             HhhhhhccCCcCCCCCCCchhhhhccccCCCCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346           81 SSFLSLSEKPDRNMASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus        81 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..+.++.+.|......+.++.+        ...++..++++|++|+|||||++.+.+-
T Consensus        54 i~~~~vs~~y~~~~~vL~~isl--------~i~~Ge~vaivG~sGsGKSTLl~ll~gl  103 (306)
T 3nh6_A           54 IEFENVHFSYADGRETLQDVSF--------TVMPGQTLALVGPSGAGKSTILRLLFRF  103 (306)
T ss_dssp             EEEEEEEEESSTTCEEEEEEEE--------EECTTCEEEEESSSCHHHHHHHHHHTTS
T ss_pred             EEEEEEEEEcCCCCceeeeeeE--------EEcCCCEEEEECCCCchHHHHHHHHHcC
Confidence            4555666666433334455443        4466779999999999999999999874

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=96.19  E-value=0.0027  Score=50.56  Aligned_cols=26  Identities=38%  Similarity=0.524  Sum_probs=22.2

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      .++..++++|++|+|||||++.+.+.
T Consensus        20 ~~g~~v~I~G~sGsGKSTl~~~l~~~   45 (208)
T 3c8u_A           20 PGRQLVALSGAPGSGKSTLSNPLAAA   45 (208)
T ss_dssp             CSCEEEEEECCTTSCTHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            44568999999999999999988753

>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=96.13  E-value=0.0033  Score=50.12  Aligned_cols=25  Identities=20%  Similarity=0.385  Sum_probs=22.0

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ++..++++|++|+||||+++.+.+.
T Consensus         7 ~g~~i~l~GpsGsGKsTl~~~L~~~   31 (208)
T 3tau_A            7 RGLLIVLSGPSGVGKGTVREAVFKD   31 (208)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHS
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHhh
Confidence            4567999999999999999999865

>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=96.12  E-value=0.0036  Score=51.12  Aligned_cols=28  Identities=25%  Similarity=0.375  Sum_probs=24.1

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ...++..++++|++|+|||||++.+.+-
T Consensus        27 ~i~~Ge~~~iiG~nGsGKSTLl~~l~Gl   54 (235)
T 3tif_A           27 NIKEGEFVSIMGPSGSGKSTMLNIIGCL   54 (235)
T ss_dssp             EECTTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHhcC
Confidence            3456678999999999999999999875

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.04  E-value=0.042  Score=48.90  Aligned_cols=25  Identities=24%  Similarity=0.399  Sum_probs=21.6

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ..+..+++.|+||+|||+++..+.+
T Consensus       204 ~~prGiLL~GPPGtGKT~lakAiA~  228 (428)
T 4b4t_K          204 DPPRGVLLYGPPGTGKTMLVKAVAN  228 (428)
T ss_dssp             CCCCEEEEESCTTTTHHHHHHHHHH
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHH
Confidence            4455799999999999999999875

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=95.99  E-value=0.0039  Score=49.50  Aligned_cols=26  Identities=27%  Similarity=0.356  Sum_probs=21.8

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      .++..++++|++|+||||+++.+.+.
T Consensus         4 ~~~~~i~i~G~~GsGKSTl~~~l~~~   29 (211)
T 3asz_A            4 PKPFVIGIAGGTASGKTTLAQALART   29 (211)
T ss_dssp             -CCEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHH
Confidence            34567999999999999999988764

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.97  E-value=0.053  Score=48.37  Aligned_cols=27  Identities=26%  Similarity=0.357  Sum_probs=22.6

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ...+..+++.|+||+|||+++..+.+.
T Consensus       212 ~~~prGvLL~GPPGtGKTllAkAiA~e  238 (437)
T 4b4t_L          212 IKPPKGVLLYGPPGTGKTLLAKAVAAT  238 (437)
T ss_dssp             CCCCCEEEEESCTTSSHHHHHHHHHHH
T ss_pred             CCCCCeEEEECCCCCcHHHHHHHHHHH
Confidence            344567999999999999999998853

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=95.97  E-value=0.0043  Score=48.86  Aligned_cols=25  Identities=24%  Similarity=0.429  Sum_probs=21.8

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ++..++++|++|+||||+++.+.+.
T Consensus         5 ~g~~i~l~G~~GsGKSTl~~~L~~~   29 (207)
T 2j41_A            5 KGLLIVLSGPSGVGKGTVRKRIFED   29 (207)
T ss_dssp             CCCEEEEECSTTSCHHHHHHHHHHC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHh
Confidence            4567999999999999999998764

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=95.94  E-value=0.0044  Score=47.81  Aligned_cols=23  Identities=30%  Similarity=0.508  Sum_probs=19.7

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHh
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMI  136 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~  136 (254)
                      ++..++++|++|+|||||++.+.
T Consensus         8 ~gei~~l~G~nGsGKSTl~~~~~   30 (171)
T 4gp7_A            8 ELSLVVLIGSSGSGKSTFAKKHF   30 (171)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHS
T ss_pred             CCEEEEEECCCCCCHHHHHHHHc
Confidence            45579999999999999999644

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=95.94  E-value=0.0048  Score=49.98  Aligned_cols=27  Identities=30%  Similarity=0.359  Sum_probs=23.3

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..++..++++|++|+|||||++.+.+-
T Consensus        27 i~~Ge~~~iiG~nGsGKSTLl~~l~Gl   53 (224)
T 2pcj_A           27 VKKGEFVSIIGASGSGKSTLLYILGLL   53 (224)
T ss_dssp             EETTCEEEEEECTTSCHHHHHHHHTTS
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            345668999999999999999999875

>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=95.91  E-value=0.0052  Score=50.23  Aligned_cols=29  Identities=28%  Similarity=0.457  Sum_probs=24.7

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCc
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      ...++..++++|++|+|||||++.+.+-.
T Consensus        27 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           27 SIPEGALVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             EECTTCEEEEECSTTSSHHHHHHHHTTCS
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34566789999999999999999998753

>3l2o_B F-box only protein 4; small G protein fold, UBL conjugation pathway, ubiquitin Pro ligase, protein binding-cell cycle complex; 2.80A {Homo sapiens}

Probab=95.88  E-value=0.0062  Score=51.36  Aligned_cols=55  Identities=9%  Similarity=0.093  Sum_probs=36.4

Q ss_pred             HHHHHHccCccEEEEEEeCCCCch-hHHHHHH---Hhhccc--CCCCCEEEEEec-CCCCCh
Q 025346          187 KNVRSAGINADCIVVLVDACKAPE-RIDEILE---EGVGDH--KDKLPILLVLNK-KDLIKP  241 (254)
Q Consensus       187 ~~~~~~~~~~d~iv~vid~~~~~~-~~~~~~~---~~~~~~--~~~~piivV~nK-~Dl~~~  241 (254)
                      ..|..|+.++|++|||||+++... +....+.   .++...  ..+.|++|.+|| .|+...
T Consensus       202 plWr~Yy~~tdglIfVVDSsDreRleak~EL~eL~~mL~e~~~l~~apLLVfANKkQDlp~A  263 (312)
T 3l2o_B          202 PQIQKVCEVVDGFIYVANAEAHKRHEWQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVKR  263 (312)
T ss_dssp             HHHHHHHHHCSEEEECCBCBTTCCCCHHHHHHHHHHHHCHHHHCTTCCEEEEEEESSTTSCB
T ss_pred             HHHHHHhcCCCEEEEEecCCcHhHHHHHHHHHHHHHHhcchhhcCCCeEEEEeCCcccccCC
Confidence            446788999999999999987421 1222222   223221  257999999997 588643

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=95.88  E-value=0.034  Score=46.04  Aligned_cols=24  Identities=25%  Similarity=0.405  Sum_probs=20.7

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ....+++.|++|+|||+++..+..
T Consensus        50 ~~~~~ll~G~~GtGKT~la~~la~   73 (285)
T 3h4m_A           50 PPKGILLYGPPGTGKTLLAKAVAT   73 (285)
T ss_dssp             CCSEEEEESSSSSSHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHH
Confidence            345699999999999999999864

>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=95.86  E-value=0.0056  Score=46.85  Aligned_cols=27  Identities=30%  Similarity=0.322  Sum_probs=23.0

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      .++..++++|+.|+|||||++.+.+.-
T Consensus        31 ~~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           31 EKAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            455679999999999999999998754

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=95.84  E-value=0.0056  Score=50.84  Aligned_cols=28  Identities=18%  Similarity=0.261  Sum_probs=24.0

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ...++..++++|++|+|||||++.+.+-
T Consensus        28 ~i~~Ge~~~liG~nGsGKSTLlk~l~Gl   55 (262)
T 1b0u_A           28 QARAGDVISIIGSSGSGKSTFLRCINFL   55 (262)
T ss_dssp             EECTTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3456678999999999999999999875

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=95.84  E-value=0.12  Score=42.00  Aligned_cols=23  Identities=30%  Similarity=0.446  Sum_probs=20.3

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ...+++.|++|+|||+++..+..
T Consensus        39 ~~~vll~G~~GtGKT~la~~la~   61 (262)
T 2qz4_A           39 PKGALLLGPPGCGKTLLAKAVAT   61 (262)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            45699999999999999999875

>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=95.81  E-value=0.0064  Score=46.70  Aligned_cols=25  Identities=24%  Similarity=0.418  Sum_probs=21.3

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .++..++++|++|+||||+++.+.+
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            3456799999999999999998864

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=95.80  E-value=0.0051  Score=48.75  Aligned_cols=24  Identities=29%  Similarity=0.462  Sum_probs=21.0

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ++..++++|++|+||||+++.+..
T Consensus        11 ~~~~i~l~G~sGsGKsTl~~~L~~   34 (204)
T 2qor_A           11 RIPPLVVCGPSGVGKGTLIKKVLS   34 (204)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHH
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHH
Confidence            455799999999999999999874

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=95.79  E-value=0.092  Score=44.70  Aligned_cols=23  Identities=30%  Similarity=0.410  Sum_probs=20.5

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ...+++.|++|+|||+++..+..
T Consensus        45 ~~~iLL~GppGtGKT~la~ala~   67 (322)
T 1xwi_A           45 WRGILLFGPPGTGKSYLAKAVAT   67 (322)
T ss_dssp             CSEEEEESSSSSCHHHHHHHHHH
T ss_pred             CceEEEECCCCccHHHHHHHHHH
Confidence            45799999999999999999875

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=95.78  E-value=0.087  Score=43.38  Aligned_cols=26  Identities=27%  Similarity=0.372  Sum_probs=21.7

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      .....+++.|++|+|||+++..+...
T Consensus        62 ~~~~~vLl~G~~GtGKT~la~~ia~~   87 (272)
T 1d2n_A           62 TPLVSVLLEGPPHSGKTALAAKIAEE   87 (272)
T ss_dssp             CSEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHH
Confidence            34457999999999999999988753

>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=95.77  E-value=0.0061  Score=50.18  Aligned_cols=27  Identities=22%  Similarity=0.380  Sum_probs=23.6

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..++..++++|++|+|||||++.+.+-
T Consensus        32 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   58 (247)
T 2ff7_A           32 IKQGEVIGIVGRSGSGKSTLTKLIQRF   58 (247)
T ss_dssp             EETTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            345668999999999999999999875

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=95.75  E-value=0.0065  Score=50.40  Aligned_cols=28  Identities=25%  Similarity=0.239  Sum_probs=24.2

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ...++..++++|++|+|||||++.+.+-
T Consensus        42 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   69 (260)
T 2ghi_A           42 FIPSGTTCALVGHTGSGKSTIAKLLYRF   69 (260)
T ss_dssp             EECTTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            3456678999999999999999999875

>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=95.75  E-value=0.0061  Score=50.77  Aligned_cols=28  Identities=32%  Similarity=0.420  Sum_probs=24.0

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ...++..++++|++|+|||||++.+.+-
T Consensus        33 ~i~~Ge~~~liG~nGsGKSTLl~~l~Gl   60 (266)
T 4g1u_C           33 HIASGEMVAIIGPNGAGKSTLLRLLTGY   60 (266)
T ss_dssp             EEETTCEEEEECCTTSCHHHHHHHHTSS
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHhcC
Confidence            3455678999999999999999999875

>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=95.74  E-value=0.0063  Score=50.36  Aligned_cols=28  Identities=32%  Similarity=0.443  Sum_probs=23.9

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ...++..++++|++|+|||||++.+.+-
T Consensus        29 ~i~~Ge~~~liG~nGsGKSTLlk~l~Gl   56 (257)
T 1g6h_A           29 SVNKGDVTLIIGPNGSGKSTLINVITGF   56 (257)
T ss_dssp             EEETTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEeCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3445668999999999999999999875

>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=95.74  E-value=0.0064  Score=49.42  Aligned_cols=27  Identities=26%  Similarity=0.484  Sum_probs=23.6

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..++..++++|++|+|||||++.+.+-
T Consensus        31 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   57 (229)
T 2pze_A           31 IERGQLLAVAGSTGAGKTSLLMMIMGE   57 (229)
T ss_dssp             EETTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            345678999999999999999999875

>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=95.72  E-value=0.0064  Score=51.71  Aligned_cols=27  Identities=41%  Similarity=0.587  Sum_probs=23.9

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ...++..++++|++|+|||||++.+.+
T Consensus       122 ~i~~Ge~vaIvGpsGsGKSTLl~lL~g  148 (305)
T 2v9p_A          122 GIPKKNCLAFIGPPNTGKSMLCNSLIH  148 (305)
T ss_dssp             TCTTCSEEEEECSSSSSHHHHHHHHHH
T ss_pred             EecCCCEEEEECCCCCcHHHHHHHHhh
Confidence            556778999999999999999998875

>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=95.72  E-value=0.0068  Score=50.43  Aligned_cols=28  Identities=25%  Similarity=0.229  Sum_probs=24.1

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ...++..++++|++|+|||||++.+.+-
T Consensus        46 ~i~~Gei~~liG~NGsGKSTLlk~l~Gl   73 (263)
T 2olj_A           46 HIREGEVVVVIGPSGSGKSTFLRCLNLL   73 (263)
T ss_dssp             EECTTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEcCCCEEEEEcCCCCcHHHHHHHHHcC
Confidence            3456678999999999999999999875

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=95.71  E-value=0.006  Score=48.16  Aligned_cols=25  Identities=28%  Similarity=0.436  Sum_probs=21.1

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .++..++++|++|+||||+++.+.+
T Consensus        27 ~~g~~i~l~G~~GsGKSTl~~~L~~   51 (200)
T 4eun_A           27 EPTRHVVVMGVSGSGKTTIAHGVAD   51 (200)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHH
Confidence            3456899999999999999998864

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=95.71  E-value=0.006  Score=50.66  Aligned_cols=26  Identities=38%  Similarity=0.482  Sum_probs=22.5

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      .++..++++|++|+||||+++.+.+.
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            45668999999999999999998863

>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=95.69  E-value=0.0071  Score=50.08  Aligned_cols=28  Identities=14%  Similarity=0.189  Sum_probs=24.1

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ...++..++++|++|+|||||++.+.+-
T Consensus        37 ~i~~Gei~~l~G~NGsGKSTLlk~l~Gl   64 (256)
T 1vpl_A           37 EIEEGEIFGLIGPNGAGKTTTLRIISTL   64 (256)
T ss_dssp             EECTTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhcC
Confidence            3456678999999999999999999875

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=95.68  E-value=0.0072  Score=50.47  Aligned_cols=28  Identities=25%  Similarity=0.234  Sum_probs=24.2

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ...++..++++|++|+|||||++.+.+-
T Consensus        41 ~i~~Ge~~~i~G~nGsGKSTLlk~l~Gl   68 (271)
T 2ixe_A           41 TLYPGKVTALVGPNGSGKSTVAALLQNL   68 (271)
T ss_dssp             EECTTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3456678999999999999999999875

>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=95.68  E-value=0.0062  Score=49.06  Aligned_cols=26  Identities=27%  Similarity=0.367  Sum_probs=22.8

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      .++..++++|++|+|||||++.+.+-
T Consensus        33 ~~Ge~~~iiG~NGsGKSTLlk~l~Gl   58 (214)
T 1sgw_A           33 EKGNVVNFHGPNGIGKTTLLKTISTY   58 (214)
T ss_dssp             ETTCCEEEECCTTSSHHHHHHHHTTS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            45567999999999999999999875

>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=95.67  E-value=0.0074  Score=50.27  Aligned_cols=28  Identities=32%  Similarity=0.491  Sum_probs=24.3

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ...++..++++|++|+|||||++.+.+-
T Consensus        42 ~i~~Ge~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           42 DVHPGEVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             EECTTCEEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3456678999999999999999999985

>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=95.64  E-value=0.0073  Score=49.42  Aligned_cols=27  Identities=22%  Similarity=0.386  Sum_probs=23.5

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..++..++++|++|+|||||++.+.+-
T Consensus        29 i~~Ge~~~l~G~nGsGKSTLl~~l~Gl   55 (240)
T 1ji0_A           29 VPRGQIVTLIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             EETTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            345668999999999999999999875

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=95.63  E-value=0.038  Score=46.44  Aligned_cols=23  Identities=17%  Similarity=0.196  Sum_probs=19.6

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +..+++.|++|+|||+++..+..
T Consensus        36 p~~lLl~GppGtGKT~la~aiA~   58 (293)
T 3t15_A           36 PLILGIWGGKGQGKSFQCELVFR   58 (293)
T ss_dssp             CSEEEEEECTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            34677889999999999998874

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=95.61  E-value=0.0062  Score=46.58  Aligned_cols=22  Identities=27%  Similarity=0.424  Sum_probs=19.8

Q ss_pred             cEEEEEeCCCCChHHHHHHHhc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ..++++|++|+||||+.+.+.+
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            4699999999999999998875

>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=95.60  E-value=0.0079  Score=49.55  Aligned_cols=27  Identities=33%  Similarity=0.450  Sum_probs=23.6

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..++..++++|++|+|||||++.+.+-
T Consensus        26 i~~Ge~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           26 VPKGEVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             EETTCEEEEECSTTSSHHHHHHHHHTC
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            345668999999999999999999985

>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=95.60  E-value=0.0077  Score=49.67  Aligned_cols=27  Identities=30%  Similarity=0.429  Sum_probs=23.4

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..++..++++|++|+|||||++.+.+-
T Consensus        23 i~~Ge~~~liG~NGsGKSTLlk~l~Gl   49 (249)
T 2qi9_C           23 VRAGEILHLVGPNGAGKSTLLARMAGM   49 (249)
T ss_dssp             EETTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhCC
Confidence            345668999999999999999999875

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.59  E-value=0.062  Score=47.87  Aligned_cols=26  Identities=27%  Similarity=0.360  Sum_probs=22.2

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..+..+++.||||+|||+++..+.+.
T Consensus       213 ~~prGvLLyGPPGTGKTllAkAiA~e  238 (434)
T 4b4t_M          213 RAPKGALMYGPPGTGKTLLARACAAQ  238 (434)
T ss_dssp             CCCCEEEEESCTTSSHHHHHHHHHHH
T ss_pred             CCCCeeEEECcCCCCHHHHHHHHHHH
Confidence            44567999999999999999998853

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=95.58  E-value=0.0082  Score=49.94  Aligned_cols=28  Identities=29%  Similarity=0.341  Sum_probs=24.0

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ...++..++++|++|+|||||++.+.+-
T Consensus        29 ~i~~Ge~~~liG~nGsGKSTLl~~i~Gl   56 (266)
T 2yz2_A           29 VINEGECLLVAGNTGSGKSTLLQIVAGL   56 (266)
T ss_dssp             EECTTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHhCC
Confidence            3455678999999999999999999875

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=95.55  E-value=0.0084  Score=49.13  Aligned_cols=23  Identities=30%  Similarity=0.564  Sum_probs=21.3

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcC
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..++++|++|+|||||++.+.+-
T Consensus        25 e~~~liG~nGsGKSTLl~~l~Gl   47 (240)
T 2onk_A           25 DYCVLLGPTGAGKSVFLELIAGI   47 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEEECCCCCCHHHHHHHHhCC
Confidence            67999999999999999999875

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=95.54  E-value=0.0081  Score=50.41  Aligned_cols=27  Identities=26%  Similarity=0.222  Sum_probs=23.5

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..++..++++|++|+|||||++.+.+-
T Consensus        44 i~~Ge~~~liG~NGsGKSTLlk~l~Gl   70 (279)
T 2ihy_A           44 IAKGDKWILYGLNGAGKTTLLNILNAY   70 (279)
T ss_dssp             EETTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhCC
Confidence            345668999999999999999999875

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=95.54  E-value=0.012  Score=46.61  Aligned_cols=28  Identities=29%  Similarity=0.396  Sum_probs=23.6

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ...++..++++|++|+||||+++.+.+.
T Consensus        17 ~~~~~~~i~i~G~~GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           17 RGSKTFIIGISGVTNSGKTTLAKNLQKH   44 (207)
T ss_dssp             CSCCCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             cCCCCeEEEEECCCCCCHHHHHHHHHHh
Confidence            3445568999999999999999999875

>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=95.52  E-value=0.0079  Score=47.48  Aligned_cols=26  Identities=35%  Similarity=0.316  Sum_probs=22.0

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      .++..++++|++|+||||+.+.+.+.
T Consensus        23 ~~g~~i~l~G~sGsGKSTl~~~La~~   48 (200)
T 3uie_A           23 QKGCVIWVTGLSGSGKSTLACALNQM   48 (200)
T ss_dssp             SCCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            44668999999999999999988753

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=95.51  E-value=0.004  Score=54.16  Aligned_cols=28  Identities=25%  Similarity=0.429  Sum_probs=23.9

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCc
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      ..++..++++|++|+|||||++.+.+-.
T Consensus        38 i~~Ge~~~llGpnGsGKSTLLr~iaGl~   65 (355)
T 1z47_A           38 IREGEMVGLLGPSGSGKTTILRLIAGLE   65 (355)
T ss_dssp             EETTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             ECCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            3456689999999999999999998753

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=95.51  E-value=0.0089  Score=48.79  Aligned_cols=22  Identities=27%  Similarity=0.469  Sum_probs=20.4

Q ss_pred             CcEEEEEeCCCCChHHHHHHHh
Q 025346          115 SGYVAVLGKPNVGKSTLANQMI  136 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~  136 (254)
                      +..++++|++|+||||+++.+.
T Consensus        27 ~~~i~l~G~~GsGKSTl~k~La   48 (246)
T 2bbw_A           27 LLRAVILGPPGSGKGTVCQRIA   48 (246)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHH
Confidence            4589999999999999999998

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=95.50  E-value=0.0056  Score=49.48  Aligned_cols=26  Identities=23%  Similarity=0.350  Sum_probs=17.3

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHh-cC
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMI-GQ  138 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~-~~  138 (254)
                      .++..++++|++|+||||+++.+. +.
T Consensus        25 ~~G~ii~l~Gp~GsGKSTl~~~L~~~~   51 (231)
T 3lnc_A           25 SVGVILVLSSPSGCGKTTVANKLLEKQ   51 (231)
T ss_dssp             ECCCEEEEECSCC----CHHHHHHC--
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhcC
Confidence            345679999999999999999998 54

>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=95.48  E-value=0.0047  Score=54.36  Aligned_cols=49  Identities=22%  Similarity=0.278  Sum_probs=34.5

Q ss_pred             hhhhhccCCcC-CCCCCCchhhhhccccCCCCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346           82 SFLSLSEKPDR-NMASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus        82 ~~~~~~~~~~~-~~~~l~~~~~~~~~~~~~~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      .+.++.+.|.. ....+.++..        ....+..++++|++|+|||||++.+.+-
T Consensus        21 ~~~~l~~~y~~~~~~~L~~vsl--------~i~~Ge~~~llGpsGsGKSTLLr~iaGl   70 (390)
T 3gd7_A           21 TVKDLTAKYTEGGNAILENISF--------SISPGQRVGLLGRTGSGKSTLLSAFLRL   70 (390)
T ss_dssp             EEEEEEEESSSSSCCSEEEEEE--------EECTTCEEEEEESTTSSHHHHHHHHHTC
T ss_pred             EEEEEEEEecCCCeEEeeceeE--------EEcCCCEEEEECCCCChHHHHHHHHhCC
Confidence            44555666632 2334555543        4456778999999999999999999874

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.47  E-value=0.13  Score=45.25  Aligned_cols=26  Identities=27%  Similarity=0.405  Sum_probs=21.9

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..+..+++.|+||+|||.++..+.+.
T Consensus       180 ~~prGvLL~GPPGTGKTllAkAiA~e  205 (405)
T 4b4t_J          180 AQPKGVILYGPPGTGKTLLARAVAHH  205 (405)
T ss_dssp             CCCCCEEEESCSSSSHHHHHHHHHHH
T ss_pred             CCCCceEEeCCCCCCHHHHHHHHHHh
Confidence            34557999999999999999998753

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=95.46  E-value=0.0085  Score=51.10  Aligned_cols=26  Identities=31%  Similarity=0.279  Sum_probs=22.7

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ..++..++++|++|+|||||++.+.+
T Consensus        87 ~~~g~ivgI~G~sGsGKSTL~~~L~g  112 (312)
T 3aez_A           87 RPVPFIIGVAGSVAVGKSTTARVLQA  112 (312)
T ss_dssp             SCCCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCchHHHHHHHHHh
Confidence            45567899999999999999998876

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=95.46  E-value=0.0089  Score=49.37  Aligned_cols=27  Identities=41%  Similarity=0.601  Sum_probs=23.4

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..++..++++|++|+|||||++.+.+-
T Consensus        28 i~~Ge~~~l~G~nGsGKSTLl~~l~Gl   54 (253)
T 2nq2_C           28 LNKGDILAVLGQNGCGKSTLLDLLLGI   54 (253)
T ss_dssp             EETTCEEEEECCSSSSHHHHHHHHTTS
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            345668999999999999999999875

>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=95.43  E-value=0.01  Score=50.05  Aligned_cols=29  Identities=24%  Similarity=0.420  Sum_probs=24.6

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCc
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      ...++..++++|++|+|||||++.+.+-.
T Consensus        60 ~i~~Ge~~~i~G~NGsGKSTLlk~l~Gl~   88 (290)
T 2bbs_A           60 KIERGQLLAVAGSTGAGKTSLLMMIMGEL   88 (290)
T ss_dssp             EECTTCEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            34566789999999999999999998753

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.42  E-value=0.13  Score=46.06  Aligned_cols=26  Identities=19%  Similarity=0.341  Sum_probs=22.3

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..+..+++.|++|+|||+|+..+.+.
T Consensus       241 ~pprGILLyGPPGTGKTlLAkAiA~e  266 (467)
T 4b4t_H          241 DPPKGILLYGPPGTGKTLCARAVANR  266 (467)
T ss_dssp             CCCSEEEECSCTTSSHHHHHHHHHHH
T ss_pred             CCCCceEeeCCCCCcHHHHHHHHHhc
Confidence            45668999999999999999998753

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=95.42  E-value=0.0089  Score=45.36  Aligned_cols=20  Identities=30%  Similarity=0.534  Sum_probs=18.4

Q ss_pred             cEEEEEeCCCCChHHHHHHH
Q 025346          116 GYVAVLGKPNVGKSTLANQM  135 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~  135 (254)
                      ..|+++|++|+||||+.+.+
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            36899999999999999998

>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=95.41  E-value=0.013  Score=49.13  Aligned_cols=23  Identities=22%  Similarity=0.283  Sum_probs=20.6

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHh
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMI  136 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~  136 (254)
                      .+..|++.|.+|+||||+.+.+.
T Consensus        74 ~~~iI~I~G~~GSGKSTva~~La   96 (281)
T 2f6r_A           74 GLYVLGLTGISGSGKSSVAQRLK   96 (281)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Confidence            45689999999999999999887

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=95.40  E-value=0.01  Score=46.79  Aligned_cols=25  Identities=20%  Similarity=0.227  Sum_probs=21.0

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .++..++++|++|+||||+...+..
T Consensus        23 ~~~~~i~l~G~~GsGKsTl~~~La~   47 (199)
T 3vaa_A           23 NAMVRIFLTGYMGAGKTTLGKAFAR   47 (199)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHHH
Confidence            3456899999999999999998864

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=95.39  E-value=0.0092  Score=48.75  Aligned_cols=27  Identities=22%  Similarity=0.370  Sum_probs=22.1

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ...++..++++|+.|+||||+++.+.+
T Consensus        21 ~i~~g~iigI~G~~GsGKSTl~k~L~~   47 (245)
T 2jeo_A           21 QSMRPFLIGVSGGTASGKSTVCEKIME   47 (245)
T ss_dssp             --CCSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             cCCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            334566899999999999999998876

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=95.38  E-value=0.0078  Score=48.22  Aligned_cols=24  Identities=33%  Similarity=0.241  Sum_probs=21.7

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcC
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      +..++++|++|+|||||++.+.+.
T Consensus        22 Ge~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           22 NTIVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             CSEEEEECCTTSSTTHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            457999999999999999999876

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=95.36  E-value=0.0099  Score=45.19  Aligned_cols=21  Identities=24%  Similarity=0.205  Sum_probs=19.1

Q ss_pred             EEEEEeCCCCChHHHHHHHhc
Q 025346          117 YVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .|++.|++|+||||+.+.+..
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~~   23 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLSK   23 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999998864

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=95.34  E-value=0.0079  Score=46.49  Aligned_cols=24  Identities=29%  Similarity=0.468  Sum_probs=21.1

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcC
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      +..+++.|++|+|||||++.+.+.
T Consensus        38 g~~~~l~G~~G~GKTtL~~~i~~~   61 (180)
T 3ec2_A           38 GKGLTFVGSPGVGKTHLAVATLKA   61 (180)
T ss_dssp             CCEEEECCSSSSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
Confidence            457999999999999999998764

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=95.34  E-value=0.0089  Score=46.55  Aligned_cols=21  Identities=29%  Similarity=0.453  Sum_probs=19.2

Q ss_pred             EEEEEeCCCCChHHHHHHHhc
Q 025346          117 YVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .++++|++|+||||+++.+.+
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            588999999999999999975

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=95.32  E-value=0.011  Score=45.30  Aligned_cols=22  Identities=36%  Similarity=0.576  Sum_probs=19.8

Q ss_pred             cEEEEEeCCCCChHHHHHHHhc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ..|+++|++|+||||+++.+..
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            3689999999999999999885

>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=95.32  E-value=0.012  Score=51.24  Aligned_cols=29  Identities=21%  Similarity=0.349  Sum_probs=24.5

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCc
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      ...++..++++|++|+|||||++.+.+-.
T Consensus        26 ~i~~Ge~~~llGpsGsGKSTLLr~iaGl~   54 (359)
T 3fvq_A           26 SLDPGEILFIIGASGCGKTTLLRCLAGFE   54 (359)
T ss_dssp             EECTTCEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             EEcCCCEEEEECCCCchHHHHHHHHhcCC
Confidence            34556789999999999999999999753

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=95.31  E-value=0.014  Score=45.43  Aligned_cols=26  Identities=23%  Similarity=0.473  Sum_probs=22.2

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      .++..|+++|++|+||||+.+.+...
T Consensus         8 ~~~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A            8 PKGINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             CSSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            44568999999999999999988754

>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=95.30  E-value=0.064  Score=41.89  Aligned_cols=21  Identities=24%  Similarity=0.341  Sum_probs=19.0

Q ss_pred             EEEEEeCCCCChHHHHHHHhc
Q 025346          117 YVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .+++.|++|+|||+++..+..
T Consensus        40 ~~ll~G~~G~GKT~l~~~l~~   60 (226)
T 2chg_A           40 HLLFSGPPGTGKTATAIALAR   60 (226)
T ss_dssp             CEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            399999999999999998875

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=95.29  E-value=0.012  Score=45.15  Aligned_cols=22  Identities=18%  Similarity=0.302  Sum_probs=19.8

Q ss_pred             cEEEEEeCCCCChHHHHHHHhc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ..|+++|++|+||||+.+.+..
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            4689999999999999999875

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=95.25  E-value=0.011  Score=47.33  Aligned_cols=27  Identities=22%  Similarity=0.279  Sum_probs=23.2

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ...++..++++|++|+|||||++.+++
T Consensus        21 gi~~G~~~~l~G~nGsGKSTll~~l~g   47 (231)
T 4a74_A           21 GIETQAITEVFGEFGSGKTQLAHTLAV   47 (231)
T ss_dssp             SEESSEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCCCCcEEEEECCCCCCHHHHHHHHHH
Confidence            345566899999999999999999986

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=95.25  E-value=0.011  Score=45.93  Aligned_cols=24  Identities=25%  Similarity=0.299  Sum_probs=21.2

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcC
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      .+.++++|++|+|||||++.++..
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~~   29 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIPA   29 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHh
Confidence            457999999999999999999864

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=95.23  E-value=0.0091  Score=47.07  Aligned_cols=22  Identities=36%  Similarity=0.481  Sum_probs=19.9

Q ss_pred             EEEEEeCCCCChHHHHHHHhcC
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      .++++|++|+||||+++.+.+.
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            5899999999999999998864

>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=95.23  E-value=0.0066  Score=56.25  Aligned_cols=49  Identities=18%  Similarity=0.238  Sum_probs=34.2

Q ss_pred             hhhhhccCCcCC-CCCCCchhhhhccccCCCCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346           82 SFLSLSEKPDRN-MASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus        82 ~~~~~~~~~~~~-~~~l~~~~~~~~~~~~~~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      .+.++...|... ...+.++..        ...++..++++|++|+|||||++.+.+-
T Consensus       343 ~~~~v~~~y~~~~~~~l~~v~~--------~i~~G~~~~ivG~sGsGKSTLl~~l~g~  392 (582)
T 3b60_A          343 EFRNVTFTYPGREVPALRNINL--------KIPAGKTVALVGRSGSGKSTIASLITRF  392 (582)
T ss_dssp             EEEEEEECSSSSSCCSEEEEEE--------EECTTCEEEEEECTTSSHHHHHHHHTTT
T ss_pred             EEEEEEEEcCCCCCccccceeE--------EEcCCCEEEEECCCCCCHHHHHHHHhhc
Confidence            445555666422 334444443        3456778999999999999999999875

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=95.21  E-value=0.01  Score=46.78  Aligned_cols=23  Identities=26%  Similarity=0.531  Sum_probs=20.1

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ...|+++|++|+||||+++.+..
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~   40 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAE   40 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            34799999999999999998864

>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=95.20  E-value=0.0076  Score=55.83  Aligned_cols=28  Identities=32%  Similarity=0.397  Sum_probs=24.3

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ...++..++++|++|+|||||++.+.+-
T Consensus       365 ~i~~G~~~~ivG~sGsGKSTll~~l~g~  392 (582)
T 3b5x_A          365 SIPQGKTVALVGRSGSGKSTIANLFTRF  392 (582)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3456778999999999999999999875

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=95.20  E-value=0.017  Score=45.59  Aligned_cols=24  Identities=25%  Similarity=0.411  Sum_probs=21.1

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ++..|++.|.+|+||||+++.+..
T Consensus         9 ~~~~I~l~G~~GsGKST~~~~L~~   32 (212)
T 2wwf_A            9 KGKFIVFEGLDRSGKSTQSKLLVE   32 (212)
T ss_dssp             CSCEEEEEESTTSSHHHHHHHHHH
T ss_pred             cCCEEEEEcCCCCCHHHHHHHHHH
Confidence            456899999999999999998864

>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=95.19  E-value=0.014  Score=45.35  Aligned_cols=23  Identities=30%  Similarity=0.582  Sum_probs=20.1

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +..|+++|.+|+||||+.+.+..
T Consensus         5 ~~~I~l~G~~GsGKST~~~~L~~   27 (193)
T 2rhm_A            5 PALIIVTGHPATGKTTLSQALAT   27 (193)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999998864

>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=95.16  E-value=0.013  Score=51.00  Aligned_cols=28  Identities=25%  Similarity=0.181  Sum_probs=24.4

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ...++..++++|++|+|||||++.+.+-
T Consensus        50 ~i~~Gei~~IiGpnGaGKSTLlr~i~GL   77 (366)
T 3tui_C           50 HVPAGQIYGVIGASGAGKSTLIRCVNLL   77 (366)
T ss_dssp             EECTTCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEcCCCEEEEEcCCCchHHHHHHHHhcC
Confidence            4456778999999999999999999875

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=95.15  E-value=0.068  Score=45.39  Aligned_cols=23  Identities=30%  Similarity=0.470  Sum_probs=20.4

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ...+++.|++|+|||+++..+..
T Consensus        51 ~~~vLl~GppGtGKT~la~aia~   73 (322)
T 3eie_A           51 TSGILLYGPPGTGKSYLAKAVAT   73 (322)
T ss_dssp             CCEEEEECSSSSCHHHHHHHHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHH
Confidence            45799999999999999999875

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=95.14  E-value=0.013  Score=46.87  Aligned_cols=22  Identities=27%  Similarity=0.418  Sum_probs=20.0

Q ss_pred             cEEEEEeCCCCChHHHHHHHhc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ..++++|++|+||||+.+.+.+
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            4799999999999999998875

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.14  E-value=0.1  Score=46.27  Aligned_cols=26  Identities=31%  Similarity=0.447  Sum_probs=22.2

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..+..+++.|+||+|||+++..+.+.
T Consensus       214 ~~prGvLLyGPPGTGKTlLAkAiA~e  239 (437)
T 4b4t_I          214 KPPKGVILYGAPGTGKTLLAKAVANQ  239 (437)
T ss_dssp             CCCSEEEEESSTTTTHHHHHHHHHHH
T ss_pred             CCCCCCceECCCCchHHHHHHHHHHH
Confidence            44567999999999999999998853

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=95.14  E-value=0.017  Score=44.87  Aligned_cols=25  Identities=32%  Similarity=0.445  Sum_probs=21.4

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .++..++++|.+|+||||+++.+..
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            4466899999999999999998864

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=95.10  E-value=0.24  Score=41.10  Aligned_cols=23  Identities=26%  Similarity=0.413  Sum_probs=20.5

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ...+++.|++|+|||++++.+..
T Consensus        54 ~~~vll~Gp~GtGKT~la~~la~   76 (297)
T 3b9p_A           54 AKGLLLFGPPGNGKTLLARAVAT   76 (297)
T ss_dssp             CSEEEEESSSSSCHHHHHHHHHH
T ss_pred             CCeEEEECcCCCCHHHHHHHHHH
Confidence            45799999999999999999875

>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=95.09  E-value=0.014  Score=51.08  Aligned_cols=29  Identities=31%  Similarity=0.519  Sum_probs=24.5

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCc
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      ....+..++++|++|+|||||++.+.+-.
T Consensus        25 ~i~~Ge~~~llGpsGsGKSTLLr~iaGl~   53 (381)
T 3rlf_A           25 DIHEGEFVVFVGPSGCGKSTLLRMIAGLE   53 (381)
T ss_dssp             EECTTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EECCCCEEEEEcCCCchHHHHHHHHHcCC
Confidence            34556789999999999999999999753

>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=95.08  E-value=0.017  Score=45.39  Aligned_cols=26  Identities=31%  Similarity=0.381  Sum_probs=21.6

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ...+..|++.|++|+||||+.+.+..
T Consensus        17 ~~~~~~I~l~G~~GsGKST~a~~La~   42 (201)
T 2cdn_A           17 RGSHMRVLLLGPPGAGKGTQAVKLAE   42 (201)
T ss_dssp             CCSCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            34455899999999999999998864

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=95.08  E-value=0.014  Score=45.16  Aligned_cols=23  Identities=30%  Similarity=0.455  Sum_probs=20.0

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +..|++.|++|+||||+++.+..
T Consensus         3 ~~~I~i~G~~GsGKsT~~~~L~~   25 (192)
T 1kht_A            3 NKVVVVTGVPGVGSTTSSQLAMD   25 (192)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            34799999999999999998864

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=95.08  E-value=0.014  Score=48.44  Aligned_cols=25  Identities=32%  Similarity=0.428  Sum_probs=22.6

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      +..++++|++|+|||||++.+.+-.
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            6689999999999999999998753

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=95.07  E-value=0.014  Score=45.04  Aligned_cols=23  Identities=17%  Similarity=0.336  Sum_probs=20.2

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ...|+++|++|+||||+.+.+..
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~   27 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAK   27 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999998863

>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=95.05  E-value=0.015  Score=50.56  Aligned_cols=27  Identities=30%  Similarity=0.445  Sum_probs=23.6

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ...+..++++|++|+|||||++.+.+-
T Consensus        26 i~~Ge~~~llGpnGsGKSTLLr~iaGl   52 (359)
T 2yyz_A           26 VKDGEFVALLGPSGCGKTTTLLMLAGI   52 (359)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHHHHHTS
T ss_pred             EcCCCEEEEEcCCCchHHHHHHHHHCC
Confidence            455668999999999999999999875

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=95.04  E-value=0.015  Score=50.61  Aligned_cols=28  Identities=32%  Similarity=0.481  Sum_probs=24.0

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ....+..++++|++|+|||||++.+.+-
T Consensus        25 ~i~~Ge~~~llGpnGsGKSTLLr~iaGl   52 (362)
T 2it1_A           25 KIKDGEFMALLGPSGSGKSTLLYTIAGI   52 (362)
T ss_dssp             EECTTCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             EECCCCEEEEECCCCchHHHHHHHHhcC
Confidence            3455678999999999999999999875

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=95.02  E-value=0.018  Score=44.44  Aligned_cols=24  Identities=29%  Similarity=0.508  Sum_probs=20.7

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ....|+++|++|+||||+.+.+..
T Consensus        10 ~~~~i~i~G~~GsGKst~~~~l~~   33 (180)
T 3iij_A           10 LLPNILLTGTPGVGKTTLGKELAS   33 (180)
T ss_dssp             CCCCEEEECSTTSSHHHHHHHHHH
T ss_pred             cCCeEEEEeCCCCCHHHHHHHHHH
Confidence            345799999999999999998873

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=95.01  E-value=0.012  Score=44.41  Aligned_cols=25  Identities=28%  Similarity=0.492  Sum_probs=21.6

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      .+..++++|++|+|||+|++.+.+.
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~   59 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQ   59 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHH
Confidence            4557999999999999999998864

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=95.00  E-value=0.013  Score=50.91  Aligned_cols=25  Identities=24%  Similarity=0.433  Sum_probs=22.3

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      .+..++++|++|+|||||++.+++.
T Consensus       174 ~G~~i~ivG~sGsGKSTll~~l~~~  198 (361)
T 2gza_A          174 LERVIVVAGETGSGKTTLMKALMQE  198 (361)
T ss_dssp             TTCCEEEEESSSSCHHHHHHHHHTT
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHhc
Confidence            4568999999999999999999874

>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=94.99  E-value=0.016  Score=46.86  Aligned_cols=28  Identities=21%  Similarity=0.178  Sum_probs=23.8

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      +..++..+++.|+.|+||||+++.+.+.
T Consensus        16 ~~~~g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           16 EGTQPFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             TTCCCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHHhc
Confidence            4455678999999999999999998764

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=94.98  E-value=0.016  Score=49.18  Aligned_cols=25  Identities=28%  Similarity=0.323  Sum_probs=21.9

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .++..++++|++|+|||||++.+.+
T Consensus        78 ~~g~iigI~G~~GsGKSTl~~~L~~  102 (308)
T 1sq5_A           78 RIPYIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            4556899999999999999998876

>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=94.97  E-value=0.0069  Score=61.43  Aligned_cols=51  Identities=14%  Similarity=0.120  Sum_probs=38.5

Q ss_pred             hHhhhhhccCCcCC--CCCCCchhhhhccccCCCCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346           80 ASSFLSLSEKPDRN--MASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus        80 ~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~~~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ...+.++..+|...  .+.++++..        ...++.+++++|++|+|||||++.+++-
T Consensus      1076 ~I~f~nVsf~Y~~~~~~~VL~~isl--------~I~~Ge~vaIVG~SGsGKSTL~~lL~rl 1128 (1321)
T 4f4c_A         1076 KVIFKNVRFAYPERPEIEILKGLSF--------SVEPGQTLALVGPSGCGKSTVVALLERF 1128 (1321)
T ss_dssp             CEEEEEEEECCTTSCSSCSEEEEEE--------EECTTCEEEEECSTTSSTTSHHHHHTTS
T ss_pred             eEEEEEEEEeCCCCCCCccccceeE--------EECCCCEEEEECCCCChHHHHHHHHhcC
Confidence            35677777787533  345666654        4567789999999999999999999864

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=94.96  E-value=0.0067  Score=47.08  Aligned_cols=23  Identities=26%  Similarity=0.483  Sum_probs=20.4

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcC
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..++++|++|+|||||++.+.+.
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~   25 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPI   25 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999998864

>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=94.95  E-value=0.0099  Score=60.28  Aligned_cols=50  Identities=14%  Similarity=0.174  Sum_probs=37.7

Q ss_pred             HhhhhhccCCcC--CCCCCCchhhhhccccCCCCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346           81 SSFLSLSEKPDR--NMASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus        81 ~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~~~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..+.++.+.|..  ..+.+++++.        ..+++..++++|++|+|||||++.+++-
T Consensus       416 I~~~nvsF~Y~~~~~~~vL~~isl--------~i~~G~~vaivG~sGsGKSTll~ll~~~  467 (1321)
T 4f4c_A          416 ITVENVHFTYPSRPDVPILRGMNL--------RVNAGQTVALVGSSGCGKSTIISLLLRY  467 (1321)
T ss_dssp             EEEEEEEECCSSSTTSCSEEEEEE--------EECTTCEEEEEECSSSCHHHHHHHHTTS
T ss_pred             EEEEEeeeeCCCCCCCceeeceEE--------eecCCcEEEEEecCCCcHHHHHHHhccc
Confidence            466677777743  3355666654        4567789999999999999999999864

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=94.95  E-value=0.085  Score=39.17  Aligned_cols=23  Identities=26%  Similarity=0.192  Sum_probs=19.9

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcC
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..+++.|++|+|||+++..+...
T Consensus        25 ~~vll~G~~GtGKt~lA~~i~~~   47 (145)
T 3n70_A           25 IAVWLYGAPGTGRMTGARYLHQF   47 (145)
T ss_dssp             SCEEEESSTTSSHHHHHHHHHHS
T ss_pred             CCEEEECCCCCCHHHHHHHHHHh
Confidence            45999999999999999988653

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=94.94  E-value=0.014  Score=45.10  Aligned_cols=23  Identities=35%  Similarity=0.507  Sum_probs=20.1

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +..++++|++|+||||+.+.+..
T Consensus         4 g~~I~l~G~~GsGKST~~~~La~   26 (186)
T 3cm0_A            4 GQAVIFLGPPGAGKGTQASRLAQ   26 (186)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999998863

>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=94.91  E-value=0.017  Score=50.46  Aligned_cols=28  Identities=21%  Similarity=0.417  Sum_probs=24.0

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ....+..++++|++|+|||||++.+.+-
T Consensus        33 ~i~~Ge~~~llGpnGsGKSTLLr~iaGl   60 (372)
T 1v43_A           33 TIKDGEFLVLLGPSGCGKTTTLRMIAGL   60 (372)
T ss_dssp             EECTTCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             EECCCCEEEEECCCCChHHHHHHHHHcC
Confidence            3455678999999999999999999875

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=94.91  E-value=0.016  Score=44.78  Aligned_cols=21  Identities=38%  Similarity=0.449  Sum_probs=19.0

Q ss_pred             EEEEEeCCCCChHHHHHHHhc
Q 025346          117 YVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .|++.|++|+||||+++.+..
T Consensus         3 ~I~i~G~~GsGKsT~~~~L~~   23 (194)
T 1nks_A            3 IGIVTGIPGVGKSTVLAKVKE   23 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998864

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=94.89  E-value=0.017  Score=48.50  Aligned_cols=24  Identities=21%  Similarity=0.393  Sum_probs=20.8

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .+..++++|++|+||||++..+..
T Consensus        32 ~~~livl~G~sGsGKSTla~~L~~   55 (287)
T 1gvn_B           32 SPTAFLLGGQPGSGKTSLRSAIFE   55 (287)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            355799999999999999999864

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=94.89  E-value=0.018  Score=45.43  Aligned_cols=25  Identities=32%  Similarity=0.331  Sum_probs=21.3

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .++..++++|++|+||||+++.+.+
T Consensus        20 ~~~~~i~i~G~~GsGKstl~~~l~~   44 (201)
T 1rz3_A           20 AGRLVLGIDGLSRSGKTTLANQLSQ   44 (201)
T ss_dssp             SSSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3456799999999999999998864

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=94.87  E-value=0.02  Score=44.50  Aligned_cols=24  Identities=29%  Similarity=0.577  Sum_probs=20.5

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ++..|++.|++|+||||+.+.+..
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~La~   31 (196)
T 2c95_A            8 KTNIIFVVGGPGSGKGTQCEKIVQ   31 (196)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
Confidence            345799999999999999998863

>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=94.86  E-value=0.016  Score=45.58  Aligned_cols=21  Identities=29%  Similarity=0.387  Sum_probs=19.5

Q ss_pred             EEEEEeCCCCChHHHHHHHhc
Q 025346          117 YVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .|+++|++|+||||+.+.+.+
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            699999999999999999875

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=94.83  E-value=0.17  Score=42.21  Aligned_cols=25  Identities=32%  Similarity=0.501  Sum_probs=20.7

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .....+++.|++|+|||+++..+..
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            3455799999999999999987654

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=94.82  E-value=0.0066  Score=56.20  Aligned_cols=49  Identities=24%  Similarity=0.191  Sum_probs=34.4

Q ss_pred             hhhhhccCCcC-CCCCCCchhhhhccccCCCCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346           82 SFLSLSEKPDR-NMASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus        82 ~~~~~~~~~~~-~~~~l~~~~~~~~~~~~~~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      .+.++...|.. ....+.++..        ...++..++++|++|+|||||++.+.+-
T Consensus       341 ~~~~v~~~y~~~~~~~l~~isl--------~i~~G~~~~ivG~sGsGKSTll~~l~g~  390 (578)
T 4a82_A          341 DIDHVSFQYNDNEAPILKDINL--------SIEKGETVAFVGMSGGGKSTLINLIPRF  390 (578)
T ss_dssp             EEEEEEECSCSSSCCSEEEEEE--------EECTTCEEEEECSTTSSHHHHHTTTTTS
T ss_pred             EEEEEEEEcCCCCCcceeeeEE--------EECCCCEEEEECCCCChHHHHHHHHhcC
Confidence            45555666643 2234455443        4466779999999999999999998864

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=94.82  E-value=0.016  Score=50.40  Aligned_cols=25  Identities=36%  Similarity=0.436  Sum_probs=21.5

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      +...++++|++|+||||+++.+++.
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            3458999999999999999998753

>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=94.81  E-value=0.018  Score=50.31  Aligned_cols=28  Identities=21%  Similarity=0.424  Sum_probs=23.8

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCc
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      ...+..++++|++|+|||||++.+.+-.
T Consensus        26 i~~Ge~~~llGpnGsGKSTLLr~iaGl~   53 (372)
T 1g29_1           26 VKDGEFMILLGPSGCGKTTTLRMIAGLE   53 (372)
T ss_dssp             EETTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EcCCCEEEEECCCCcHHHHHHHHHHcCC
Confidence            3456689999999999999999998753

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=94.79  E-value=0.02  Score=46.97  Aligned_cols=23  Identities=26%  Similarity=0.380  Sum_probs=20.9

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHh
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMI  136 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~  136 (254)
                      ++..++++|++|+||||+++.+.
T Consensus        26 ~g~~I~I~G~~GsGKSTl~k~La   48 (252)
T 4e22_A           26 IAPVITVDGPSGAGKGTLCKALA   48 (252)
T ss_dssp             TSCEEEEECCTTSSHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHH
Confidence            45689999999999999999998

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=94.79  E-value=0.02  Score=48.27  Aligned_cols=25  Identities=20%  Similarity=0.197  Sum_probs=21.1

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .++..|+++|++|+|||||++.+.+
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            4456899999999999999987753

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=94.78  E-value=0.019  Score=45.20  Aligned_cols=23  Identities=26%  Similarity=0.250  Sum_probs=20.3

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +..|++.|++|+||||+++.+..
T Consensus         4 ~~~I~i~G~~GsGKsT~~~~L~~   26 (213)
T 2plr_A            4 GVLIAFEGIDGSGKSSQATLLKD   26 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHH
Confidence            45799999999999999998864

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=94.77  E-value=0.019  Score=45.33  Aligned_cols=22  Identities=32%  Similarity=0.370  Sum_probs=20.0

Q ss_pred             cEEEEEeCCCCChHHHHHHHhc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ..++++|++|+||||+.+.+.+
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            3689999999999999999976

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=94.74  E-value=0.018  Score=48.80  Aligned_cols=25  Identities=20%  Similarity=0.335  Sum_probs=21.7

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .++..++++|++|+||||+++.+.+
T Consensus        98 ~~g~vi~lvG~nGsGKTTll~~Lag  122 (302)
T 3b9q_A           98 RKPAVIMIVGVNGGGKTTSLGKLAH  122 (302)
T ss_dssp             SSCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHH
Confidence            3456899999999999999998875

>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=94.72  E-value=0.016  Score=50.54  Aligned_cols=26  Identities=38%  Similarity=0.482  Sum_probs=22.4

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      .++..++++|++|+||||+++.+++.
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            45568999999999999999998863

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=94.71  E-value=0.025  Score=44.36  Aligned_cols=23  Identities=30%  Similarity=0.602  Sum_probs=20.1

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHh
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMI  136 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~  136 (254)
                      ....|++.|++|+||||+++.+.
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            34579999999999999998886

>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=94.69  E-value=0.022  Score=44.67  Aligned_cols=24  Identities=17%  Similarity=0.288  Sum_probs=21.2

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcC
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      +..|++.|++|+||||+++.+...
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~~   27 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIMES   27 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHT
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHH
Confidence            457999999999999999998764

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=94.65  E-value=0.02  Score=44.75  Aligned_cols=21  Identities=29%  Similarity=0.529  Sum_probs=19.0

Q ss_pred             EEEEEeCCCCChHHHHHHHhc
Q 025346          117 YVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .|++.|.+|+||||+++.+..
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            589999999999999998875

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=94.64  E-value=0.18  Score=43.92  Aligned_cols=23  Identities=26%  Similarity=0.455  Sum_probs=20.5

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ...+++.|++|+|||+++..+..
T Consensus       148 ~~~vLL~GppGtGKT~la~aia~  170 (389)
T 3vfd_A          148 ARGLLLFGPPGNGKTMLAKAVAA  170 (389)
T ss_dssp             CSEEEEESSTTSCHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            46799999999999999999864

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=94.64  E-value=0.029  Score=43.34  Aligned_cols=23  Identities=35%  Similarity=0.541  Sum_probs=20.1

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +..|++.|.+|+||||+.+.+..
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~   28 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999998864

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=94.64  E-value=0.02  Score=44.30  Aligned_cols=23  Identities=35%  Similarity=0.502  Sum_probs=19.8

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +..|++.|.+|+||||+.+.+..
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~   25 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVE   25 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999998753

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=94.64  E-value=0.022  Score=45.81  Aligned_cols=22  Identities=23%  Similarity=0.469  Sum_probs=19.9

Q ss_pred             CcEEEEEeCCCCChHHHHHHHh
Q 025346          115 SGYVAVLGKPNVGKSTLANQMI  136 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~  136 (254)
                      +..|++.|++|+||||+++.+.
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            4579999999999999999886

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=94.64  E-value=0.022  Score=45.58  Aligned_cols=23  Identities=26%  Similarity=0.296  Sum_probs=20.0

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +..|+++|++|+||||+.+.+..
T Consensus         5 ~~~I~l~G~~GsGKsT~~~~La~   27 (222)
T 1zak_A            5 PLKVMISGAPASGKGTQCELIKT   27 (222)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999998863

>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=94.64  E-value=0.014  Score=50.70  Aligned_cols=24  Identities=38%  Similarity=0.533  Sum_probs=21.6

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcC
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..+++++|++|+|||||++.+.+.
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl  193 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAV  193 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHH
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHH
Confidence            568999999999999999998764

>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=94.63  E-value=0.014  Score=50.49  Aligned_cols=29  Identities=21%  Similarity=0.408  Sum_probs=24.3

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCc
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      ...++..++++|++|+|||||++.+.+-.
T Consensus        22 ~i~~Ge~~~llGpnGsGKSTLLr~iaGl~   50 (348)
T 3d31_A           22 KVESGEYFVILGPTGAGKTLFLELIAGFH   50 (348)
T ss_dssp             EECTTCEEEEECCCTHHHHHHHHHHHTSS
T ss_pred             EEcCCCEEEEECCCCccHHHHHHHHHcCC
Confidence            34556689999999999999999998753

>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=94.62  E-value=0.025  Score=44.62  Aligned_cols=24  Identities=21%  Similarity=0.436  Sum_probs=20.9

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ++..|++.|.+|+||||+++.+..
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~L~~   31 (215)
T 1nn5_A            8 RGALIVLEGVDRAGKSTQSRKLVE   31 (215)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            356799999999999999998874

>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=94.60  E-value=0.029  Score=48.72  Aligned_cols=57  Identities=21%  Similarity=0.316  Sum_probs=33.4

Q ss_pred             ccCccEEEEEEeCCCCchhHHHHHHHhhc-ccCCCCCEEEEEecCCCCChHh---HHHHHHHH
Q 025346          193 GINADCIVVLVDACKAPERIDEILEEGVG-DHKDKLPILLVLNKKDLIKPGE---IAKKLEVT  251 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~~~~~~~~~~~~~~-~~~~~~piivV~nK~Dl~~~~~---~~~~~~~~  251 (254)
                      +.++|.+++|... .+..... .+...+. ....++|.++|+||+||.++..   +.+....+
T Consensus       128 ~anvD~v~iv~a~-~P~~~~~-~i~r~L~~a~~~~~~~iivlNK~DL~~~~~~~~~~~~~~~y  188 (358)
T 2rcn_A          128 AANIDQIVIVSAI-LPELSLN-IIDRYLVGCETLQVEPLIVLNKIDLLDDEGMDFVNEQMDIY  188 (358)
T ss_dssp             EECCCEEEEEEES-TTTCCHH-HHHHHHHHHHHHTCEEEEEEECGGGCCHHHHHHHHHHHHHH
T ss_pred             HhcCCEEEEEEeC-CCCCCHH-HHHHHHHHHHhcCCCEEEEEECccCCCchhHHHHHHHHHHH
Confidence            6789999977554 3321111 2222221 1124678899999999998765   34444443

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=94.59  E-value=0.018  Score=49.42  Aligned_cols=25  Identities=24%  Similarity=0.280  Sum_probs=21.9

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      .+..++++|++|+|||||++.+.+.
T Consensus       170 ~g~~v~i~G~~GsGKTTll~~l~g~  194 (330)
T 2pt7_A          170 IGKNVIVCGGTGSGKTTYIKSIMEF  194 (330)
T ss_dssp             HTCCEEEEESTTSCHHHHHHHGGGG
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3457999999999999999999864

>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=94.58  E-value=0.023  Score=45.33  Aligned_cols=23  Identities=30%  Similarity=0.432  Sum_probs=20.2

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +..|+++|++|+||||+.+.+..
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~   26 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQE   26 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999998864

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=94.58  E-value=0.022  Score=48.70  Aligned_cols=25  Identities=24%  Similarity=0.300  Sum_probs=21.0

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ..+..++++|++|+||||+++.+.+
T Consensus        90 ~~p~iigI~GpsGSGKSTl~~~L~~  114 (321)
T 3tqc_A           90 KVPYIIGIAGSVAVGKSTTSRVLKA  114 (321)
T ss_dssp             CCCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3456799999999999999988753

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=94.55  E-value=0.024  Score=43.27  Aligned_cols=24  Identities=21%  Similarity=0.534  Sum_probs=20.5

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcC
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ...+++.|++|+|||++++.+...
T Consensus        43 ~~~~ll~G~~G~GKT~l~~~~~~~   66 (195)
T 1jbk_A           43 KNNPVLIGEPGVGKTAIVEGLAQR   66 (195)
T ss_dssp             SCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCceEEECCCCCCHHHHHHHHHHH
Confidence            346899999999999999988754

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A*

Probab=94.53  E-value=0.076  Score=48.09  Aligned_cols=24  Identities=21%  Similarity=0.404  Sum_probs=20.6

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ....+++.|++|+|||+++..+..
T Consensus       237 ~~~~vLL~GppGtGKT~lAraia~  260 (489)
T 3hu3_A          237 PPRGILLYGPPGTGKTLIARAVAN  260 (489)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCcEEEECcCCCCHHHHHHHHHH
Confidence            345699999999999999999864

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=94.45  E-value=0.026  Score=43.63  Aligned_cols=23  Identities=26%  Similarity=0.385  Sum_probs=20.3

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .+.++++|++|+||||++.+++.
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            45799999999999999998875

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=94.45  E-value=0.023  Score=45.07  Aligned_cols=21  Identities=38%  Similarity=0.664  Sum_probs=18.8

Q ss_pred             EEEEEeCCCCChHHHHHHHhc
Q 025346          117 YVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +|++.|++|+||||+++.+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIE   22 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998853

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=94.42  E-value=0.011  Score=54.82  Aligned_cols=50  Identities=26%  Similarity=0.219  Sum_probs=34.8

Q ss_pred             HhhhhhccCCcC-CCCCCCchhhhhccccCCCCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346           81 SSFLSLSEKPDR-NMASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus        81 ~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~~~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..+.++...|.. ....+.++..        ...++..++++|++|+|||||++.+.+-
T Consensus       342 i~~~~v~~~y~~~~~~~l~~isl--------~i~~Ge~~~ivG~sGsGKSTll~~l~g~  392 (587)
T 3qf4_A          342 VSFENVEFRYFENTDPVLSGVNF--------SVKPGSLVAVLGETGSGKSTLMNLIPRL  392 (587)
T ss_dssp             EEEEEEEECSSSSSCCSEEEEEE--------EECTTCEEEEECSSSSSHHHHHHTTTTS
T ss_pred             EEEEEEEEEcCCCCCcceeceEE--------EEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            345556666643 2234455443        4466779999999999999999998874

>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=94.38  E-value=0.014  Score=50.72  Aligned_cols=28  Identities=21%  Similarity=0.376  Sum_probs=24.0

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCc
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      ...+..++++|++|+|||||++.+.+-.
T Consensus        28 i~~Ge~~~llGpnGsGKSTLLr~iaGl~   55 (353)
T 1oxx_K           28 IENGERFGILGPSGAGKTTFMRIIAGLD   55 (353)
T ss_dssp             ECTTCEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             ECCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            4556689999999999999999998753

>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=94.34  E-value=0.02  Score=48.86  Aligned_cols=24  Identities=21%  Similarity=0.333  Sum_probs=21.3

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcC
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      .+.++++|+.|+||||+++.+++.
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            457899999999999999999965

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=94.34  E-value=0.029  Score=43.68  Aligned_cols=23  Identities=22%  Similarity=0.531  Sum_probs=20.1

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +..|++.|++|+||||+.+.+..
T Consensus        12 ~~~I~l~G~~GsGKsT~a~~L~~   34 (199)
T 2bwj_A           12 CKIIFIIGGPGSGKGTQCEKLVE   34 (199)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999998864

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=94.32  E-value=0.03  Score=43.70  Aligned_cols=25  Identities=24%  Similarity=0.272  Sum_probs=21.7

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      +...|++.|++|+||||+.+.+...
T Consensus         7 ~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            7 HPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHC
Confidence            4567999999999999999998764

>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=94.31  E-value=0.026  Score=44.84  Aligned_cols=21  Identities=24%  Similarity=0.580  Sum_probs=18.8

Q ss_pred             EEEEEeCCCCChHHHHHHHhc
Q 025346          117 YVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +|++.|++|+||||+++.+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVE   22 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998853

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=94.29  E-value=0.021  Score=43.94  Aligned_cols=23  Identities=26%  Similarity=0.271  Sum_probs=16.1

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +..|++.|.+|+||||+.+.+..
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~   27 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHE   27 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999998863

>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=94.29  E-value=0.029  Score=45.80  Aligned_cols=24  Identities=29%  Similarity=0.412  Sum_probs=20.9

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ++..|++.|++|+||||++..+..
T Consensus        28 ~~~~I~l~G~~GsGKsT~a~~L~~   51 (243)
T 3tlx_A           28 PDGRYIFLGAPGSGKGTQSLNLKK   51 (243)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            456899999999999999998864

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=94.28  E-value=0.035  Score=44.71  Aligned_cols=25  Identities=32%  Similarity=0.546  Sum_probs=20.0

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .+...|+++|+||+||+|.+..+..
T Consensus        27 ~k~kiI~llGpPGsGKgTqa~~L~~   51 (217)
T 3umf_A           27 AKAKVIFVLGGPGSGKGTQCEKLVQ   51 (217)
T ss_dssp             TSCEEEEEECCTTCCHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHH
Confidence            3344577899999999999988864

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=94.28  E-value=0.025  Score=51.58  Aligned_cols=25  Identities=24%  Similarity=0.248  Sum_probs=21.5

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      .+..++++|++|+||||+++.+++.
T Consensus       259 ~g~~i~I~GptGSGKTTlL~aL~~~  283 (511)
T 2oap_1          259 HKFSAIVVGETASGKTTTLNAIMMF  283 (511)
T ss_dssp             TTCCEEEEESTTSSHHHHHHHHGGG
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhh
Confidence            3456999999999999999999863

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=94.27  E-value=0.31  Score=41.01  Aligned_cols=22  Identities=23%  Similarity=0.321  Sum_probs=17.9

Q ss_pred             cEEEEEeCCCCChHHHHHHHhc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ..+++.|++|+|||+++..+..
T Consensus        49 ~~~L~~G~~G~GKT~la~~la~   70 (324)
T 3u61_B           49 HIILHSPSPGTGKTTVAKALCH   70 (324)
T ss_dssp             SEEEECSSTTSSHHHHHHHHHH
T ss_pred             eEEEeeCcCCCCHHHHHHHHHH
Confidence            3467777799999999999864

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=94.26  E-value=0.099  Score=45.12  Aligned_cols=24  Identities=29%  Similarity=0.475  Sum_probs=20.6

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcC
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ...+++.|++|+|||+++..+...
T Consensus        84 ~~~iLL~GppGtGKT~la~ala~~  107 (355)
T 2qp9_X           84 TSGILLYGPPGTGKSYLAKAVATE  107 (355)
T ss_dssp             CCCEEEECSTTSCHHHHHHHHHHH
T ss_pred             CceEEEECCCCCcHHHHHHHHHHH
Confidence            446899999999999999988753

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=94.25  E-value=0.027  Score=43.34  Aligned_cols=24  Identities=21%  Similarity=0.259  Sum_probs=20.9

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ++..++++|.+|+||||+.+.+..
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            355799999999999999998865

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=94.22  E-value=0.028  Score=44.72  Aligned_cols=26  Identities=23%  Similarity=0.485  Sum_probs=22.1

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ..++..++++|++|+|||||++.+++
T Consensus        20 i~~G~~~~i~G~~GsGKTtl~~~l~~   45 (235)
T 2w0m_A           20 IPQGFFIALTGEPGTGKTIFSLHFIA   45 (235)
T ss_dssp             EETTCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CcCCCEEEEEcCCCCCHHHHHHHHHH
Confidence            34556799999999999999999884

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=94.18  E-value=0.024  Score=51.02  Aligned_cols=26  Identities=19%  Similarity=0.408  Sum_probs=23.0

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..+..++++|++|+|||||++.+.+-
T Consensus       136 ~~Ge~v~IvGpnGsGKSTLlr~L~Gl  161 (460)
T 2npi_A          136 FEGPRVVIVGGSQTGKTSLSRTLCSY  161 (460)
T ss_dssp             SSCCCEEEEESTTSSHHHHHHHHHHT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCc
Confidence            46778999999999999999998865

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=94.15  E-value=0.023  Score=47.40  Aligned_cols=20  Identities=35%  Similarity=0.584  Sum_probs=19.0

Q ss_pred             EEEEeCCCCChHHHHHHHhc
Q 025346          118 VAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       118 ~~~~G~~~~gKssl~~~~~~  137 (254)
                      ++++|++|+|||||++.+.+
T Consensus        47 vlL~Gp~GtGKTtLakala~   66 (274)
T 2x8a_A           47 VLLAGPPGCGKTLLAKAVAN   66 (274)
T ss_dssp             EEEESSTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHH
Confidence            99999999999999999886

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=94.14  E-value=0.24  Score=47.54  Aligned_cols=26  Identities=19%  Similarity=0.402  Sum_probs=22.2

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..+..|++.|++|+|||+|++.+...
T Consensus       236 ~~p~GILL~GPPGTGKT~LAraiA~e  261 (806)
T 3cf2_A          236 KPPRGILLYGPPGTGKTLIARAVANE  261 (806)
T ss_dssp             CCCCEEEEECCTTSCHHHHHHHHHTT
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHHHH
Confidence            44567999999999999999998753

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=94.13  E-value=0.031  Score=46.09  Aligned_cols=23  Identities=30%  Similarity=0.485  Sum_probs=20.2

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +..|+++|.+|+||||+.+.+..
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~   26 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAK   26 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHH
Confidence            45799999999999999998864

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=94.13  E-value=0.027  Score=43.44  Aligned_cols=22  Identities=27%  Similarity=0.487  Sum_probs=19.3

Q ss_pred             cEEEEEeCCCCChHHHHHHHhc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +.|+++|.+|+||||+...+..
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~   24 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAK   24 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            3599999999999999998864

>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=94.13  E-value=0.027  Score=50.01  Aligned_cols=26  Identities=27%  Similarity=0.330  Sum_probs=22.3

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      .++..++++|++|+||||+++.+++.
T Consensus       165 ~~ggii~I~GpnGSGKTTlL~allg~  190 (418)
T 1p9r_A          165 RPHGIILVTGPTGSGKSTTLYAGLQE  190 (418)
T ss_dssp             SSSEEEEEECSTTSCHHHHHHHHHHH
T ss_pred             hcCCeEEEECCCCCCHHHHHHHHHhh
Confidence            44567999999999999999998863

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=94.12  E-value=0.03  Score=48.67  Aligned_cols=124  Identities=15%  Similarity=0.211  Sum_probs=64.0

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcC------ccccccCCCCc--------e------EEEEEEEEe-------------
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQ------KLSIVTNKPQT--------T------RHRILGICS-------------  159 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~------~~~~~~~~~~t--------t------~~~~~~~~~-------------  159 (254)
                      .++..++++|++|+||||+++.+.+.      ++.........        +      ...+.....             
T Consensus       155 ~~g~vi~lvG~nGsGKTTll~~Lag~l~~~~G~V~l~g~D~~r~~a~eql~~~~~r~~i~~v~q~~~~~~p~~tv~e~l~  234 (359)
T 2og2_A          155 RKPAVIMIVGVNGGGKTTSLGKLAHRLKNEGTKVLMAAGDTFRAAASDQLEIWAERTGCEIVVAEGDKAKAATVLSKAVK  234 (359)
T ss_dssp             SSSEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEECCCCSCHHHHHHHHHHHHHHTCEEECCSSSSCCHHHHHHHHHH
T ss_pred             CCCeEEEEEcCCCChHHHHHHHHHhhccccCCEEEEecccccccchhHHHHHHHHhcCeEEEEecccccChhhhHHHHHH
Confidence            34568999999999999999988753      11111111000        0      000000000             


Q ss_pred             ---cCCeeEEEEecCCCcccchhhhhHHH--HHH-HHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEE
Q 025346          160 ---GPEYQMILYDTPGIIEKKIHMLDSMM--MKN-VRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVL  233 (254)
Q Consensus       160 ---~~~~~~~liDtpG~~~~~~~~~~~~~--~~~-~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~  233 (254)
                         ..+....++||.|........+...-  ... .......++-+++|+|++.+.+..... ..+...  .+. .++++
T Consensus       235 ~~~~~~~d~~lldt~Gl~~~~~~~~~eLSkqr~~iaral~~~P~e~lLvLDpttglD~~~~~-~~~~~~--~g~-t~iii  310 (359)
T 2og2_A          235 RGKEEGYDVVLCDTSGRLHTNYSLMEELIACKKAVGKIVSGAPNEILLVLDGNTGLNMLPQA-REFNEV--VGI-TGLIL  310 (359)
T ss_dssp             HHHHTTCSEEEEECCCCSSCCHHHHHHHHHHHHHHHHHSTTCCSEEEEEEEGGGGGGGHHHH-HHHHHH--TCC-CEEEE
T ss_pred             HHHhCCCHHHHHHhcCCChhhhhHHHHHHHHHHHHHHHHhcCCCceEEEEcCCCCCCHHHHH-HHHHHh--cCC-eEEEE
Confidence               01234678999998654322222211  111 112345678889999976555444332 222211  122 36778


Q ss_pred             ecCCCCC
Q 025346          234 NKKDLIK  240 (254)
Q Consensus       234 nK~Dl~~  240 (254)
                      ||.|-..
T Consensus       311 ThlD~~~  317 (359)
T 2og2_A          311 TKLDGSA  317 (359)
T ss_dssp             ESCTTCS
T ss_pred             ecCcccc
Confidence            9988653

>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=94.11  E-value=0.033  Score=44.01  Aligned_cols=27  Identities=30%  Similarity=0.079  Sum_probs=23.3

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ...++..++++|++|+|||||+..+++
T Consensus        16 gi~~G~~~~i~G~~GsGKTtl~~~l~~   42 (220)
T 2cvh_A           16 GFAPGVLTQVYGPYASGKTTLALQTGL   42 (220)
T ss_dssp             SBCTTSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCcCCEEEEEECCCCCCHHHHHHHHHH
Confidence            345566899999999999999999986

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=94.06  E-value=0.036  Score=50.81  Aligned_cols=28  Identities=32%  Similarity=0.519  Sum_probs=23.9

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCc
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      ..++..++++|++|+|||||++.+.+.-
T Consensus        22 ~~~Gei~gLiGpNGaGKSTLlkiL~Gl~   49 (538)
T 3ozx_A           22 PKNNTILGVLGKNGVGKTTVLKILAGEI   49 (538)
T ss_dssp             CCTTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            4456689999999999999999999853

>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=94.04  E-value=0.025  Score=46.15  Aligned_cols=21  Identities=43%  Similarity=0.700  Sum_probs=19.2

Q ss_pred             EEEEEeCCCCChHHHHHHHhc
Q 025346          117 YVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .++++|++|+|||||++.+.+
T Consensus        51 g~ll~G~~G~GKTtl~~~i~~   71 (254)
T 1ixz_A           51 GVLLVGPPGVGKTHLARAVAG   71 (254)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            399999999999999999875

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=94.04  E-value=0.028  Score=44.83  Aligned_cols=23  Identities=22%  Similarity=0.368  Sum_probs=20.0

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +..|++.|.+|+||||+.+.+..
T Consensus         5 ~~~I~l~G~~GsGKsT~a~~La~   27 (217)
T 3be4_A            5 KHNLILIGAPGSGKGTQCEFIKK   27 (217)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999998853

>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=94.02  E-value=0.034  Score=46.56  Aligned_cols=28  Identities=25%  Similarity=0.221  Sum_probs=23.6

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ...++..++++|++|+|||||++.+++.
T Consensus        31 ~l~~G~~~~i~G~~G~GKTTl~~~ia~~   58 (296)
T 1cr0_A           31 GARGGEVIMVTSGSGMGKSTFVRQQALQ   58 (296)
T ss_dssp             SBCTTCEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCCCCeEEEEEeCCCCCHHHHHHHHHHH
Confidence            4456678999999999999999988754

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=94.01  E-value=0.032  Score=48.29  Aligned_cols=28  Identities=21%  Similarity=0.266  Sum_probs=25.0

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      +..++.+++++|++|+|||||++.+.+.
T Consensus        67 ~i~~Gq~~gIiG~nGaGKTTLl~~I~g~   94 (347)
T 2obl_A           67 TCGIGQRIGIFAGSGVGKSTLLGMICNG   94 (347)
T ss_dssp             CEETTCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             eecCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            5567789999999999999999999875

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=94.00  E-value=0.029  Score=42.99  Aligned_cols=21  Identities=33%  Similarity=0.428  Sum_probs=18.9

Q ss_pred             EEEEEeCCCCChHHHHHHHhc
Q 025346          117 YVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .++++|++|+||||+...+..
T Consensus         6 ~i~i~G~~GsGKsTla~~La~   26 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAK   26 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            599999999999999998864

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=93.98  E-value=0.026  Score=46.29  Aligned_cols=25  Identities=16%  Similarity=0.187  Sum_probs=21.2

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ..+..++++|++|+||||+...+..
T Consensus        30 ~~~~~i~l~G~~GsGKSTla~~L~~   54 (253)
T 2p5t_B           30 KQPIAILLGGQSGAGKTTIHRIKQK   54 (253)
T ss_dssp             SSCEEEEEESCGGGTTHHHHHHHHH
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3456799999999999999998864

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=93.95  E-value=0.037  Score=44.15  Aligned_cols=25  Identities=12%  Similarity=0.210  Sum_probs=21.3

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ....+++.|++|+|||+++..+...
T Consensus        51 ~~~~~ll~G~~G~GKT~la~~l~~~   75 (242)
T 3bos_A           51 GVQAIYLWGPVKSGRTHLIHAACAR   75 (242)
T ss_dssp             SCSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHH
Confidence            3567999999999999999988753

>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=93.86  E-value=0.037  Score=43.94  Aligned_cols=21  Identities=33%  Similarity=0.537  Sum_probs=18.9

Q ss_pred             EEEEEeCCCCChHHHHHHHhc
Q 025346          117 YVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +|++.|++|+||||+++.+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIME   22 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998864

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=93.84  E-value=0.032  Score=45.83  Aligned_cols=21  Identities=24%  Similarity=0.324  Sum_probs=18.9

Q ss_pred             EEEEEeCCCCChHHHHHHHhc
Q 025346          117 YVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .++++|++|+||||+...+..
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            588999999999999999864

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=93.81  E-value=0.039  Score=43.78  Aligned_cols=25  Identities=28%  Similarity=0.278  Sum_probs=21.0

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .++..++++|.+|+||||+++.+..
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            3456799999999999999998764

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=93.80  E-value=0.038  Score=49.36  Aligned_cols=29  Identities=21%  Similarity=0.225  Sum_probs=25.5

Q ss_pred             CCCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          110 HPNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       110 ~~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      -+..++.+++++|++|+|||||++.+.+.
T Consensus       152 l~i~~Gq~~~IvG~sGsGKSTLl~~Iag~  180 (438)
T 2dpy_A          152 LTVGRGQRMGLFAGSGVGKSVLLGMMARY  180 (438)
T ss_dssp             SCCBTTCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             EEecCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            36677889999999999999999999874

>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=93.80  E-value=0.038  Score=44.08  Aligned_cols=21  Identities=33%  Similarity=0.574  Sum_probs=18.7

Q ss_pred             EEEEEeCCCCChHHHHHHHhc
Q 025346          117 YVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .|+++|+||+||+|....+..
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~   22 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAK   22 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            588999999999999998874

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A

Probab=93.79  E-value=0.22  Score=44.35  Aligned_cols=24  Identities=29%  Similarity=0.384  Sum_probs=21.0

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ....+++.|++|+|||+++..+..
T Consensus       166 ~~~~vLL~GppGtGKT~lA~aia~  189 (444)
T 2zan_A          166 PWRGILLFGPPGTGKSYLAKAVAT  189 (444)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHH
Confidence            346799999999999999999875

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=93.79  E-value=0.048  Score=49.96  Aligned_cols=28  Identities=29%  Similarity=0.373  Sum_probs=24.2

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCc
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      ..++-.++++|++|+|||||++.+.+.-
T Consensus        44 i~~Ge~~~LvG~NGaGKSTLlk~l~Gl~   71 (538)
T 1yqt_A           44 VKEGMVVGIVGPNGTGKSTAVKILAGQL   71 (538)
T ss_dssp             CCTTSEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3566789999999999999999999853

>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=93.77  E-value=0.036  Score=42.10  Aligned_cols=22  Identities=14%  Similarity=0.312  Sum_probs=19.3

Q ss_pred             cEEEEEeCCCCChHHHHHHHhc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ..|++.|.+|+||||+.+.+..
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~   24 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELAR   24 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            3589999999999999998864

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=93.76  E-value=0.033  Score=45.84  Aligned_cols=23  Identities=22%  Similarity=0.294  Sum_probs=20.5

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +..++++|++|+||||+.+.+.+
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            55799999999999999998864

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=93.76  E-value=0.041  Score=45.02  Aligned_cols=25  Identities=20%  Similarity=0.345  Sum_probs=20.7

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .+...|++.|++|+||||+.+.+..
T Consensus        20 ~~~~iI~I~G~~GSGKST~a~~L~~   44 (252)
T 1uj2_A           20 GEPFLIGVSGGTASGKSSVCAKIVQ   44 (252)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHH
Confidence            3446799999999999999998754

>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=93.75  E-value=0.047  Score=41.95  Aligned_cols=21  Identities=24%  Similarity=0.556  Sum_probs=18.8

Q ss_pred             EEEEEeCCCCChHHHHHHHhc
Q 025346          117 YVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ..+++|++|+|||||+..+..
T Consensus        28 ~~~i~G~NGsGKStll~ai~~   48 (182)
T 3kta_A           28 FTAIVGANGSGKSNIGDAILF   48 (182)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            688999999999999998753

>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=93.72  E-value=0.018  Score=45.52  Aligned_cols=21  Identities=33%  Similarity=0.583  Sum_probs=18.9

Q ss_pred             EEEEEeCCCCChHHHHHHHhc
Q 025346          117 YVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .|++.|++|+||||+++.+..
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            488999999999999998864

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=93.68  E-value=0.041  Score=41.64  Aligned_cols=21  Identities=24%  Similarity=0.286  Sum_probs=18.9

Q ss_pred             EEEEEeCCCCChHHHHHHHhc
Q 025346          117 YVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +|++.|.+|+||||+.+.+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSR   22 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998864

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=93.67  E-value=0.033  Score=42.44  Aligned_cols=24  Identities=25%  Similarity=0.480  Sum_probs=20.4

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcC
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ...+++.|++|+|||+++..+...
T Consensus        43 ~~~vll~G~~G~GKT~la~~~~~~   66 (187)
T 2p65_A           43 KNNPILLGDPGVGKTAIVEGLAIK   66 (187)
T ss_dssp             SCEEEEESCGGGCHHHHHHHHHHH
T ss_pred             CCceEEECCCCCCHHHHHHHHHHH
Confidence            446899999999999999988753

>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=93.67  E-value=0.048  Score=43.98  Aligned_cols=24  Identities=33%  Similarity=0.468  Sum_probs=20.6

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .+..|++.|.+|+||||+.+.+..
T Consensus        15 ~~~~I~l~G~~GsGKsT~a~~La~   38 (233)
T 1ak2_A           15 KGVRAVLLGPPGAGKGTQAPKLAK   38 (233)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            345799999999999999998864

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=93.67  E-value=0.042  Score=44.87  Aligned_cols=22  Identities=36%  Similarity=0.604  Sum_probs=19.7

Q ss_pred             cEEEEEeCCCCChHHHHHHHhc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ..+++.|++|+|||++++.+.+
T Consensus        46 ~~vll~G~~GtGKT~la~~la~   67 (257)
T 1lv7_A           46 KGVLMVGPPGTGKTLLAKAIAG   67 (257)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEECcCCCCHHHHHHHHHH
Confidence            3599999999999999999875

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=93.62  E-value=0.042  Score=42.43  Aligned_cols=21  Identities=29%  Similarity=0.385  Sum_probs=18.9

Q ss_pred             EEEEEeCCCCChHHHHHHHhc
Q 025346          117 YVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .|++.|.+|+||||+++.+..
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            488999999999999998865

>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=93.60  E-value=0.035  Score=47.50  Aligned_cols=23  Identities=35%  Similarity=0.577  Sum_probs=20.2

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcC
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..+++.|++|+|||||++.+.+.
T Consensus        52 ~~~ll~Gp~G~GKTTLa~~ia~~   74 (334)
T 1in4_A           52 DHVLLAGPPGLGKTTLAHIIASE   74 (334)
T ss_dssp             CCEEEESSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Confidence            45899999999999999998764

>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=93.56  E-value=0.045  Score=43.52  Aligned_cols=23  Identities=39%  Similarity=0.391  Sum_probs=20.3

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +..|++.|.+|+||||+.+.+..
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            35799999999999999999875

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=93.54  E-value=0.038  Score=44.41  Aligned_cols=27  Identities=11%  Similarity=0.231  Sum_probs=23.2

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ...++..++++|++|+|||||+..+++
T Consensus        20 gi~~G~~~~i~G~~GsGKTtl~~~l~~   46 (243)
T 1n0w_A           20 GIETGSITEMFGEFRTGKTQICHTLAV   46 (243)
T ss_dssp             SEETTSEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcCCeEEEEECCCCCcHHHHHHHHHH
Confidence            345566899999999999999999886

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=93.51  E-value=0.049  Score=42.64  Aligned_cols=23  Identities=22%  Similarity=0.242  Sum_probs=20.2

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcC
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..+++.|++|+|||+|+..+...
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~~   77 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIANE   77 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            57999999999999999988753

>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=93.51  E-value=0.056  Score=43.70  Aligned_cols=24  Identities=25%  Similarity=0.447  Sum_probs=21.1

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ++..|++.|++|+||||+++.+..
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            556899999999999999998864

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=93.44  E-value=0.037  Score=45.91  Aligned_cols=21  Identities=43%  Similarity=0.700  Sum_probs=19.3

Q ss_pred             EEEEEeCCCCChHHHHHHHhc
Q 025346          117 YVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .++++|++|+|||||++.+.+
T Consensus        75 gvll~Gp~GtGKTtl~~~i~~   95 (278)
T 1iy2_A           75 GVLLVGPPGVGKTHLARAVAG   95 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCcChHHHHHHHHHH
Confidence            399999999999999999875

>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=93.35  E-value=0.054  Score=47.36  Aligned_cols=27  Identities=30%  Similarity=0.354  Sum_probs=22.9

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ....+..++++|++|+|||||++.+.+
T Consensus       165 ~i~~~~~i~l~G~~GsGKSTl~~~l~~  191 (377)
T 1svm_A          165 NIPKKRYWLFKGPIDSGKTTLAAALLE  191 (377)
T ss_dssp             CCTTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             ccCCCCEEEEECCCCCCHHHHHHHHHh
Confidence            345566899999999999999998875

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=93.29  E-value=0.21  Score=42.98  Aligned_cols=24  Identities=17%  Similarity=0.393  Sum_probs=20.8

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ....+++.|++|+|||+++..+..
T Consensus       116 ~~~~vLl~GppGtGKT~la~aia~  139 (357)
T 3d8b_A          116 PPKGILLFGPPGTGKTLIGKCIAS  139 (357)
T ss_dssp             CCSEEEEESSTTSSHHHHHHHHHH
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=93.26  E-value=0.051  Score=43.58  Aligned_cols=21  Identities=24%  Similarity=0.374  Sum_probs=18.7

Q ss_pred             EEEEEeCCCCChHHHHHHHhc
Q 025346          117 YVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .|++.|++|+||||+++.+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~   22 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKD   22 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998863

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=93.24  E-value=0.064  Score=49.89  Aligned_cols=28  Identities=21%  Similarity=0.420  Sum_probs=24.3

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCc
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      ..++..++++|++|+|||||++.+.+..
T Consensus       100 ~~~Gei~~LvGpNGaGKSTLLkiL~Gll  127 (608)
T 3j16_B          100 PRPGQVLGLVGTNGIGKSTALKILAGKQ  127 (608)
T ss_dssp             CCTTSEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCCCEEEEECCCCChHHHHHHHHhcCC
Confidence            3567789999999999999999999753

>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=93.17  E-value=0.058  Score=43.91  Aligned_cols=22  Identities=36%  Similarity=0.400  Sum_probs=19.9

Q ss_pred             CcEEEEEeCCCCChHHHHHHHh
Q 025346          115 SGYVAVLGKPNVGKSTLANQMI  136 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~  136 (254)
                      +..+++.|++|+||||+.+.+.
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            4579999999999999999886

>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga maritima} PDB: 3qg5_A 3tho_A*

Probab=93.07  E-value=0.34  Score=41.99  Aligned_cols=21  Identities=33%  Similarity=0.458  Sum_probs=18.5

Q ss_pred             cEEEEEeCCCCChHHHHHHHh
Q 025346          116 GYVAVLGKPNVGKSTLANQMI  136 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~  136 (254)
                      ...+++|++|+|||||++.+.
T Consensus        24 g~~~i~G~NGaGKTTll~ai~   44 (365)
T 3qf7_A           24 GITVVEGPNGAGKSSLFEAIS   44 (365)
T ss_dssp             EEEEEECCTTSSHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHH
Confidence            357799999999999999876

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=93.03  E-value=0.073  Score=49.51  Aligned_cols=28  Identities=25%  Similarity=0.356  Sum_probs=24.4

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcCc
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      ..++..++++|++|+|||||++.+.+.-
T Consensus       114 i~~Ge~~~LiG~NGsGKSTLlkiL~Gll  141 (607)
T 3bk7_A          114 VKDGMVVGIVGPNGTGKTTAVKILAGQL  141 (607)
T ss_dssp             CCTTSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCCCEEEEECCCCChHHHHHHHHhCCC
Confidence            4567789999999999999999998753

>3k9g_A PF-32 protein; ssgcid, SBRI, decode biostructures, UW, NIH, niaid, borellia burgdorferi, plasmid partition protein, iodide; 2.25A {Borrelia burgdorferi} PDB: 3k9h_A

Probab=93.01  E-value=0.33  Score=39.63  Aligned_cols=66  Identities=20%  Similarity=0.264  Sum_probs=41.8

Q ss_pred             CeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCC
Q 025346          162 EYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDL  238 (254)
Q Consensus       162 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl  238 (254)
                      ...+.++|||+....           .....+..+|.+++++..+...-.....+...++....+.++.+|+|+++.
T Consensus       144 ~yD~viiD~pp~~~~-----------~~~~~l~~aD~vivv~~~~~~s~~~~~~~~~~l~~~~~~~~~~vv~N~~~~  209 (267)
T 3k9g_A          144 KYDYIVIDTNPSLDV-----------TLKNALLCSDYVIIPMTAEKWAVESLDLFNFFVRKLNLFLPIFLIITRFKK  209 (267)
T ss_dssp             TCSEEEEEECSSCSH-----------HHHHHHTTCSEEEEEEESCTTHHHHHHHHHHHHHTTTCCCCEEEEEEEECT
T ss_pred             CCCEEEEECcCCccH-----------HHHHHHHHCCeEEEEeCCChHHHHHHHHHHHHHHHHhccCCEEEEEecccC
Confidence            356899999984321           122335679999999998763322222233334444556788999999943

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=92.92  E-value=0.074  Score=42.92  Aligned_cols=27  Identities=30%  Similarity=0.326  Sum_probs=21.9

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ...++..++++|++|+||||+.+.+..
T Consensus        12 ~~~~~~~i~i~G~~gsGKst~~~~l~~   38 (236)
T 1q3t_A           12 DKMKTIQIAIDGPASSGKSTVAKIIAK   38 (236)
T ss_dssp             --CCCCEEEEECSSCSSHHHHHHHHHH
T ss_pred             cccCCcEEEEECCCCCCHHHHHHHHHH
Confidence            345566899999999999999998874

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=92.91  E-value=0.066  Score=40.57  Aligned_cols=23  Identities=26%  Similarity=0.268  Sum_probs=19.7

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ...|++.|.+|+||||+.+.+..
T Consensus         7 ~~~i~l~G~~GsGKSTva~~La~   29 (168)
T 1zuh_A            7 MQHLVLIGFMGSGKSSLAQELGL   29 (168)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHHH
T ss_pred             cceEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999998864

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=92.85  E-value=0.065  Score=45.06  Aligned_cols=24  Identities=33%  Similarity=0.444  Sum_probs=20.9

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .+..+++.|++|+|||++++.+..
T Consensus        48 ~~~~vLL~Gp~GtGKT~la~ala~   71 (301)
T 3cf0_A           48 PSKGVLFYGPPGCGKTLLAKAIAN   71 (301)
T ss_dssp             CCSEEEEECSSSSSHHHHHHHHHH
T ss_pred             CCceEEEECCCCcCHHHHHHHHHH
Confidence            345799999999999999999875

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E*

Probab=92.83  E-value=0.41  Score=43.12  Aligned_cols=22  Identities=32%  Similarity=0.581  Sum_probs=19.8

Q ss_pred             cEEEEEeCCCCChHHHHHHHhc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ..++++|++|+|||++++.+.+
T Consensus        50 ~gvLL~GppGtGKT~Laraia~   71 (476)
T 2ce7_A           50 KGILLVGPPGTGKTLLARAVAG   71 (476)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            3499999999999999999886

>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=92.81  E-value=0.078  Score=42.14  Aligned_cols=25  Identities=28%  Similarity=0.326  Sum_probs=21.8

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      +..++++|++|+|||++...+...-
T Consensus        34 g~~ilI~GpsGsGKStLA~~La~~g   58 (205)
T 2qmh_A           34 GLGVLITGDSGVGKSETALELVQRG   58 (205)
T ss_dssp             TEEEEEECCCTTTTHHHHHHHHTTT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhC
Confidence            4579999999999999999998653

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=92.74  E-value=0.069  Score=44.28  Aligned_cols=25  Identities=28%  Similarity=0.231  Sum_probs=21.9

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .++..++++|++|+|||||+..+++
T Consensus        28 ~~G~i~~i~G~~GsGKTtl~~~l~~   52 (279)
T 1nlf_A           28 VAGTVGALVSPGGAGKSMLALQLAA   52 (279)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHH
T ss_pred             cCCCEEEEEcCCCCCHHHHHHHHHH
Confidence            4566799999999999999998885

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=92.71  E-value=0.069  Score=48.96  Aligned_cols=26  Identities=27%  Similarity=0.652  Sum_probs=22.9

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      .++..++++|++|+|||||++.+.+.
T Consensus       292 ~~Gei~~i~G~nGsGKSTLl~~l~Gl  317 (538)
T 3ozx_A          292 KEGEIIGILGPNGIGKTTFARILVGE  317 (538)
T ss_dssp             ETTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            34668999999999999999999975

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=92.68  E-value=0.083  Score=45.42  Aligned_cols=24  Identities=21%  Similarity=0.432  Sum_probs=21.1

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcC
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ...|+|+|++|+|||+|...+...
T Consensus        40 ~~lIvI~GPTgsGKTtLa~~LA~~   63 (339)
T 3a8t_A           40 EKLLVLMGATGTGKSRLSIDLAAH   63 (339)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTT
T ss_pred             CceEEEECCCCCCHHHHHHHHHHH
Confidence            347999999999999999999864

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=92.68  E-value=0.075  Score=42.00  Aligned_cols=22  Identities=23%  Similarity=0.294  Sum_probs=19.5

Q ss_pred             cEEEEEeCCCCChHHHHHHHhc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ..+++.|++|+|||+++..+..
T Consensus        46 ~~~ll~G~~G~GKT~l~~~~~~   67 (250)
T 1njg_A           46 HAYLFSGTRGVGKTSIARLLAK   67 (250)
T ss_dssp             SEEEEECSTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999998874

>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=92.68  E-value=0.057  Score=48.74  Aligned_cols=22  Identities=23%  Similarity=0.225  Sum_probs=20.3

Q ss_pred             cEEEEEeCCCCChHHHHHHHhc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ..++++|++|+|||||++.+.+
T Consensus        30 e~~~liG~nGsGKSTLl~~l~G   51 (483)
T 3euj_A           30 LVTTLSGGNGAGKSTTMAGFVT   51 (483)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCcHHHHHHHHhc
Confidence            6799999999999999999875

>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=92.65  E-value=0.073  Score=41.87  Aligned_cols=26  Identities=31%  Similarity=0.431  Sum_probs=21.9

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      .....|++.|.+|+||||+.+.+...
T Consensus        10 ~~~~iIgltG~~GSGKSTva~~L~~~   35 (192)
T 2grj_A           10 HHHMVIGVTGKIGTGKSTVCEILKNK   35 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHHh
Confidence            44568999999999999999988653

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=92.64  E-value=0.035  Score=56.12  Aligned_cols=49  Identities=18%  Similarity=0.192  Sum_probs=34.6

Q ss_pred             hhhhhccCCcCC--CCCCCchhhhhccccCCCCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346           82 SFLSLSEKPDRN--MASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus        82 ~~~~~~~~~~~~--~~~l~~~~~~~~~~~~~~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      .+.++.+.|...  ...+.++..        ...++.+++++|++|+|||||++.+.+-
T Consensus       389 ~~~~v~~~y~~~~~~~vL~~isl--------~i~~G~~~~ivG~sGsGKSTl~~ll~g~  439 (1284)
T 3g5u_A          389 EFKNIHFSYPSRKEVQILKGLNL--------KVKSGQTVALVGNSGCGKSTTVQLMQRL  439 (1284)
T ss_dssp             EEEEEEECCSSTTSCCSEEEEEE--------EECTTCEEEEECCSSSSHHHHHHHTTTS
T ss_pred             EEEEEEEEcCCCCCCcceecceE--------EEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            455556666432  234555543        4466789999999999999999998864

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=92.53  E-value=0.063  Score=42.91  Aligned_cols=24  Identities=29%  Similarity=0.398  Sum_probs=19.5

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +...+++.|++|+|||+++..+..
T Consensus        57 kkn~ili~GPPGtGKTt~a~ala~   80 (212)
T 1tue_A           57 KKNCLVFCGPANTGKSYFGMSFIH   80 (212)
T ss_dssp             TCSEEEEESCGGGCHHHHHHHHHH
T ss_pred             cccEEEEECCCCCCHHHHHHHHHH
Confidence            344699999999999988877663

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=92.52  E-value=0.086  Score=44.08  Aligned_cols=24  Identities=33%  Similarity=0.511  Sum_probs=20.6

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcC
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ...+++.|++|+|||+++..+...
T Consensus        47 ~~~~ll~G~~GtGKt~la~~la~~   70 (311)
T 4fcw_A           47 IGSFLFLGPTGVGKTELAKTLAAT   70 (311)
T ss_dssp             SEEEEEESCSSSSHHHHHHHHHHH
T ss_pred             ceEEEEECCCCcCHHHHHHHHHHH
Confidence            347999999999999999988753

>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=92.51  E-value=0.078  Score=44.28  Aligned_cols=22  Identities=36%  Similarity=0.576  Sum_probs=19.7

Q ss_pred             cEEEEEeCCCCChHHHHHHHhc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ..|+++|.+|+||||+.+.+..
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            3689999999999999999875

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=92.47  E-value=0.079  Score=48.55  Aligned_cols=26  Identities=23%  Similarity=0.549  Sum_probs=23.1

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      ++..++++|+.|+|||||++.+.+..
T Consensus       311 ~Ge~~~i~G~NGsGKSTLlk~l~Gl~  336 (538)
T 1yqt_A          311 KGEVIGIVGPNGIGKTTFVKMLAGVE  336 (538)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            46689999999999999999999853

>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=92.41  E-value=0.082  Score=45.03  Aligned_cols=24  Identities=25%  Similarity=0.409  Sum_probs=20.5

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcC
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      .+.++++|++|+|||+|...+...
T Consensus         3 ~~~i~i~GptgsGKt~la~~La~~   26 (322)
T 3exa_A            3 EKLVAIVGPTAVGKTKTSVMLAKR   26 (322)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHT
T ss_pred             CcEEEEECCCcCCHHHHHHHHHHh
Confidence            346889999999999999998754

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=92.36  E-value=0.094  Score=42.08  Aligned_cols=26  Identities=23%  Similarity=0.378  Sum_probs=21.5

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ..++..+++.|++|+|||||+..++.
T Consensus        20 l~~G~~~~i~G~~GsGKTtl~~~~~~   45 (247)
T 2dr3_A           20 IPERNVVLLSGGPGTGKTIFSQQFLW   45 (247)
T ss_dssp             EETTCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHH
Confidence            34566799999999999999887764

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=92.35  E-value=0.095  Score=44.56  Aligned_cols=23  Identities=22%  Similarity=0.346  Sum_probs=20.1

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +..++++|++|+|||+|...+..
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            45688999999999999999874

>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=92.33  E-value=0.092  Score=39.41  Aligned_cols=22  Identities=27%  Similarity=0.588  Sum_probs=18.7

Q ss_pred             CcEEEEEeCCCCChHHHHHHHh
Q 025346          115 SGYVAVLGKPNVGKSTLANQMI  136 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~  136 (254)
                      ....+++|+.|+||||++..+.
T Consensus        23 ~g~~~I~G~NGsGKStil~Ai~   44 (149)
T 1f2t_A           23 EGINLIIGQNGSGKSSLLDAIL   44 (149)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHH
Confidence            3467889999999999999875

>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=92.21  E-value=0.09  Score=45.67  Aligned_cols=23  Identities=35%  Similarity=0.432  Sum_probs=20.3

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQM  135 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~  135 (254)
                      .+..+++++|.+|+||||++..+
T Consensus        31 ~~~~killlG~~~SGKST~~kq~   53 (362)
T 1zcb_A           31 ARLVKILLLGAGESGKSTFLKQM   53 (362)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHH
T ss_pred             cCccEEEEECCCCCcHHHHHHHH
Confidence            44679999999999999999876

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=92.21  E-value=0.08  Score=45.38  Aligned_cols=24  Identities=13%  Similarity=0.371  Sum_probs=20.8

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcC
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      +..+++.|++|+|||++++.+...
T Consensus        45 ~~~vli~G~~G~GKTtl~~~l~~~   68 (386)
T 2qby_A           45 PNNIFIYGLTGTGKTAVVKFVLSK   68 (386)
T ss_dssp             CCCEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH
Confidence            456999999999999999998753

>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=92.17  E-value=0.089  Score=48.93  Aligned_cols=26  Identities=23%  Similarity=0.549  Sum_probs=23.0

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      ++..++++|+.|+|||||++.+.+..
T Consensus       381 ~Gei~~i~G~NGsGKSTLlk~l~Gl~  406 (607)
T 3bk7_A          381 KGEVIGIVGPNGIGKTTFVKMLAGVE  406 (607)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45689999999999999999999853

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=92.11  E-value=0.079  Score=45.22  Aligned_cols=20  Identities=20%  Similarity=0.351  Sum_probs=18.8

Q ss_pred             EEEEeCCCCChHHHHHHHhc
Q 025346          118 VAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       118 ~~~~G~~~~gKssl~~~~~~  137 (254)
                      +++.|++|+||||+++.+.+
T Consensus        39 ~ll~Gp~G~GKTtl~~~la~   58 (354)
T 1sxj_E           39 LLLYGPNGTGKKTRCMALLE   58 (354)
T ss_dssp             EEEECSTTSSHHHHHHTHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            99999999999999998876

>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=92.08  E-value=0.12  Score=45.72  Aligned_cols=25  Identities=28%  Similarity=0.436  Sum_probs=21.3

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      .+..|+++|.+|+||||+.+.+...
T Consensus       257 ~~~lIil~G~pGSGKSTla~~L~~~  281 (416)
T 3zvl_A          257 NPEVVVAVGFPGAGKSTFIQEHLVS  281 (416)
T ss_dssp             SCCEEEEESCTTSSHHHHHHHHTGG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHh
Confidence            3467889999999999999998753

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=92.05  E-value=0.11  Score=40.59  Aligned_cols=21  Identities=29%  Similarity=0.450  Sum_probs=19.1

Q ss_pred             EEEEEeCCCCChHHHHHHHhc
Q 025346          117 YVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .|++.|++|+||||+.+.+..
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            699999999999999998864

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=91.99  E-value=0.1  Score=44.55  Aligned_cols=22  Identities=23%  Similarity=0.379  Sum_probs=19.7

Q ss_pred             cEEEEEeCCCCChHHHHHHHhc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ..++++|++|+||||+...+..
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            4689999999999999998874

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=91.92  E-value=0.35  Score=38.15  Aligned_cols=66  Identities=14%  Similarity=0.076  Sum_probs=41.6

Q ss_pred             CeeEEEEecCCC-cccchhhhhHHHHHHHHHHccCccEEEEEEeCCCC-chhHHHHHHHhhcccCCCCCEEEEEecCCCC
Q 025346          162 EYQMILYDTPGI-IEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKA-PERIDEILEEGVGDHKDKLPILLVLNKKDLI  239 (254)
Q Consensus       162 ~~~~~liDtpG~-~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~-~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~  239 (254)
                      ...+.++|||+. ....           ....+..+|.+++++..+.. .......+..+.. .. +.++.+|+|++|..
T Consensus        67 ~yD~viiD~p~~~~~~~-----------~~~~l~~aD~viiv~~~~~~~~~~~~~~~~~l~~-~~-~~~~~vv~N~~~~~  133 (209)
T 3cwq_A           67 KYQNIVIDTQARPEDED-----------LEALADGCDLLVIPSTPDALALDALMLTIETLQK-LG-NNRFRILLTIIPPY  133 (209)
T ss_dssp             GCSEEEEEEECCCSSSH-----------HHHHHHTSSEEEEEECSSHHHHHHHHHHHHHHHH-TC-SSSEEEEECSBCCT
T ss_pred             cCCEEEEeCCCCcCcHH-----------HHHHHHHCCEEEEEecCCchhHHHHHHHHHHHHh-cc-CCCEEEEEEecCCc
Confidence            467999999984 3221           12335679999999988652 2333333333222 11 56789999999976


Q ss_pred             C
Q 025346          240 K  240 (254)
Q Consensus       240 ~  240 (254)
                      .
T Consensus       134 ~  134 (209)
T 3cwq_A          134 P  134 (209)
T ss_dssp             T
T ss_pred             c
Confidence            5

>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=91.91  E-value=0.099  Score=43.50  Aligned_cols=23  Identities=22%  Similarity=0.482  Sum_probs=19.9

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ...+++.|++|+|||+++..+..
T Consensus        50 ~~~vll~G~~GtGKT~la~~la~   72 (310)
T 1ofh_A           50 PKNILMIGPTGVGKTEIARRLAK   72 (310)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            34689999999999999998864

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=91.86  E-value=0.065  Score=54.23  Aligned_cols=28  Identities=25%  Similarity=0.310  Sum_probs=24.6

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ...++.+++++|++|+|||||++.+.+-
T Consensus      1055 ~i~~Ge~v~ivG~sGsGKSTl~~~l~g~ 1082 (1284)
T 3g5u_A         1055 EVKKGQTLALVGSSGCGKSTVVQLLERF 1082 (1284)
T ss_dssp             EECSSSEEEEECSSSTTHHHHHHHHTTS
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4466789999999999999999999874

>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=91.82  E-value=0.088  Score=45.31  Aligned_cols=23  Identities=22%  Similarity=0.430  Sum_probs=20.2

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcC
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      +.+++.|++|+|||++++.+...
T Consensus        45 ~~~li~G~~G~GKTtl~~~l~~~   67 (389)
T 1fnn_A           45 PRATLLGRPGTGKTVTLRKLWEL   67 (389)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            37999999999999999988753

>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=91.79  E-value=0.09  Score=44.47  Aligned_cols=24  Identities=17%  Similarity=0.221  Sum_probs=20.6

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcC
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ...+++.|++|+|||+++..+...
T Consensus        37 ~~~lll~G~~GtGKT~la~~i~~~   60 (324)
T 1l8q_A           37 YNPIFIYGSVGTGKTHLLQAAGNE   60 (324)
T ss_dssp             CSSEEEECSSSSSHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHH
Confidence            346999999999999999988753

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=91.78  E-value=0.078  Score=39.30  Aligned_cols=22  Identities=18%  Similarity=0.083  Sum_probs=19.1

Q ss_pred             cEEEEEeCCCCChHHHHHHHhc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ..+++.|++|+|||+++..+..
T Consensus        28 ~~vll~G~~GtGKt~lA~~i~~   49 (143)
T 3co5_A           28 SPVFLTGEAGSPFETVARYFHK   49 (143)
T ss_dssp             SCEEEEEETTCCHHHHHGGGCC
T ss_pred             CcEEEECCCCccHHHHHHHHHH
Confidence            3599999999999999988764

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=91.76  E-value=0.071  Score=44.80  Aligned_cols=23  Identities=22%  Similarity=0.323  Sum_probs=17.1

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ...|++.|++|+||||+.+.+..
T Consensus         5 ~~iIgItG~sGSGKSTva~~L~~   27 (290)
T 1a7j_A            5 HPIISVTGSSGAGTSTVKHTFDQ   27 (290)
T ss_dssp             SCEEEEESCC---CCTHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999998764

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=91.70  E-value=0.089  Score=45.40  Aligned_cols=29  Identities=21%  Similarity=0.233  Sum_probs=24.4

Q ss_pred             CCCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          110 HPNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       110 ~~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ...+++..+.++|++|+|||||+..+++.
T Consensus       126 ggi~~G~i~~I~G~~GsGKTTL~~~l~~~  154 (349)
T 1pzn_A          126 GGIETQAITEVFGEFGSGKTQLAHTLAVM  154 (349)
T ss_dssp             SSEESSEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            34556778999999999999999998864

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=91.62  E-value=0.12  Score=40.14  Aligned_cols=26  Identities=31%  Similarity=0.396  Sum_probs=22.0

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCcc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKL  140 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~  140 (254)
                      +.-+++.|++|+||||+.-.+.....
T Consensus        16 G~gvli~G~SGaGKStlal~L~~rG~   41 (181)
T 3tqf_A           16 KMGVLITGEANIGKSELSLALIDRGH   41 (181)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHHTTC
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHcCC
Confidence            45699999999999999999886543

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=91.57  E-value=0.13  Score=41.65  Aligned_cols=23  Identities=26%  Similarity=0.372  Sum_probs=20.0

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +..|++.|..|+||||+++.+..
T Consensus         2 ~~~i~~~G~~g~GKtt~~~~l~~   24 (241)
T 2ocp_A            2 PRRLSIEGNIAVGKSTFVKLLTK   24 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHH
Confidence            35689999999999999998864

>1sxj_B Activator 1 37 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=91.56  E-value=0.19  Score=41.92  Aligned_cols=21  Identities=24%  Similarity=0.493  Sum_probs=19.0

Q ss_pred             EEEEeCCCCChHHHHHHHhcC
Q 025346          118 VAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       118 ~~~~G~~~~gKssl~~~~~~~  138 (254)
                      +++.|++|+|||+++..+...
T Consensus        45 ~ll~G~~G~GKt~la~~l~~~   65 (323)
T 1sxj_B           45 MIISGMPGIGKTTSVHCLAHE   65 (323)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHH
Confidence            999999999999999988754

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=91.54  E-value=0.12  Score=48.07  Aligned_cols=24  Identities=25%  Similarity=0.481  Sum_probs=21.5

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      ..++++|++|+|||||++.+.+-.
T Consensus       379 Eiv~iiG~NGsGKSTLlk~l~Gl~  402 (608)
T 3j16_B          379 EILVMMGENGTGKTTLIKLLAGAL  402 (608)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHTSS
T ss_pred             eEEEEECCCCCcHHHHHHHHhcCC
Confidence            468999999999999999999854

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=91.27  E-value=0.12  Score=44.50  Aligned_cols=22  Identities=18%  Similarity=0.344  Sum_probs=19.6

Q ss_pred             cEEEEEeCCCCChHHHHHHHhc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ..|+|+|++|+|||||...+..
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            4689999999999999998874

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=91.26  E-value=0.12  Score=44.19  Aligned_cols=22  Identities=23%  Similarity=0.294  Sum_probs=19.2

Q ss_pred             cEEEEEeCCCCChHHHHHHHhc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ..+++.|++|+|||+++..+..
T Consensus        39 ~~~ll~G~~G~GKT~la~~la~   60 (373)
T 1jr3_A           39 HAYLFSGTRGVGKTSIARLLAK   60 (373)
T ss_dssp             SEEEEESCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            3589999999999999998864

---

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	254
d1egaa1	179	c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {	2e-20
d1xzpa2	160	c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotog	7e-17
d1udxa2	180	c.37.1.8 (A:157-336) Obg GTP-binding protein middl	5e-14
d1lnza2	185	c.37.1.8 (A:158-342) Obg GTP-binding protein middl	1e-13
d1h65a_	257	c.37.1.8 (A:) Chloroplast protein translocon GTPas	3e-13
d1tq4a_	400	c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (	3e-13
d1wf3a1	178	c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {	5e-13
d2cxxa1	184	c.37.1.8 (A:2-185) GTP-binding protein engB {Pyroc	2e-12
d1mkya1	171	c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal	7e-12
d2gj8a1	161	c.37.1.8 (A:216-376) Probable tRNA modification GT	5e-11
d1mkya2	186	c.37.1.8 (A:173-358) Probable GTPase Der, N-termin	6e-11
d1nrjb_	209	c.37.1.8 (B:) Signal recognition particle receptor	2e-10
d1puia_	188	c.37.1.8 (A:) Probable GTPase EngB {Escherichia co	1e-08
d1svia_	195	c.37.1.8 (A:) Probable GTPase EngB {Bacillus subti	2e-08
d2fh5b1	207	c.37.1.8 (B:63-269) Signal recognition particle re	4e-07
d1puja_	273	c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subti	6e-07
d2f9la1	175	c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [T	2e-06
d2qtvb1	166	c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharom	2e-06
d1u0la2	225	c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C	2e-06
d1wxqa1	319	c.37.1.8 (A:1-319) GTP-binding protein PH0525 {Pyr	6e-06
d1f6ba_	186	c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus gr	3e-05
d2fu5c1	173	c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [Ta	3e-05
d1g7sa4	227	c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-	4e-05
d2bmea1	174	c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [Ta	5e-05
d1ksha_	165	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	1e-04
d1mh1a_	183	c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 96	1e-04
d2bcgy1	194	c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Sac	1e-04
d1zd9a1	164	c.37.1.8 (A:18-181) ADP-ribosylation factor {Human	1e-04
d3raba_	169	c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxI	1e-04
d1u8za_	168	c.37.1.8 (A:) Ras-related protein RalA {Cotton-top	1e-04
d1kaoa_	167	c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId:	2e-04
d2a5ja1	173	c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [Ta	2e-04
d1t9ha2	231	c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C	2e-04
d1g16a_	166	c.37.1.8 (A:) Rab-related protein Sec4 {Baker's ye	3e-04
d1fzqa_	176	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	4e-04
d2ngra_	191	c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId:	5e-04
d1ni3a1	296	c.37.1.8 (A:11-306) YchF GTP-binding protein N-ter	6e-04
d1z0fa1	166	c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [Ta	7e-04
d1x3sa1	177	c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [Ta	8e-04
d1ly1a_	152	c.37.1.1 (A:) Polynucleotide kinase, kinase domain	8e-04
d2ew1a1	171	c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [Ta	9e-04
d2g6ba1	170	c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [T	0.001
d1ctqa_	166	c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapi	0.001
d2g3ya1	172	c.37.1.8 (A:73-244) GTP-binding protein GEM {Human	0.001
d1vg8a_	184	c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId	0.002
d2atxa1	185	c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [Tax	0.002
d1ky3a_	175	c.37.1.8 (A:) Rab-related protein ypt7p {Baker's y	0.002
d2c78a3	204	c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N	0.002
d2erxa1	171	c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [	0.002
d1wmsa_	174	c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId:	0.002
d1upta_	169	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	0.003
d1r8sa_	160	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	0.004

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]} Length = 179

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

 Score = 83.2 bits (204), Expect = 2e-20
 Identities = 45/132 (34%), Positives = 80/132 (60%), Gaps = 3/132 (2%)

Query: 112 NHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTP 171
               G++A++G+PNVGKSTL N+++GQK+SI + K QTTRHRI+GI +   YQ I  DTP
Sbjct: 2   KSYCGFIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEGAYQAIYVDTP 61

Query: 172 GIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILL 231
           G+  ++   ++ +M K   S+  + + ++ +V+  +     + +L +     + K P++L
Sbjct: 62  GLHMEEKRAINRLMNKAASSSIGDVELVIFVVEGTRWTPDDEMVLNK---LREGKAPVIL 118

Query: 232 VLNKKDLIKPGE 243
            +NK D ++   
Sbjct: 119 AVNKVDNVQEKA 130

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]} Length = 160

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

 Score = 73.5 bits (179), Expect = 7e-17
 Identities = 27/97 (27%), Positives = 50/97 (51%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
           + ++GKPNVGKSTL N+++ +  +IVT+ P TTR  I            + DT G+  + 
Sbjct: 3   MVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRGILFRIVDTAGVRSET 62

Query: 178 IHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDE 214
             +++ + ++        AD ++ ++DA    +  D 
Sbjct: 63  NDLVERLGIERTLQEIEKADIVLFVLDASSPLDEEDR 99

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]} Length = 180

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

 Score = 66.2 bits (160), Expect = 5e-14
 Identities = 34/135 (25%), Positives = 53/135 (39%), Gaps = 5/135 (3%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
           V ++G PN GKS+L   M      I      T    +  +    E +  L D PGIIE  
Sbjct: 4   VGLVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPNLGVVEVSEEERFTLADIPGIIEGA 63

Query: 178 IHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKL---PILLVLN 234
                  +             ++ ++DA   P +  E L + VG +   L   P L+ LN
Sbjct: 64  SEGKG--LGLEFLRHIARTRVLLYVLDAADEPLKTLETLRKEVGAYDPALLRRPSLVALN 121

Query: 235 KKDLIKPGEIAKKLE 249
           K DL++   +    +
Sbjct: 122 KVDLLEEEAVKALAD 136

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]} Length = 185

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

 Score = 65.3 bits (158), Expect = 1e-13
 Identities = 26/137 (18%), Positives = 56/137 (40%), Gaps = 5/137 (3%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
           V ++G P+VGKSTL + +   K  I      T    +  + +      ++ D PG+IE  
Sbjct: 4   VGLVGFPSVGKSTLLSVVSSAKPKIADYHFTTLVPNLGMVETDDGRSFVMADLPGLIEGA 63

Query: 178 IHM--LDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKD---KLPILLV 232
                L    ++++    +    I +     + P      + + + ++     + P ++V
Sbjct: 64  HQGVGLGHQFLRHIERTRVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIV 123

Query: 233 LNKKDLIKPGEIAKKLE 249
            NK D+ +  E  +  +
Sbjct: 124 ANKMDMPEAAENLEAFK 140

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]} Length = 257

class: 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]

 Score = 65.6 bits (159), Expect = 3e-13
 Identities = 23/131 (17%), Positives = 51/131 (38%), Gaps = 4/131 (3%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
           + V+GK  VGKS+  N +IG+++  ++         ++   S   + + + DTPG+IE  
Sbjct: 35  ILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSRAGFTLNIIDTPGLIEGG 94

Query: 178 IHMLDSMMM--KNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKL--PILLVL 233
                ++ +    +    I+    V  +DA +       + +         +    ++ L
Sbjct: 95  YINDMALNIIKSFLLDKTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNKAIVAL 154

Query: 234 NKKDLIKPGEI 244
                  P  +
Sbjct: 155 THAQFSPPDGL 165

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]} Length = 400

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 66.3 bits (161), Expect = 3e-13
 Identities = 22/135 (16%), Positives = 41/135 (30%), Gaps = 13/135 (9%)

Query: 117 YVAVLGKPNVGKSTLANQMIGQKL----SIVTNKPQTTRHRILGICSGPEYQMILYDTPG 172
            VAV G+   GKS+  N + G       +  T   + T  R           ++ +D PG
Sbjct: 58  NVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHPN-IPNVVFWDLPG 116

Query: 173 IIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLV 232
           I          +            +    ++ +    ++ D  + + +     K     V
Sbjct: 117 IGSTNFPPDTYLEKMK------FYEYDFFIIISATRFKKNDIDIAKAI--SMMKKEFYFV 168

Query: 233 LNKKDLIKPGEIAKK 247
             K D     E   +
Sbjct: 169 RTKVDSDITNEADGE 183

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]} Length = 178

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

 Score = 63.2 bits (152), Expect = 5e-13
 Identities = 51/136 (37%), Positives = 76/136 (55%), Gaps = 1/136 (0%)

Query: 112 NHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTP 171
              SG+VA++GKPNVGKSTL N ++G K++ ++ +PQTTR R+ GI +    Q I++   
Sbjct: 2   KTYSGFVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTEGRRQ-IVFVDT 60

Query: 172 GIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILL 231
             + K +  L   M + V  A  + + +V +VD    P   DE++   +     K+PILL
Sbjct: 61  PGLHKPMDALGEFMDQEVYEALADVNAVVWVVDLRHPPTPEDELVARALKPLVGKVPILL 120

Query: 232 VLNKKDLIKPGEIAKK 247
           V NK D  K  E A K
Sbjct: 121 VGNKLDAAKYPEEAMK 136

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]} Length = 184

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

 Score = 61.6 bits (148), Expect = 2e-12
 Identities = 32/146 (21%), Positives = 52/146 (35%), Gaps = 20/146 (13%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
           +   G+ NVGKSTL  ++ G+K+     +P  TR               + D PG     
Sbjct: 3   IIFAGRSNVGKSTLIYRLTGKKV-RRGKRPGVTRKI----IEIEWKNHKIIDMPGFGFMM 57

Query: 178 IHMLDSMM------MKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDH-------- 223
               +         +  +     N D  V++VD   APE I    + G            
Sbjct: 58  GLPKEVQERIKDEIVHFIEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFL 117

Query: 224 -KDKLPILLVLNKKDLIKPGEIAKKL 248
            +  +P ++ +NK D IK  +     
Sbjct: 118 RELDIPTIVAVNKLDKIKNVQEVINF 143

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

 Score = 60.2 bits (144), Expect = 7e-12
 Identities = 25/89 (28%), Positives = 45/89 (50%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
           V ++G+PNVGKSTL N+++ +K +IV ++   TR  +            L DT G+ +  
Sbjct: 3   VLIVGRPNVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEWYGKTFKLVDTCGVFDNP 62

Query: 178 IHMLDSMMMKNVRSAGINADCIVVLVDAC 206
             ++   M +   +    AD ++ +VD  
Sbjct: 63  QDIISQKMKEVTLNMIREADLVLFVVDGK 91

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]} Length = 161

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

 Score = 57.4 bits (137), Expect = 5e-11
 Identities = 31/132 (23%), Positives = 55/132 (41%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
           V + G+PN GKS+L N + G++ +IVT+   TTR  +          + + DT G+ E  
Sbjct: 4   VVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDGMPLHIIDTAGLREAS 63

Query: 178 IHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKD 237
             +    + +  +        + ++           EI  E +     KLPI +V NK D
Sbjct: 64  DEVERIGIERAWQEIEQADRVLFMVDGTTTDAVDPAEIWPEFIARLPAKLPITVVRNKAD 123

Query: 238 LIKPGEIAKKLE 249
           +        ++ 
Sbjct: 124 ITGETLGMSEVN 135

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]} Length = 186

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

 Score = 57.8 bits (138), Expect = 6e-11
 Identities = 25/89 (28%), Positives = 47/89 (52%), Gaps = 3/89 (3%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEK- 176
           VA++G+PNVGKSTL N ++ ++ ++V+  P TTR  +         + +  DT G+  K 
Sbjct: 11  VAIVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFIDGRKYVFVDTAGLRRKS 70

Query: 177 --KIHMLDSMMMKNVRSAGINADCIVVLV 203
             +   ++      V  +   AD +V+++
Sbjct: 71  RVEPRTVEKYSNYRVVDSIEKADVVVIVL 99

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 209

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 56.6 bits (135), Expect = 2e-10
 Identities = 26/142 (18%), Positives = 53/142 (37%), Gaps = 20/142 (14%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
           + + G  N GK++L   +    +     +P       L         + L D PG ++ +
Sbjct: 6   IIIAGPQNSGKTSLLTLLTTDSV-----RPTVVSQEPLSAADYDGSGVTLVDFPGHVKLR 60

Query: 178 IHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDH-------KDKLPIL 230
             + D +  +           ++ +VD+   P+++    E  V          ++ + IL
Sbjct: 61  YKLSDYLKTRAKFV-----KGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDIL 115

Query: 231 LVLNKKDLIK---PGEIAKKLE 249
           +  NK +L     P +I   LE
Sbjct: 116 IACNKSELFTARPPSKIKDALE 137

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]} Length = 188

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

 Score = 51.3 bits (121), Expect = 1e-08
 Identities = 25/139 (17%), Positives = 42/139 (30%)

Query: 111 PNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDT 170
           P+     VA  G+ N GKS+  N +  QK    T+K       I         +++    
Sbjct: 12  PSDTGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVADGKRLVDLPG 71

Query: 171 PGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPIL 230
            G  E    M                    ++V         D   +         + +L
Sbjct: 72  YGYAEVPEEMKRKWQRALGEYLEKRQSLQGLVVLMDIRHPLKDLDQQMIEWAVDSNIAVL 131

Query: 231 LVLNKKDLIKPGEIAKKLE 249
           ++L K D +  G    +L 
Sbjct: 132 VLLTKADKLASGARKAQLN 150

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]} Length = 195

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

 Score = 50.9 bits (120), Expect = 2e-08
 Identities = 25/152 (16%), Positives = 57/152 (37%), Gaps = 2/152 (1%)

Query: 99  DYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQK-LSIVTNKPQTTRHRILGI 157
           +  I       +P      +A+ G+ NVGKS+  N +I +K L+  ++KP  T+     I
Sbjct: 7   EIVISAVKPEQYPEGGLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYI 66

Query: 158 CSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILE 217
            +   + + +    G  +      ++             +   V+          ++ ++
Sbjct: 67  INDELHFVDVPGY-GFAKVSKSEREAWGRMIETYITTREELKAVVQIVDLRHAPSNDDVQ 125

Query: 218 EGVGDHKDKLPILLVLNKKDLIKPGEIAKKLE 249
                    +P++++  K D I  G+  K  +
Sbjct: 126 MYEFLKYYGIPVIVIATKADKIPKGKWDKHAK 157

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]} Length = 207

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 47.3 bits (111), Expect = 4e-07
 Identities = 14/135 (10%), Positives = 38/135 (28%), Gaps = 6/135 (4%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
           V  +G  + GK+ L  +++  +          +        +      ++        + 
Sbjct: 3   VLFVGLCDSGKTLLFVRLLTGQYRDTQTSITDSSAIYKVNNNRGNSLTLIDLPGHESLRF 62

Query: 178 IHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKD 237
             +             +++      V           I    + +      +L+  NK+D
Sbjct: 63  QLLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSP---SLLIACNKQD 119

Query: 238 LIK---PGEIAKKLE 249
           +        I ++LE
Sbjct: 120 IAMAKSAKLIQQQLE 134

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]} Length = 273

class: 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]

 Score = 47.1 bits (111), Expect = 6e-07
 Identities = 30/111 (27%), Positives = 50/111 (45%), Gaps = 8/111 (7%)

Query: 108 ASHPNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMIL 167
           A     ++    ++G PNVGKSTL N++  + ++   ++P  T  +   +  G   ++ L
Sbjct: 105 AKGVKPRAIRALIIGIPNVGKSTLINRLAKKNIAKTGDRPGITTSQQW-VKVGK--ELEL 161

Query: 168 YDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEE 218
            DTPGI+  K    D ++   +   G   D I+ L D           LEE
Sbjct: 162 LDTPGILWPKFE--DELVGLRLAVTGAIKDSIINLQDVA---VFGLRFLEE 207

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.9 bits (105), Expect = 2e-06
 Identities = 19/120 (15%), Positives = 38/120 (31%), Gaps = 6/120 (5%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
           V ++G   VGKS L ++    + ++ +            I    +            E+ 
Sbjct: 7   VVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERY 66

Query: 178 IHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKD 237
             +  +               +V  +      E ++  L+E        + I+LV NK D
Sbjct: 67  RRITSAYYRGA------VGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSD 120

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 44.7 bits (104), Expect = 2e-06
 Identities = 25/138 (18%), Positives = 45/138 (32%), Gaps = 13/138 (9%)

Query: 116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIE 175
           G +  LG  N GK+TL + +   +L+ +    Q T H      +    +   +D      
Sbjct: 1   GKLLFLGLDNAGKTTLLHMLKNDRLATL----QPTWHPTSEELAIGNIKFTTFDLG--GH 54

Query: 176 KKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNK 235
            +   L       V       D      D  +  E   E+           +P +++ NK
Sbjct: 55  IQARRLWKDYFPEVNGIVFLVDAA----DPERFDEARVELDALFNIAELKDVPFVILGNK 110

Query: 236 KDL---IKPGEIAKKLEV 250
            D    +   E+   L +
Sbjct: 111 IDAPNAVSEAELRSALGL 128

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]} Length = 225

class: 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]

 Score = 44.7 bits (105), Expect = 2e-06
 Identities = 18/92 (19%), Positives = 32/92 (34%), Gaps = 10/92 (10%)

Query: 114 KSGYVAVLGKPNVGKSTLANQM-------IGQKLSIVTNKPQTTRHRILGICSGPEYQMI 166
           K     + G   VGKS+L N +       + +    +     TT    L           
Sbjct: 94  KGKISTMAGLSGVGKSSLLNAINPGLKLRVSEVSEKLQRGRHTTTTAQLLKFDF---GGY 150

Query: 167 LYDTPGIIEKKIHMLDSMMMKNVRSAGINADC 198
           + DTPG    +I+ ++   +K+      +  C
Sbjct: 151 VVDTPGFANLEINDIEPEELKHYFKEFGDKQC 182

>d1wxqa1 c.37.1.8 (A:1-319) GTP-binding protein PH0525 {Pyrococcus horikoshii [TaxId: 53953]} Length = 319

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein PH0525
species: Pyrococcus horikoshii [TaxId: 53953]

 Score = 44.1 bits (103), Expect = 6e-06
 Identities = 26/157 (16%), Positives = 49/157 (31%), Gaps = 31/157 (19%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTT--------------RHRILGICSGPEY 163
           + V+GKPNVGKST  +      + I  N P TT                + LG    P+ 
Sbjct: 3   IGVVGKPNVGKSTFFSAATLVDVEI-ANYPFTTIEANVGVTYAITDHPCKELGCSPNPQN 61

Query: 164 ----------QMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERID 213
                      + + D  G++          +          A  ++ +VD        +
Sbjct: 62  YEYRNGLALIPVKMVDVAGLVP--GAHEGRGLGNKFLDDLRMASALIHVVD-ATGKTDPE 118

Query: 214 EILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLEV 250
               +     +D   +   ++       G ++K  + 
Sbjct: 119 GQPTDYHDPVEDIEFLEREIDYWIY---GILSKGWDK 152

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]} Length = 186

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

 Score = 41.6 bits (96), Expect = 3e-05
 Identities = 24/136 (17%), Positives = 44/136 (32%), Gaps = 10/136 (7%)

Query: 114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGI 173
           K+G +  LG  N GK+TL + +   +L         T   +          M        
Sbjct: 12  KTGKLVFLGLDNAGKTTLLHMLKDDRLGQHVPTLHPTSEEL------TIAGMTFTTFDLG 65

Query: 174 IEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVL 233
              +   +    +  +       DC     D  +  E  +E+      +    +PIL++ 
Sbjct: 66  GHIQARRVWKNYLPAINGIVFLVDC----ADHERLLESKEELDSLMTDETIANVPILILG 121

Query: 234 NKKDLIKPGEIAKKLE 249
           NK D  +     +  E
Sbjct: 122 NKIDRPEAISEERLRE 137

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 40.9 bits (95), Expect = 3e-05
 Identities = 18/123 (14%), Positives = 41/123 (33%), Gaps = 12/123 (9%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGI-CSGPEYQMILYDTPGIIEK 176
           + ++G   VGK+ +  +      +           +I  I   G   ++ ++DT G    
Sbjct: 9   LLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAG---- 64

Query: 177 KIHMLDSMMMKNVRSAGINADCIVVLVDACKAP--ERIDEILEEGVGDHKDKLPILLVLN 234
                 ++     R     A  I+++ D       + I   +          +  +++ N
Sbjct: 65  -QERFRTITTAYYR----GAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGN 119

Query: 235 KKD 237
           K D
Sbjct: 120 KCD 122

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]} Length = 227

class: 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]

 Score = 41.2 bits (95), Expect = 4e-05
 Identities = 26/147 (17%), Positives = 46/147 (31%), Gaps = 16/147 (10%)

Query: 115 SGYVAVLGKPNVGKSTLANQMIGQKLSI-----------VTNKPQTTRHRILGICSGPEY 163
           S  V+VLG  + GK+TL + + G  ++             T  P      I G       
Sbjct: 5   SPIVSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFS 64

Query: 164 QMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDH 223
                     I+   H   + + K   +    A  IV + +  K   +    +       
Sbjct: 65  IRETLPGLFFIDTPGHEAFTTLRKRGGALADLAILIVDINEGFKPQTQEALNIL-----R 119

Query: 224 KDKLPILLVLNKKDLIKPGEIAKKLEV 250
             + P ++  NK D I    + +    
Sbjct: 120 MYRTPFVVAANKIDRIHGWRVHEGRPF 146

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]} Length = 174

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.7 bits (94), Expect = 5e-05
 Identities = 27/123 (21%), Positives = 43/123 (34%), Gaps = 12/123 (9%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMI-LYDTPGIIEK 176
             V+G    GKS L +Q I +K    +N           I  G +Y  + ++DT G    
Sbjct: 8   FLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAG---- 63

Query: 177 KIHMLDSMMMKNVRSAGINADCIVVLVDAC--KAPERIDEILEEGVGDHKDKLPILLVLN 234
                        RS    A   +++ D    +    +   L +        + I+L  N
Sbjct: 64  -----QERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGN 118

Query: 235 KKD 237
           KKD
Sbjct: 119 KKD 121

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]} Length = 165

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

 Score = 39.3 bits (90), Expect = 1e-04
 Identities = 17/132 (12%), Positives = 46/132 (34%), Gaps = 10/132 (7%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
           + +LG  N GK+T+  +  G+ +  ++     T    +       +++ ++D  G    +
Sbjct: 5   LLMLGLDNAGKTTILKKFNGEDVDTIS----PTLGFNIKTLEHRGFKLNIWDVGGQKSLR 60

Query: 178 IHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKD 237
            +  +     +     +++     + D  +  + +                +L+  NK+D
Sbjct: 61  SYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEE------RLAGATLLIFANKQD 114

Query: 238 LIKPGEIAKKLE 249
           L          E
Sbjct: 115 LPGALSCNAIQE 126

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]} Length = 183

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.6 bits (91), Expect = 1e-04
 Identities = 23/130 (17%), Positives = 40/130 (30%), Gaps = 7/130 (5%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
             V+G   VGK+ L                    +    +  G    + L+DT       
Sbjct: 8   CVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTA------ 61

Query: 178 IHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKD 237
               D   ++ +     +   I   + +  + E +       V  H    PI+LV  K D
Sbjct: 62  -GQEDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLD 120

Query: 238 LIKPGEIAKK 247
           L    +  +K
Sbjct: 121 LRDDKDTIEK 130

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 194

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 39.5 bits (91), Expect = 1e-04
 Identities = 21/120 (17%), Positives = 44/120 (36%), Gaps = 8/120 (6%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPE-YQMILYDTPGIIEK 176
           + ++G   VGKS L  +      +           +I  +    +  ++ ++DT G  ++
Sbjct: 9   LLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAG--QE 66

Query: 177 KIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKK 236
           +   + S   +       +   IV  V   ++   +   L+E        +  LLV NK 
Sbjct: 67  RFRTITSSYYRGS-----HGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKC 121

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

 Score = 39.3 bits (90), Expect = 1e-04
 Identities = 19/132 (14%), Positives = 43/132 (32%), Gaps = 9/132 (6%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
           + ++G    GK+T  N +   +          T    +   +     + L+D  G    +
Sbjct: 5   LTLVGLQYSGKTTFVNVIASGQ---FNEDMIPTVGFNMRKITKGNVTIKLWDIGGQPRFR 61

Query: 178 IHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKD 237
                     +     ++A          K     +E+           +P+L++ NK+D
Sbjct: 62  SMWERYCRGVSAIVYMVDAADQ------EKIEASKNELHNLLDKPQLQGIPVLVLGNKRD 115

Query: 238 LIKPGEIAKKLE 249
           L    +  + +E
Sbjct: 116 LPGALDEKELIE 127

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 39.1 bits (90), Expect = 1e-04
 Identities = 16/119 (13%), Positives = 42/119 (35%), Gaps = 8/119 (6%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPE-YQMILYDTPGIIEK 176
           + ++G  +VGK++   +      +           ++  I    +  ++ ++DT G    
Sbjct: 8   ILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAG---- 63

Query: 177 KIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNK 235
                 ++     R A      ++  +   ++   + +   +      D   +LLV NK
Sbjct: 64  -QERYRTITTAYYRGA--MGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNK 119

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]} Length = 168

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

 Score = 39.2 bits (90), Expect = 1e-04
 Identities = 28/122 (22%), Positives = 49/122 (40%), Gaps = 8/122 (6%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
           V ++G   VGKS L  Q +  +        +   +R   +  G E Q+ + DT G  +  
Sbjct: 7   VIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDY- 65

Query: 178 IHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDK-LPILLVLNKK 236
                ++     RS        V  +   ++     +  E+ +   +D+ +P LLV NK 
Sbjct: 66  ----AAIRDNYFRSG--EGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKS 119

Query: 237 DL 238
           DL
Sbjct: 120 DL 121

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.7 bits (89), Expect = 2e-04
 Identities = 24/121 (19%), Positives = 39/121 (32%), Gaps = 6/121 (4%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
           V VLG   VGKS L  Q +        +      +R           + + DT G  +  
Sbjct: 6   VVVLGSGGVGKSALTVQFVTGTFIEKYDPTIEDFYRKEIEVDSSPSVLEILDTAGTEQFA 65

Query: 178 IHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKD 237
                 +              +  LV+     +      +       +K+P++LV NK D
Sbjct: 66  SMRDLYIKNGQ------GFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVD 119

Query: 238 L 238
           L
Sbjct: 120 L 120

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.3 bits (88), Expect = 2e-04
 Identities = 20/120 (16%), Positives = 37/120 (30%), Gaps = 6/120 (5%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
             ++G   VGKS L  Q   ++         T            + + I         ++
Sbjct: 6   YIIIGDTGVGKSCLLLQFTDKRFQ--PVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQE 63

Query: 178 IHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKD 237
                S+     R A      +V  +   +    +   LE+        + I+L+ NK D
Sbjct: 64  SFR--SITRSYYRGA--AGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSD 119

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]} Length = 231

class: 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]

 Score = 38.9 bits (90), Expect = 2e-04
 Identities = 21/145 (14%), Positives = 44/145 (30%), Gaps = 7/145 (4%)

Query: 48  LVLSEKEVQQQKLWSNQREMDLDDGDEMEFDDASSFLSLSEKPDRNMASPDDYEIEEFDY 107
           LVL E    Q  +   + ++  D   E      +             +S D   + +   
Sbjct: 34  LVLVEANDIQPIICITKMDLIEDQDTEDTIQAYAEDYRNIGYDVYLTSSKDQDSLADIIP 93

Query: 108 ASHPNHKSGYVAVLGKPNVGKSTLANQMIG---QKLSIVTNKPQTTRHRILGICSGPEYQ 164
                         G+  VGKS+L N +      + + ++      +H    +       
Sbjct: 94  HFQDKT----TVFAGQSGVGKSSLLNAISPELGLRTNEISEHLGRGKHTTRHVELIHTSG 149

Query: 165 MILYDTPGIIEKKIHMLDSMMMKNV 189
            ++ DTPG    +   ++   +   
Sbjct: 150 GLVADTPGFSSLEFTDIEEEELGYT 174

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 38.2 bits (88), Expect = 3e-04
 Identities = 23/124 (18%), Positives = 52/124 (41%), Gaps = 12/124 (9%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGI-CSGPEYQMILYDTPGIIEK 176
           + ++G   VGKS L  + +  K +           +I  +  +G + ++ ++DT G  ++
Sbjct: 5   ILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAG--QE 62

Query: 177 KIHMLDSMMMKNVRSAGINADCIVVLVDA--CKAPERIDEILEEGVGDHKDKLPILLVLN 234
           +   + +   +        A  I+++ D    +    I +  +       D+  +LLV N
Sbjct: 63  RFRTITTAYYR-------GAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGN 115

Query: 235 KKDL 238
           K D+
Sbjct: 116 KSDM 119

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]} Length = 176

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

 Score = 37.6 bits (86), Expect = 4e-04
 Identities = 23/136 (16%), Positives = 50/136 (36%), Gaps = 18/136 (13%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
           + +LG  N GK+TL  Q+  + +S +T                  + +    + G     
Sbjct: 19  ILLLGLDNAGKTTLLKQLASEDISHITP--------------TQGFNIKSVQSQGFKLNV 64

Query: 178 IHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHK----DKLPILLVL 233
             +     ++    +      I++ V      +R +E  +E     +      +P+L+  
Sbjct: 65  WDIGGQRKIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFA 124

Query: 234 NKKDLIKPGEIAKKLE 249
           NK+DL+     ++  E
Sbjct: 125 NKQDLLTAAPASEIAE 140

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]} Length = 191

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.7 bits (86), Expect = 5e-04
 Identities = 23/121 (19%), Positives = 38/121 (31%), Gaps = 7/121 (5%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
             V+G   VGK+ L       K       P    +  + +  G E   +        E  
Sbjct: 6   CVVVGDGAVGKTCLLISYTTNKF-PSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQE-- 62

Query: 178 IHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKD 237
               D +   +      +   +   V +  + E + E     +  H  K P LLV  + D
Sbjct: 63  --DYDRLRPLSYPQT--DVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQID 118

Query: 238 L 238
           L
Sbjct: 119 L 119

>d1ni3a1 c.37.1.8 (A:11-306) YchF GTP-binding protein N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]} Length = 296

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

 Score = 38.3 bits (88), Expect = 6e-04
 Identities = 13/44 (29%), Positives = 17/44 (38%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGP 161
             ++G PNVGKST    +    L    N P  T        + P
Sbjct: 13  TGIVGMPNVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVP 56

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.2 bits (85), Expect = 7e-04
 Identities = 23/121 (19%), Positives = 40/121 (33%), Gaps = 8/121 (6%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGIC-SGPEYQMILYDTPGIIEK 176
             ++G   VGKS L +Q   +K                 I  SG + ++ ++DT G    
Sbjct: 7   YIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAG---- 62

Query: 177 KIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKK 236
                 ++     R A      +V  +        +   L +          I+L+ NK 
Sbjct: 63  -QERFRAVTRSYYRGA--AGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKA 119

Query: 237 D 237
           D
Sbjct: 120 D 120

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.1 bits (85), Expect = 8e-04
 Identities = 11/56 (19%), Positives = 24/56 (42%), Gaps = 1/56 (1%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGIC-SGPEYQMILYDTPG 172
           + ++G+  VGKS+L  +                  ++  I   G + ++ ++DT G
Sbjct: 10  ILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAG 65

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]} Length = 152

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]

 Score = 36.6 bits (83), Expect = 8e-04
 Identities = 14/82 (17%), Positives = 25/82 (30%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
           +  +G P  GKST A + I +            R  I+      EY+        +   +
Sbjct: 5   ILTIGCPGSGKSTWAREFIAKNPGFYNINRDDYRQSIMAHEERDEYKYTKKKEGIVTGMQ 64

Query: 178 IHMLDSMMMKNVRSAGINADCI 199
                S++       G+     
Sbjct: 65  FDTAKSILYGGDSVKGVIISDT 86

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.7 bits (84), Expect = 9e-04
 Identities = 26/122 (21%), Positives = 47/122 (38%), Gaps = 8/122 (6%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGI-CSGPEYQMILYDTPGIIEK 176
           + ++G   VGK+ L  +                   I  +  +G + ++ ++DT G    
Sbjct: 8   IVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAG---- 63

Query: 177 KIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKK 236
                 S+     RSA  NA  +   +   ++   + E L E      +K+  +LV NK 
Sbjct: 64  -QERFRSITQSYYRSA--NALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKI 120

Query: 237 DL 238
           DL
Sbjct: 121 DL 122

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.8 bits (84), Expect = 0.001
 Identities = 26/147 (17%), Positives = 52/147 (35%), Gaps = 16/147 (10%)

Query: 103 EEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTR--HRILGICSG 160
           + +D A     K   V ++G   VGK+ L  +         T            +    G
Sbjct: 1   DFYDVA----FK---VMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDG 53

Query: 161 PEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGV 220
            + ++ ++DT G          S+     R A  +A  ++  V    + + I   L E  
Sbjct: 54  VKVKLQMWDTAG-----QERFRSVTHAYYRDA--HALLLLYDVTNKASFDNIQAWLTEIH 106

Query: 221 GDHKDKLPILLVLNKKDLIKPGEIAKK 247
              +  + ++L+ NK D      + ++
Sbjct: 107 EYAQHDVALMLLGNKVDSAHERVVKRE 133

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.5 bits (83), Expect = 0.001
 Identities = 26/120 (21%), Positives = 41/120 (34%), Gaps = 6/120 (5%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
           + V+G   VGKS L  Q+I        +      +R   +  G    + + DT G  E  
Sbjct: 6   LVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYS 65

Query: 178 IHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKD 237
                 M            +      D  +  E+I  +         D +P++LV NK D
Sbjct: 66  AMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRV------KDSDDVPMVLVGNKCD 119

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]} Length = 172

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.3 bits (82), Expect = 0.001
 Identities = 21/120 (17%), Positives = 41/120 (34%), Gaps = 3/120 (2%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
           V ++G+  VGKSTLAN   G   S+ ++                           +   +
Sbjct: 6   VVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDT---YERTLMVDGESATIILLDMWE 62

Query: 178 IHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKD 237
               +  +  +    G     +  + D     +  +  ++       + +PI+LV NK D
Sbjct: 63  NKGENEWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSD 122

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 184

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 36.2 bits (82), Expect = 0.002
 Identities = 20/121 (16%), Positives = 39/121 (32%), Gaps = 2/121 (1%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
           V +LG   VGK++L NQ + +K         T     L      + +++         ++
Sbjct: 5   VIILGDSGVGKTSLMNQYVNKK--FSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQE 62

Query: 178 IHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKD 237
                 +         +    +             DE L +      +  P +++ NK D
Sbjct: 63  RFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKID 122

Query: 238 L 238
           L
Sbjct: 123 L 123

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]} Length = 185

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.1 bits (82), Expect = 0.002
 Identities = 21/147 (14%), Positives = 41/147 (27%), Gaps = 7/147 (4%)

Query: 108 ASHPNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMIL 167
           A  P        V+G   VGK+ L               P    H  + +  G +  ++ 
Sbjct: 2   AHGPGALMLKCVVVGDGAVGKTCLLMSYANDAFP-EEYVPTVFDHYAVSVTVGGKQYLLG 60

Query: 168 YDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKL 227
                  E    +              +   I   V    + + + E     + ++   +
Sbjct: 61  LYDTAGQEDYDRLRPLSYPMT------DVFLICFSVVNPASFQNVKEEWVPELKEYAPNV 114

Query: 228 PILLVLNKKDLIKPGEIAKKLEVTTCF 254
           P LL+  + DL    +   +L      
Sbjct: 115 PFLLIGTQIDLRDDPKTLARLNDMKEK 141

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 35.8 bits (81), Expect = 0.002
 Identities = 20/123 (16%), Positives = 41/123 (33%), Gaps = 5/123 (4%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLS--IVTNKPQTTRHRILGICSGPEYQMILYDTPGIIE 175
           V +LG   VGK++L ++ +  K S             + + +       M ++DT G   
Sbjct: 5   VIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQER 64

Query: 176 KKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNK 235
            +   +      +     +    +             DE L     +  +  P +++ NK
Sbjct: 65  FQSLGVAFYRGADCC---VLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNK 121

Query: 236 KDL 238
            D 
Sbjct: 122 IDA 124

>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 = 36.1 bits (83), Expect = 0.002
 Identities = 31/153 (20%), Positives = 52/153 (33%), Gaps = 36/153 (23%)

Query: 118 VAVLGKPNVGKSTLANQMIGQ----------KLSIVTNKPQTTRHRILGI------CSGP 161
           V  +G  + GK+TL   +             K     +K    R R + I          
Sbjct: 6   VGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETA 65

Query: 162 EYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAP-----ERIDEIL 216
           +      D PG      H      +KN+ +     D  +++V A   P     E I    
Sbjct: 66  KRHYSHVDCPG------HA---DYIKNMITGAAQMDGAILVVSAADGPMPQTREHILLAR 116

Query: 217 EEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLE 249
           + GV        I++ +NK D++   E+   +E
Sbjct: 117 QVGVP------YIVVFMNKVDMVDDPELLDLVE 143

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.7 bits (81), Expect = 0.002
 Identities = 21/118 (17%), Positives = 34/118 (28%), Gaps = 5/118 (4%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
           VAV G   VGKS+L  + +             T           +  +            
Sbjct: 5   VAVFGAGGVGKSSLVLRFVKGTFR---ESYIPTVEDTYRQVISCDKSICTLQITDTTGSH 61

Query: 178 IHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNK 235
                  +  +   A I    I       +     ++I E       + +PI+LV NK
Sbjct: 62  QFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEI--KGDVESIPIMLVGNK 117

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]} Length = 174

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.7 bits (81), Expect = 0.002
 Identities = 18/123 (14%), Positives = 35/123 (28%), Gaps = 2/123 (1%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
           V +LG   VGKS+L N+ +  K    T    T     L      +   +         ++
Sbjct: 9   VILLGDGGVGKSSLMNRYVTNKFD--TQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQE 66

Query: 178 IHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKD 237
                           +    +              E +        +  P +++ NK D
Sbjct: 67  RFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKID 126

Query: 238 LIK 240
           + +
Sbjct: 127 ISE 129

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

 Score = 35.1 bits (79), Expect = 0.003
 Identities = 5/35 (14%), Positives = 13/35 (37%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRH 152
           + +LG    GK+T+  ++   ++            
Sbjct: 8   ILILGLDGAGKTTILYRLQVGEVVTTIPTIGFNVE 42

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]} Length = 160

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

 Score = 34.6 bits (78), Expect = 0.004
 Identities = 9/94 (9%), Positives = 30/94 (31%), Gaps = 4/94 (4%)

Query: 118 VAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK 177
           + ++G    GK+T+  ++   ++         T    +           ++D  G  + +
Sbjct: 3   ILMVGLDAAGKTTILYKLKLGEIVTTI----PTIGFNVETVEYKNISFTVWDVGGQDKIR 58

Query: 178 IHMLDSMMMKNVRSAGINADCIVVLVDACKAPER 211
                           ++++    + +A +   R
Sbjct: 59  PLWRHYFQNTQGLIFVVDSNDRERVNEAREELMR 92

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	254
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	99.86
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	99.79
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	99.78
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	99.76
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.74
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	99.74
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	99.74
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	99.74
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	99.73
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.73
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	99.73
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	99.73
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	99.73
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	99.72
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	99.72
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	99.72
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	99.72
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.71
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	99.71
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	99.71
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	99.71
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	99.71
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	99.71
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	99.71
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.7
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	99.7
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	99.7
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	99.7
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	99.7
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	99.69
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	99.69
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	99.69
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	99.69
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	99.69
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	99.69
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.68
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	99.68
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	99.68
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.68
d1nrjb_	209	Signal recognition particle receptor beta-subunit	99.68
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	99.67
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	99.67
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	99.67
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	99.67
d2fh5b1	207	Signal recognition particle receptor beta-subunit	99.66
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	99.66
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	99.66
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	99.64
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	99.64
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	99.64
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	99.63
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.63
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	99.63
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	99.62
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	99.62
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	99.62
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	99.62
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	99.61
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	99.61
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	99.6
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	99.59
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.59
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.55
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.51
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	99.51
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	99.49
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	99.46
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	99.45
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.44
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	99.42
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	99.4
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	99.39
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.39
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	99.38
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.38
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	99.37
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	99.35
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.33
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	99.32
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	99.27
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	99.27
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	99.24
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	99.21
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	99.18
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	99.15
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	99.11
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	99.03
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	99.02
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	98.88
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	98.83
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	98.66
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	98.35
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.35
d1j8yf2	211	GTPase domain of the signal sequence recognition p	98.13
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	98.11
d1okkd2	207	GTPase domain of the signal recognition particle r	98.1
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	98.09
d1vmaa2	213	GTPase domain of the signal recognition particle r	98.07
d2qy9a2	211	GTPase domain of the signal recognition particle r	98.03
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	97.96
d1ls1a2	207	GTPase domain of the signal sequence recognition p	97.89
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	97.44
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.23
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	97.21
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	96.86
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	96.85
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	96.81
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	96.79
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	96.72
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	96.7
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	96.67
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	96.63
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	96.59
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	96.58
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	96.55
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.51
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	96.46
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	96.41
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	96.36
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	96.35
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	96.28
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	96.19
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	96.18
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	96.17
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	96.16
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	96.16
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	96.13
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	96.12
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.12
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	96.09
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	96.08
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	96.06
d2awna2	232	Maltose transport protein MalK, N-terminal domain	96.06
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	96.05
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	96.05
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	96.04
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	96.02
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	95.98
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	95.96
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	95.9
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	95.87
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	95.84
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	95.84
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	95.82
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	95.71
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	95.71
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	95.69
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	95.69
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	95.65
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	95.62
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	95.62
d1g2912	240	Maltose transport protein MalK, N-terminal domain	95.61
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	95.59
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	95.56
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	95.56
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	95.55
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	95.55
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	95.55
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	95.52
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	95.49
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	95.48
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	95.46
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	95.37
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	95.31
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	95.31
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	95.23
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	95.2
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	95.2
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	95.19
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	95.15
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	95.09
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	95.05
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	94.96
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	94.92
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	94.84
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	94.82
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	94.82
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	94.78
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	94.6
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	94.46
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	94.37
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	94.31
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	94.23
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	94.19
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	94.15
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	93.97
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	93.69
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	93.64
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	93.58
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	93.49
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	93.39
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	93.35
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	93.32
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	93.2
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	93.19
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	93.07
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	92.97
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	92.75
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	92.53
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	92.47
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	92.39
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	92.26
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	92.22
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	92.19
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	92.17
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	91.9
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	91.89
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	91.79
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	91.75
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	91.66
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	91.54
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	91.35
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	91.34
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	91.3
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	90.38
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	90.27
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	90.18
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	90.14
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	89.98
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	89.64
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	89.32
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	89.3
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	89.27
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	89.21
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	89.15
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	89.09
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	89.06
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	88.89
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	88.76
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	88.65
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	88.63
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	88.02
d1tuea_	205	Replication protein E1 helicase domain {Human papi	87.92
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	87.65
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	87.3
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	86.89
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	86.86
d1xpua3	289	Transcription termination factor Rho, ATPase domai	86.41
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	86.1
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	85.37
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	85.28
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	84.89
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	84.0
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	82.26
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	82.25
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	81.52
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	80.79
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	80.62

>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=99.86  E-value=3.9e-21  Score=150.97  Aligned_cols=128  Identities=40%  Similarity=0.591  Sum_probs=105.6

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      ...|+++|.+|+|||||+|++++.+...++..+++|...........+..+.++||||+.... ......+...+...+.
T Consensus         5 ~~~I~lvG~~~~GKSSLin~l~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~~~DtpG~~~~~-~~~~~~~~~~~~~~~~   83 (178)
T d1wf3a1           5 SGFVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTEGRRQIVFVDTPGLHKPM-DALGEFMDQEVYEALA   83 (178)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETTEEEEEEECCCCCCCC-SHHHHHHHHHHHHHTS
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCceeecccCCcccccccceeeeeeeeeeecccccccccc-cccchhcccccccccc
Confidence            347999999999999999999999877788889999888888788888999999999975543 3333444566667789


Q ss_pred             CccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          195 NADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       195 ~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      .+|++++|+|++++......++...++....+.|+++|+||+|+....+
T Consensus        84 ~ad~il~v~D~~~~~~~~~~~i~~~l~~~~~~~piilv~NK~Dl~~~~~  132 (178)
T d1wf3a1          84 DVNAVVWVVDLRHPPTPEDELVARALKPLVGKVPILLVGNKLDAAKYPE  132 (178)
T ss_dssp             SCSEEEEEEETTSCCCHHHHHHHHHHGGGTTTSCEEEEEECGGGCSSHH
T ss_pred             cccceeeeechhhhhcccccchhhheeccccchhhhhhhcccccccCHH
Confidence            9999999999999887777777777766667899999999999987543

>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=99.79  E-value=3e-19  Score=139.00  Aligned_cols=126  Identities=27%  Similarity=0.349  Sum_probs=91.3

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINA  196 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~  196 (254)
                      +|+++|.+|+|||||+|++++.+...++..+++|..............+.++||||+...................+..+
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~~a   81 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEWYGKTFKLVDTCGVFDNPQDIISQKMKEVTLNMIREA   81 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC--------------CCSEEEEEETTEEEEEEECTTTTSSGGGCCCHHHHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcceecccCceeeccccccccccccccccccccceeeeeccccccccccccccccccC
Confidence            58999999999999999999988877888999998888888888899999999999877765555666666677778999


Q ss_pred             cEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhH
Q 025346          197 DCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEI  244 (254)
Q Consensus       197 d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~  244 (254)
                      |++++++|.+.+.......+...++  ..++|+++|+||+|+.++.+.
T Consensus        82 d~i~~~~~~~~~~~~~~~~~~~~l~--~~~~pviiv~NK~Dl~~~~~~  127 (171)
T d1mkya1          82 DLVLFVVDGKRGITKEDESLADFLR--KSTVDTILVANKAENLREFER  127 (171)
T ss_dssp             SEEEEEEETTTCCCHHHHHHHHHHH--HHTCCEEEEEESCCSHHHHHH
T ss_pred             cEEEEeecccccccccccccccccc--cccccccccchhhhhhhhhhh
Confidence            9999999998877666555554444  246899999999999765443

>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=99.78  E-value=7.4e-19  Score=135.12  Aligned_cols=126  Identities=28%  Similarity=0.342  Sum_probs=97.1

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      +.+|+++|.+|+|||||+|++++.+...+...++++.......+...+..+.++||||+.+... ............++.
T Consensus         1 ~~kI~lvG~~nvGKSsLin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~-~~~~~~~~~~~~~~~   79 (161)
T d2gj8a1           1 GMKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDGMPLHIIDTAGLREASD-EVERIGIERAWQEIE   79 (161)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETTEEEEEEECCCCSCCSS-HHHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCceEeecccccccceEeeeeeccCceeeeccccccccccc-cchhHHHHHHHHHHH
Confidence            3589999999999999999999998877788888888888888888899999999999876543 333333455556688


Q ss_pred             CccEEEEEEeCCCCch-hHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          195 NADCIVVLVDACKAPE-RIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       195 ~~d~iv~vid~~~~~~-~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      .+|++++++|...... .....+...+.....+.|+++|+||+|+.+.
T Consensus        80 ~~d~~i~~~d~~~~~~~~~~~~~~~~~~~~~~~~~iilv~NK~Dl~~~  127 (161)
T d2gj8a1          80 QADRVLFMVDGTTTDAVDPAEIWPEFIARLPAKLPITVVRNKADITGE  127 (161)
T ss_dssp             TCSEEEEEEETTTCCCCSHHHHCHHHHHHSCTTCCEEEEEECHHHHCC
T ss_pred             hccccceeeccccccchhhhhhhhhhhhhcccccceeeccchhhhhhh
Confidence            9999999999987432 2223333444444567999999999998653

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.76  E-value=2.5e-18  Score=134.55  Aligned_cols=119  Identities=22%  Similarity=0.235  Sum_probs=86.2

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEE--EEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRIL--GICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~--~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .||+++|.+|+|||||++++...++.  ..+.+|......  ...+.....+.+|||+|.  ..+..+       +..++
T Consensus         3 ~KivvvG~~~vGKTsLi~~~~~~~f~--~~~~~t~~~~~~~~~~~~~~~~~l~i~D~~g~--~~~~~~-------~~~~~   71 (177)
T d1kmqa_           3 KKLVIVGDGACGKTCLLIVNSKDQFP--EVYVPTVFENYVADIEVDGKQVELALWDTAGL--EDYDRL-------RPLSY   71 (177)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSCCC--SSCCCCSEEEEEEEEEETTEEEEEEEEEECCS--GGGTTT-------GGGGC
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCC--CCcCCceeeeccccccccccceeeeccccCcc--chhccc-------chhhc
Confidence            48999999999999999999998874  233333332222  233455668999999994  333333       23458


Q ss_pred             cCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHH
Q 025346          194 INADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIA  245 (254)
Q Consensus       194 ~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~  245 (254)
                      ..+|++++|+|+++.  ++....++........++.|+++|+||+|+.+.+...
T Consensus        72 ~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~  125 (177)
T d1kmqa_          72 PDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTR  125 (177)
T ss_dssp             TTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTSCEEEEEECGGGTTCHHHH
T ss_pred             ccchhhhhhcccchhHHHHHHHHHHHHHHHHhCCCCceEEeeecccccchhhHH
Confidence            899999999999883  4556666666666666789999999999998765443

>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=99.74  E-value=1.4e-17  Score=129.73  Aligned_cols=124  Identities=22%  Similarity=0.328  Sum_probs=89.9

Q ss_pred             CCCCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHH
Q 025346          110 HPNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNV  189 (254)
Q Consensus       110 ~~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~  189 (254)
                      .+..+..+|+++|.+|+|||||++++.+.++..+.+..+.+    ...+...+..+.+||++|...  +.       ..+
T Consensus        11 ~~~~~~~kI~vvG~~~vGKSsLi~~l~~~~~~~~~~~~~~~----~~~i~~~~~~~~i~d~~g~~~--~~-------~~~   77 (176)
T d1fzqa_          11 SAPDQEVRILLLGLDNAGKTTLLKQLASEDISHITPTQGFN----IKSVQSQGFKLNVWDIGGQRK--IR-------PYW   77 (176)
T ss_dssp             SCCSSCEEEEEEESTTSSHHHHHHHHCCSCCEEEEEETTEE----EEEEEETTEEEEEEECSSCGG--GH-------HHH
T ss_pred             CCCCCEEEEEEECCCCCCHHHHHHHHhcCCCCcceeeeeee----EEEeccCCeeEeEeecccccc--ch-------hHH
Confidence            34556689999999999999999999998876444433333    234556788999999999432  21       334


Q ss_pred             HHHccCccEEEEEEeCCCC--chhHHHHHHHhhccc-CCCCCEEEEEecCCCCChHhHHH
Q 025346          190 RSAGINADCIVVLVDACKA--PERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPGEIAK  246 (254)
Q Consensus       190 ~~~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~~~~~  246 (254)
                      ..++..+|++++|+|+++.  +.....++....... ..++|+++|+||+|+.++.+...
T Consensus        78 ~~~~~~~~~ii~v~d~~d~~s~~~~~~~~~~~~~~~~~~~~pillv~nK~Dl~~~~~~~~  137 (176)
T d1fzqa_          78 RSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAAPASE  137 (176)
T ss_dssp             HHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTCCCHHH
T ss_pred             HHHhhccceeEEeeccccccchhhhhhhhhhhhhhhccCCCeEEEEEEeccccccccHHH
Confidence            5668999999999999873  445555555554433 35789999999999987655443

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.74  E-value=3.9e-18  Score=132.40  Aligned_cols=116  Identities=27%  Similarity=0.313  Sum_probs=75.9

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEE--EEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRIL--GICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~--~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .||+++|.+|+|||||++++.+..+..   ..+++.....  ...++....+.+|||||.  ..+..+       +..++
T Consensus         2 fKi~lvG~~~vGKTsLi~~~~~~~~~~---~~~~~~~~~~~~i~~~~~~~~l~i~D~~g~--e~~~~~-------~~~~~   69 (168)
T d2gjsa1           2 YKVLLLGAPGVGKSALARIFGGVEDGP---EAEAAGHTYDRSIVVDGEEASLMVYDIWEQ--DGGRWL-------PGHCM   69 (168)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTC------------CEEEEEEEEETTEEEEEEEEECC---------C-------HHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHhCCccCC---cCCeeeeeecceeeccccccceeeeecccc--ccccee-------cccch
Confidence            479999999999999999999876542   2223322222  233455678999999994  322222       34568


Q ss_pred             cCccEEEEEEeCCC--CchhHHHHHHHhhccc-CCCCCEEEEEecCCCCChHh
Q 025346          194 INADCIVVLVDACK--APERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       194 ~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~~  243 (254)
                      ..+|++++|+|+++  ++..+..|+.++.... ..++|+++|+||+|+.+.++
T Consensus        70 ~~~d~~ilv~d~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~  122 (168)
T d2gjsa1          70 AMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSRE  122 (168)
T ss_dssp             TSCSEEEEEEETTCHHHHHHHHHHHHHHHHHCC--CCCEEEEEECTTCGGGCC
T ss_pred             hhhhhhceeccccccccccccccccchhhcccccccceEEEeecccchhhhcc
Confidence            99999999999988  4566667777665433 35689999999999976544

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.74  E-value=2.7e-18  Score=135.45  Aligned_cols=122  Identities=19%  Similarity=0.207  Sum_probs=87.4

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEE--ecCCeeEEEEecCCCcccchhhhhHHHHHH
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGIC--SGPEYQMILYDTPGIIEKKIHMLDSMMMKN  188 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~--~~~~~~~~liDtpG~~~~~~~~~~~~~~~~  188 (254)
                      +.....||+++|.+|+|||||+++++..++.  ..+.+|.........  .+....+.+|||+|..  .+..+.      
T Consensus         5 ~~~~~~Ki~lvG~~~vGKTsLi~r~~~~~f~--~~~~~Ti~~~~~~~~~~~~~~~~l~i~D~~g~e--~~~~~~------   74 (185)
T d2atxa1           5 PGALMLKCVVVGDGAVGKTCLLMSYANDAFP--EEYVPTVFDHYAVSVTVGGKQYLLGLYDTAGQE--DYDRLR------   74 (185)
T ss_dssp             CEEEEEEEEEEECTTSSHHHHHHHHHHSSCC--CSCCCSSCCCEEEEEESSSCEEEEEEECCCCSS--SSTTTG------
T ss_pred             CCCcEEEEEEECCCCCCHHHHHHHHhhCCCC--CcCCCceeeeeeEEEeeCCceEEeecccccccc--hhhhhh------
Confidence            4455579999999999999999999988764  344444333333322  3445678999999943  333332      


Q ss_pred             HHHHccCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          189 VRSAGINADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       189 ~~~~~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                       ..++..+|++++|+|+++  +++....++....+....+.|+++|+||+|+.+...
T Consensus        75 -~~~~~~a~~~ilv~d~t~~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~~~  130 (185)
T d2atxa1          75 -PLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGTQIDLRDDPK  130 (185)
T ss_dssp             -GGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECTTSTTCHH
T ss_pred             -hhcccccceeeeccccchHHHHHHHHHHHHHHHHhcCCCCCeeEeeeccccccchh
Confidence             245889999999999988  344555666666666677899999999999986543

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=99.74  E-value=9.3e-19  Score=134.41  Aligned_cols=130  Identities=25%  Similarity=0.341  Sum_probs=99.0

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINA  196 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~  196 (254)
                      +|+++|.+|+|||||+|++++.+...++..+++|...........+..+.++||||+........+......+...+..+
T Consensus         2 kI~liG~~n~GKSSLin~l~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~~~~~~a   81 (160)
T d1xzpa2           2 RMVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRGILFRIVDTAGVRSETNDLVERLGIERTLQEIEKA   81 (160)
T ss_dssp             EEEEECCHHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEETTEEEEEEESSCCCSSCCTTCCCCCHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCceeeeccccccccceeEEEEeCCeeEEeccccccccCCccHHHHHHHHHHHHHHHhC
Confidence            79999999999999999999988777888888888777777888899999999999865543333322224445557889


Q ss_pred             cEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHHHHHH
Q 025346          197 DCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLEV  250 (254)
Q Consensus       197 d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~~~~~  250 (254)
                      |++++|+|++++.......+....    ...++++++||+|+.+.....+....
T Consensus        82 d~ii~v~d~~~~~~~~~~~~~~~~----~~~~~i~~~~k~d~~~~~~~~~~~~~  131 (160)
T d1xzpa2          82 DIVLFVLDASSPLDEEDRKILERI----KNKRYLVVINKVDVVEKINEEEIKNK  131 (160)
T ss_dssp             SEEEEEEETTSCCCHHHHHHHHHH----TTSSEEEEEEECSSCCCCCHHHHHHH
T ss_pred             CEEEEEEeCCCCcchhhhhhhhhc----ccccceeeeeeccccchhhhHHHHHH
Confidence            999999999986655444433322    35789999999999887665554433

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.73  E-value=5.2e-18  Score=132.32  Aligned_cols=121  Identities=21%  Similarity=0.310  Sum_probs=86.4

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEE--ecCCeeEEEEecCCCcccchhhhhHHHHHH
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGIC--SGPEYQMILYDTPGIIEKKIHMLDSMMMKN  188 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~--~~~~~~~~liDtpG~~~~~~~~~~~~~~~~  188 (254)
                      +..+..||+++|.+|+|||||++++...++.  ..+.++..+.....+  ++....+.+|||+|...  +....      
T Consensus         2 ~~~~~~Kv~lvG~~~vGKTsLi~r~~~~~f~--~~~~~t~~~~~~~~~~~~~~~~~l~~~d~~g~~~--~~~~~------   71 (173)
T d2fn4a1           2 PPSETHKLVVVGGGGVGKSALTIQFIQSYFV--SDYDPTIEDSYTKICSVDGIPARLDILDTAGQEE--FGAMR------   71 (173)
T ss_dssp             CSSCEEEEEEEECTTSSHHHHHHHHHHSSCC--SSCCTTCCEEEEEEEEETTEEEEEEEEECCCTTT--TSCCH------
T ss_pred             CCCCeEEEEEECCCCcCHHHHHHHHHhCCCC--cccccccccceeeEeccCCeeeeeeccccccccc--ccccc------
Confidence            3445679999999999999999999988764  344444444333333  34456788999999533  33332      


Q ss_pred             HHHHccCccEEEEEEeCCC--CchhHHHHHHHhhccc-CCCCCEEEEEecCCCCChH
Q 025346          189 VRSAGINADCIVVLVDACK--APERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       189 ~~~~~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~  242 (254)
                       ..++..++++++|+|.++  ++..+..|+..+.+.. ..+.|+++|+||+|+...+
T Consensus        72 -~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~  127 (173)
T d2fn4a1          72 -EQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQR  127 (173)
T ss_dssp             -HHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGGC
T ss_pred             -chhhccceeeeeecccccccccchhhhhhHHHHHHhccCCCceEEEEEeechhhcc
Confidence             234678999999999988  4566667776665432 4678999999999987543

>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=99.73  E-value=2e-17  Score=127.67  Aligned_cols=121  Identities=17%  Similarity=0.184  Sum_probs=85.5

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      ..+|+++|.+|+|||||++++.+..+..    ..+|.......+...+..+.+|||||.  ..       +...+..++.
T Consensus         2 ~~ki~ivG~~~~GKTsLi~~l~~~~~~~----~~~t~~~~~~~~~~~~~~~~~~D~~G~--~~-------~~~~~~~~~~   68 (165)
T d1ksha_           2 ELRLLMLGLDNAGKTTILKKFNGEDVDT----ISPTLGFNIKTLEHRGFKLNIWDVGGQ--KS-------LRSYWRNYFE   68 (165)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHTTCCCSS----CCCCSSEEEEEEEETTEEEEEEEECCS--HH-------HHTTGGGGCT
T ss_pred             cEEEEEECCCCCCHHHHHHHHcCCCCCc----ccceEeeeeeeccccccceeeeecCcc--hh-------hhhHHHhhhh
Confidence            4589999999999999999999876532    222333344456778899999999993  22       1123345688


Q ss_pred             CccEEEEEEeCCCC--chhHHHHHHHhhc-ccCCCCCEEEEEecCCCCChHhHHHHH
Q 025346          195 NADCIVVLVDACKA--PERIDEILEEGVG-DHKDKLPILLVLNKKDLIKPGEIAKKL  248 (254)
Q Consensus       195 ~~d~iv~vid~~~~--~~~~~~~~~~~~~-~~~~~~piivV~nK~Dl~~~~~~~~~~  248 (254)
                      .++++++|+|+++.  ......++...+. ....+.|+++|+||+|+.+...+.+..
T Consensus        69 ~~~~~i~v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~  125 (165)
T d1ksha_          69 STDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGALSCNAIQ  125 (165)
T ss_dssp             TCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHH
T ss_pred             hhhcceeeeecccchhHHHHHHhhhhhhhhcccCCCceEEEEeccccccccCHHHHH
Confidence            99999999999873  3444445544443 234679999999999997665554443

>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=99.73  E-value=8.3e-18  Score=130.58  Aligned_cols=119  Identities=13%  Similarity=0.100  Sum_probs=83.7

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCC-CCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNK-PQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~-~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      .||+++|.+|+|||||++++.+.++...... .+.+..............+.+|||||.  ..+..       .+..++.
T Consensus         6 ~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~wDt~G~--e~~~~-------~~~~~~~   76 (169)
T d3raba_           6 FKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGQ--ERYRT-------ITTAYYR   76 (169)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCS--GGGHH-------HHHTTTT
T ss_pred             EEEEEECCCCcCHHHHHHHHHcCCCCcccccccccceeeEEEEeecceEEEEEEECCCc--hhhHH-------HHHHHHh
Confidence            5899999999999999999998876532222 222233333333444568999999993  33222       2344689


Q ss_pred             CccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          195 NADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       195 ~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      .+|++|+|+|+++  +......++.........+.|+++|+||+|+.....
T Consensus        77 ~ad~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~  127 (169)
T d3raba_          77 GAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDERV  127 (169)
T ss_dssp             TCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCSCCEEEEEEECTTCGGGCC
T ss_pred             cCCEEEEEEECccchhhhhhhhhhhhhhcccCCcceEEEEEeecccccccc
Confidence            9999999999988  445556666665555567789999999999876543

>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=99.73  E-value=1e-17  Score=130.27  Aligned_cols=117  Identities=19%  Similarity=0.219  Sum_probs=85.9

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEE--ecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGIC--SGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~--~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .|++++|.+|+|||||++++....+. ....+.++.......+  ......+.+|||||.  ..+..       .+..++
T Consensus         6 ~Ki~lvG~~~vGKTsLi~~l~~~~f~-~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~--e~~~~-------~~~~~~   75 (171)
T d2ew1a1           6 FKIVLIGNAGVGKTCLVRRFTQGLFP-PGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQ--ERFRS-------ITQSYY   75 (171)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSSCC-TTCCCCCSEEEEEEEEEETTEEEEEEEEEECCS--GGGHH-------HHGGGS
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCC-CcccccccceEEEEEEEECCEEEEEEEEECCCc--hhhHH-------HHHHHH
Confidence            58999999999999999999988775 3334444444343333  344567899999993  33222       234568


Q ss_pred             cCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          194 INADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       194 ~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      +.++++++|+|.++  ++.....++..+.+......|+++|+||+|+....
T Consensus        76 ~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~ilvgnK~D~~~~~  126 (171)
T d2ew1a1          76 RSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERR  126 (171)
T ss_dssp             TTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGC
T ss_pred             hccceEEEeeecccchhhhhhhhhhhhhcccccccccEEEEEeeccccccc
Confidence            99999999999987  45566677777666666779999999999987654

>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=99.73  E-value=1.4e-17  Score=130.40  Aligned_cols=133  Identities=23%  Similarity=0.265  Sum_probs=89.1

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINA  196 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~  196 (254)
                      .|+++|.+|+|||||+|++++.+.........++...........+..+.+|||||+....... .. ....+...+..+
T Consensus         3 ~VaivG~~nvGKSTLin~L~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~DtpG~~~~~~~~-~~-~~~~~l~~~~~~   80 (180)
T d1udxa2           3 DVGLVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPNLGVVEVSEEERFTLADIPGIIEGASEG-KG-LGLEFLRHIART   80 (180)
T ss_dssp             SEEEECCGGGCHHHHHHHHCSSCCEECCCTTCSSCCEEEEEECSSSCEEEEEECCCCCCCGGGS-CC-SCHHHHHHHTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCceeccCCCceeeeeceeeecCCCeEEEcCCCeeecCchHH-HH-HHHHHHHHHHhh
Confidence            4899999999999999999988766444344444444444555567789999999986543221 11 113445667899


Q ss_pred             cEEEEEEeCCCCchh-HHHHHHHh--hcccCCCCCEEEEEecCCCCChHhHHHHHHHH
Q 025346          197 DCIVVLVDACKAPER-IDEILEEG--VGDHKDKLPILLVLNKKDLIKPGEIAKKLEVT  251 (254)
Q Consensus       197 d~iv~vid~~~~~~~-~~~~~~~~--~~~~~~~~piivV~nK~Dl~~~~~~~~~~~~~  251 (254)
                      +++++++|....... ...+...+  ......++|+++|+||+|+..+++.....+.+
T Consensus        81 ~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~D~~~~~~~~~~~~~~  138 (180)
T d1udxa2          81 RVLLYVLDAADEPLKTLETLRKEVGAYDPALLRRPSLVALNKVDLLEEEAVKALADAL  138 (180)
T ss_dssp             SEEEEEEETTSCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             hhhhhhcccccccccchhhhhhhhhccccccchhhhhhhhhhhhhhhHHHHHHHHHHH
Confidence            999999999764322 22221111  11122457999999999999988777655544

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.72  E-value=1.9e-17  Score=127.63  Aligned_cols=118  Identities=19%  Similarity=0.229  Sum_probs=86.1

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEE--EEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRI--LGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~--~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .||+++|.+|+|||||++++.+.++... ..++.+....  ....+.....+.+|||+|...  +...       ...++
T Consensus         1 fKv~vvG~~~vGKTsLi~r~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~--~~~~-------~~~~~   70 (164)
T d1yzqa1           1 FKLVFLGEQSVGKTSLITRFMYDSFDNT-YQATIGIDFLSKTMYLEDRTIRLQLWDTAGQER--FRSL-------IPSYI   70 (164)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHSCCCSS-CCCCCSEEEEEEEEECSSCEEEEEEEEECCSGG--GGGG-------HHHHH
T ss_pred             CEEEEECCCCcCHHHHHHHHHhCCCCCc-cccceeeeccceeeccCCCceeeeecccCCcch--hccc-------hHHHh
Confidence            3799999999999999999998887532 2222222222  333344567899999999433  3332       23457


Q ss_pred             cCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          194 INADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       194 ~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      ..++++++|+|.++  ++..+..++.........+.|+++|+||+|+.+...
T Consensus        71 ~~~~~~ilv~d~~~~~s~~~i~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~  122 (164)
T d1yzqa1          71 RDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQ  122 (164)
T ss_dssp             TTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCGGGCC
T ss_pred             hccceEEEeeccccccchhhhHhhHHHHHHhcCCCceEEEEecccchhhhhh
Confidence            89999999999988  456777888777766667899999999999975433

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.72  E-value=1.8e-17  Score=128.71  Aligned_cols=120  Identities=19%  Similarity=0.235  Sum_probs=86.9

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEE--EEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRIL--GICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~--~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      +..+++++|.+|+|||||++++.+.++..  .+.++......  ...+.....+.+||++|..  ....+.       ..
T Consensus         3 pt~Ki~lvG~~~vGKTsll~~~~~~~~~~--~~~~t~~~~~~~~~~~~~~~~~~~i~d~~g~~--~~~~~~-------~~   71 (169)
T d1x1ra1           3 PTYKLVVVGDGGVGKSALTIQFFQKIFVP--DYDPTIEDSYLKHTEIDNQWAILDVLDTAGQE--EFSAMR-------EQ   71 (169)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSSCCT--TCCTTCCEEEEEEEEETTEEEEEEEEECCSCG--GGCSSH-------HH
T ss_pred             CcEEEEEECCCCcCHHHHHHHHHhCCCCc--ccCcceeecccccccccccccccccccccccc--ccccch-------hh
Confidence            35789999999999999999999887642  23333322222  2334556789999999943  333332       23


Q ss_pred             HccCccEEEEEEeCCC--CchhHHHHHHHhhccc-CCCCCEEEEEecCCCCChHhH
Q 025346          192 AGINADCIVVLVDACK--APERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPGEI  244 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~~~  244 (254)
                      +++.+|++++|+|+++  ++..+..|+..+.+.. ..+.|+++|+||+|+...+++
T Consensus        72 ~~~~~~~~llv~d~~d~~Sf~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~~v  127 (169)
T d1x1ra1          72 YMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKV  127 (169)
T ss_dssp             HHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCSTTCCS
T ss_pred             hhhhccEEEEecccccchhhhccchhhHHHHhhccccCccEEEEecccchhhhcee
Confidence            4678999999999998  5677778887766553 357999999999999876543

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.72  E-value=1.7e-17  Score=128.40  Aligned_cols=118  Identities=20%  Similarity=0.174  Sum_probs=84.1

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEE--EEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRIL--GICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~--~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      +..||+++|.+|+|||||+++++++++.  ..+.++..+...  ...+.....+.+||++|....  ..       ....
T Consensus         2 k~~Ki~lvG~~~vGKTsLi~r~~~~~f~--~~~~~t~~~~~~~~~~~~~~~~~l~~~d~~g~~~~--~~-------~~~~   70 (167)
T d1kaoa_           2 REYKVVVLGSGGVGKSALTVQFVTGTFI--EKYDPTIEDFYRKEIEVDSSPSVLEILDTAGTEQF--AS-------MRDL   70 (167)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSCCC--SCCCTTCCEEEEEEEEETTEEEEEEEEECCCTTCC--HH-------HHHH
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCC--CccCCceeeeeeeeeecCcceEeeccccCCCcccc--cc-------chHH
Confidence            3468999999999999999999988764  333333333222  334445578999999994332  22       2334


Q ss_pred             HccCccEEEEEEeCCC--CchhHHHHHHHhhccc-CCCCCEEEEEecCCCCChH
Q 025346          192 AGINADCIVVLVDACK--APERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~  242 (254)
                      ++..++++++|+|+++  ++.....|+..+.... ..++|+++|+||+|+...+
T Consensus        71 ~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~  124 (167)
T d1kaoa_          71 YIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESER  124 (167)
T ss_dssp             HHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGGC
T ss_pred             HhhcccceeeeeeecchhhhhhhhchhhhhhhhccCCCCCEEEEEEccchhhcc
Confidence            5788999999999998  4566777776655432 3678999999999986543

>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=99.72  E-value=1.9e-17  Score=129.26  Aligned_cols=116  Identities=22%  Similarity=0.274  Sum_probs=83.9

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEE--EEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILG--ICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~--~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .||+++|.+|+|||||++++.+.++..... ++++......  ..+.....+.+|||||  ...+.....       ..+
T Consensus         5 ~Ki~vvG~~~vGKTsLi~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~i~d~~g--~e~~~~~~~-------~~~   74 (175)
T d2f9la1           5 FKVVLIGDSGVGKSNLLSRFTRNEFNLESK-STIGVEFATRSIQVDGKTIKAQIWDTAG--QERYRRITS-------AYY   74 (175)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSCCCC----CCCSCEEEEEEEEETTEEEEEEEEECSS--GGGTTCCCH-------HHH
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCCccc-ccccceeeeEEEEECCEEEEEEecccCC--cHHHHHHHH-------HHh
Confidence            489999999999999999999887653322 2222222222  3344456899999999  433333332       347


Q ss_pred             cCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          194 INADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       194 ~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      ..++++++|+|.++  ++.....++..+.+....++|+++|+||+|+.+.
T Consensus        75 ~~~~~~i~v~d~~~~~S~~~~~~~~~~i~~~~~~~~piilvgnK~Dl~~~  124 (175)
T d2f9la1          75 RGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHL  124 (175)
T ss_dssp             TTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGG
T ss_pred             hccCeEEEEEECCCcccchhHHHHHHHHHHhcCCCCcEEEEEeeeccccc
Confidence            89999999999988  4566777777777666678999999999999755

>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=99.71  E-value=6.5e-17  Score=124.75  Aligned_cols=117  Identities=19%  Similarity=0.207  Sum_probs=84.6

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccC
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGIN  195 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~  195 (254)
                      .+|+++|++|+|||||++++.+.++.  ..+.+ |........+..+..+.+||+||  +..+.       ..+..++..
T Consensus         3 ~ki~i~G~~~~GKTsLl~~l~~~~~~--~~~~~-T~~~~~~~~~~~~~~~~i~D~~G--~~~~~-------~~~~~~~~~   70 (164)
T d1zd9a1           3 MELTLVGLQYSGKTTFVNVIASGQFN--EDMIP-TVGFNMRKITKGNVTIKLWDIGG--QPRFR-------SMWERYCRG   70 (164)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCC--CSCCC-CCSEEEEEEEETTEEEEEEEECC--SHHHH-------TTHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCCCC--Ccccc-cceeeeeeeeeeeEEEEEeeccc--ccccc-------ccccccccc
Confidence            47999999999999999999988764  22222 33334445677789999999999  32222       233456789


Q ss_pred             ccEEEEEEeCCCC--chhHHHHHHHhhccc-CCCCCEEEEEecCCCCChHhH
Q 025346          196 ADCIVVLVDACKA--PERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPGEI  244 (254)
Q Consensus       196 ~d~iv~vid~~~~--~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~~~  244 (254)
                      ++++++|+|+++.  +.....++..+.+.. ..++|+++|+||+|+.+....
T Consensus        71 ~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~pi~lv~nK~Dl~~~~~~  122 (164)
T d1zd9a1          71 VSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGALDE  122 (164)
T ss_dssp             CSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTCCCH
T ss_pred             cchhhcccccccccccchhhhhhhhhhhhhcccCCcEEEEEeccccchhhhH
Confidence            9999999999873  445556666555443 367999999999999764333

>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=99.71  E-value=5.9e-17  Score=126.86  Aligned_cols=120  Identities=27%  Similarity=0.320  Sum_probs=82.7

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccc------hhhhhHHHHHHHH
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK------IHMLDSMMMKNVR  190 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~------~~~~~~~~~~~~~  190 (254)
                      .|+++|.+|+|||||+|++++.+.. +++.|++|+.....  .+  ..+.++||||+....      .+.+.......+.
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~~~~-~~~~~g~T~~~~~~--~~--~~~~ivDtpG~~~~~~~~~~~~~~~~~~~~~~~~   76 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGKKVR-RGKRPGVTRKIIEI--EW--KNHKIIDMPGFGFMMGLPKEVQERIKDEIVHFIE   76 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCCCS-SSSSTTCTTSCEEE--EE--TTEEEEECCCBSCCTTSCHHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCce-eeCCCCEeeccccc--cc--ccceecccCCceeccccccccccccchhhhhhhh
Confidence            5899999999999999999998875 78899999775432  22  246789999974322      1222333444555


Q ss_pred             HHccCccEEEEEEeCCCCc-----------hhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          191 SAGINADCIVVLVDACKAP-----------ERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~~~~-----------~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      ..++.+|++++|+|++...           ...+..+...+.  ..+.|+++|+||+|+....+
T Consensus        77 ~~~~~~d~~~~vvD~~~~~~~~~~~~~~~~~~~d~~~~~~l~--~~~~p~iiv~NK~D~~~~~~  138 (184)
T d2cxxa1          77 DNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLR--ELDIPTIVAVNKLDKIKNVQ  138 (184)
T ss_dssp             HHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHH--HTTCCEEEEEECGGGCSCHH
T ss_pred             hcccccchheeeeeccccchhhhhhhhccccHHHHHHHHHHH--HcCCCEEEEEeeeehhhhHH
Confidence            6678899999999987422           122222222222  24789999999999876543

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.71  E-value=1.2e-17  Score=131.36  Aligned_cols=122  Identities=20%  Similarity=0.190  Sum_probs=87.4

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEE--EEEecCCeeEEEEecCCCcccchhhhhHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRIL--GICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVR  190 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~--~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~  190 (254)
                      ++..||+++|.+|+|||||+++++.+.+.  ..+.+|......  ...+.....+.+||++|  +..+..+.       .
T Consensus         3 p~~iKivviG~~~vGKTsli~~~~~~~f~--~~~~~ti~~~~~~~~~~~~~~~~~~~~d~~g--~~~~~~~~-------~   71 (183)
T d1mh1a_           3 PQAIKCVVVGDGAVGKTCLLISYTTNAFP--GEYIPTVFDNYSANVMVDGKPVNLGLWDTAG--QEDYDRLR-------P   71 (183)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSSCC--SSCCCCSCCEEEEEEEETTEEEEEEEECCCC--SGGGTTTG-------G
T ss_pred             ceeEEEEEECCCCCCHHHHHHHHHhCCCC--cccccceeeceeeeeeccCcceEEEeecccc--cccchhhh-------h
Confidence            44568999999999999999999988864  333344333222  23445567789999999  33333332       2


Q ss_pred             HHccCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHH
Q 025346          191 SAGINADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIA  245 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~  245 (254)
                      .++..+|++++|+|+++  +++.+..++....+....+.|+++|+||+|+..++...
T Consensus        72 ~~~~~~~~~ilv~d~~~~~sf~~i~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~  128 (183)
T d1mh1a_          72 LSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTI  128 (183)
T ss_dssp             GGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTSCEEEEEECHHHHTCHHHH
T ss_pred             hcccccceeeeeeccchHHHHHHHHHHHHHHHHHhCCCCcEEEEeecccchhhhhhh
Confidence            35789999999999987  44556555555555556789999999999997765543

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.71  E-value=1.4e-17  Score=128.87  Aligned_cols=119  Identities=29%  Similarity=0.355  Sum_probs=84.8

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEE--EEecCCeeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILG--ICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~--~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      +..||+++|.+|+|||||++++...++.  ..+.+|.......  ..++....+.+|||+|...  +..+.       ..
T Consensus         3 k~~Kv~liG~~~vGKTsLl~~~~~~~f~--~~~~~t~~~~~~~~~~~~~~~~~l~i~d~~g~~~--~~~~~-------~~   71 (167)
T d1xtqa1           3 KSRKIAILGYRSVGKSSLTIQFVEGQFV--DSYDPTIENTFTKLITVNGQEYHLQLVDTAGQDE--YSIFP-------QT   71 (167)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHSCCC--SCCCSSCCEEEEEEEEETTEEEEEEEEECCCCCT--TCCCC-------GG
T ss_pred             cceEEEEECCCCcCHHHHHHHHHhCCCC--cccCcceecccceEEecCcEEEEeeecccccccc--ccccc-------ch
Confidence            3468999999999999999999987764  3333333332222  3344456788999999543  23322       23


Q ss_pred             HccCccEEEEEEeCCC--CchhHHHHHHHhhccc-CCCCCEEEEEecCCCCChHh
Q 025346          192 AGINADCIVVLVDACK--APERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~~  243 (254)
                      ++..+|++++|+|+++  ++..+..|+..+.+.. ..++|+++|+||+|+...++
T Consensus        72 ~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~r~  126 (167)
T d1xtqa1          72 YSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERV  126 (167)
T ss_dssp             GTSSCCEEEEEEETTCHHHHHHHHHHHHHHHHHHCSSCCCEEEEEECTTCGGGCC
T ss_pred             hhhhhhhhhhhcccchhhhhhhhhhhhhhhhhcccccccceeeeccccccccccc
Confidence            4789999999999998  4566777777765543 35799999999999976543

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.71  E-value=2e-17  Score=130.93  Aligned_cols=118  Identities=23%  Similarity=0.250  Sum_probs=86.1

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEE--EEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILG--ICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~--~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      ..||+++|.+|+|||||++++...++.  ..+.+|.......  ...+....+.+|||+|.  ..+..+.       ..+
T Consensus         3 ~iKvvllG~~~vGKTSli~r~~~~~f~--~~~~~t~~~~~~~~~~~~~~~~~l~i~D~~g~--~~~~~~~-------~~~   71 (191)
T d2ngra_           3 TIKCVVVGDGAVGKTCLLISYTTNKFP--SEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQ--EDYDRLR-------PLS   71 (191)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCC--SSCCCCSEEEEEEEEEETTEEEEEEEEEECCS--GGGTTTG-------GGG
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCC--CCcCCceeeecceeEeeCCceeeeeccccccc--hhhhhhh-------hhc
Confidence            358999999999999999999988874  3344444333322  23344568999999994  3443332       245


Q ss_pred             ccCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          193 GINADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       193 ~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      +..+|++++|+|+++  +++.+..++.........+.|+++|+||+|+.+...
T Consensus        72 ~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~~~i~lvgnK~Dl~~~~~  124 (191)
T d2ngra_          72 YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPS  124 (191)
T ss_dssp             CTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCCEEEEEECGGGGGCHH
T ss_pred             ccccceeecccccchHHHHHHHHHHHHHHHhhcCCCCceEEEeccccccccch
Confidence            789999999999998  456666666666666667899999999999865543

>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=99.71  E-value=1.7e-17  Score=130.46  Aligned_cols=128  Identities=27%  Similarity=0.327  Sum_probs=89.9

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhh---hhHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHM---LDSMMMKNV  189 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~---~~~~~~~~~  189 (254)
                      ....+|+++|.+|+|||||+|++++.+...+.+.++++...........+..+.++||||+.......   ........+
T Consensus         6 ~~~~kV~iiG~~~~GKSTLin~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~   85 (186)
T d1mkya2           6 TDAIKVAIVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFIDGRKYVFVDTAGLRRKSRVEPRTVEKYSNYRV   85 (186)
T ss_dssp             CSCEEEEEECSTTSSHHHHHHHHHTSTTEEECCCC------CCEEEEETTEEEEESSCSCC-----------CCSCCHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHCCCcceeecccccccccceeeeccCCceeeeeccCCccccccccccccccchhHHH
Confidence            44679999999999999999999999887788899998888777788888999999999974322100   000111234


Q ss_pred             HHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          190 RSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       190 ~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      ...+..+|++++|+|+..+.......+...+.  ..+.|+++|+||+|+....
T Consensus        86 ~~~~~~~dvii~v~d~~~~~~~~~~~~~~~~~--~~~~~~i~v~nK~D~~~~~  136 (186)
T d1mkya2          86 VDSIEKADVVVIVLDATQGITRQDQRMAGLME--RRGRASVVVFNKWDLVVHR  136 (186)
T ss_dssp             HHHHHHCSEEEEEEETTTCCCHHHHHHHHHHH--HTTCEEEEEEECGGGSTTG
T ss_pred             HHHHhcCCEEEEeecccccchhhHHHHHHHHH--HcCCceeeeccchhhhcch
Confidence            45567899999999999877666655554444  2468999999999997554

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.71  E-value=3.1e-17  Score=126.82  Aligned_cols=117  Identities=21%  Similarity=0.219  Sum_probs=84.2

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceE--EEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTR--HRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~--~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .||+++|.+|+|||||++++.+.++..... +.++.  .......++....+.+|||||.  ..+..+.       ..++
T Consensus         5 ~KivlvG~~~vGKTsli~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~l~i~D~~g~--~~~~~~~-------~~~~   74 (166)
T d1z0fa1           5 FKYIIIGDMGVGKSCLLHQFTEKKFMADCP-HTIGVEFGTRIIEVSGQKIKLQIWDTAGQ--ERFRAVT-------RSYY   74 (166)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCCSSCT-TSCCCCEEEEEEEETTEEEEEEEEECTTG--GGTCHHH-------HHHH
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCCccc-ccccccceeEEEEECCEEEEEEEeccCCc--hhHHHHH-------HHHh
Confidence            589999999999999999999887653222 22222  2233334455568999999993  3333332       3347


Q ss_pred             cCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          194 INADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       194 ~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      +.+|++++|+|.++  ++.....++..+........|+++|+||+|+....
T Consensus        75 ~~~d~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~  125 (166)
T d1z0fa1          75 RGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQR  125 (166)
T ss_dssp             HTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGC
T ss_pred             cCCcEEEEEeccCchHHHHHHHHHHHHHHhhccccceEEEEcccccchhhc
Confidence            88999999999987  44566677776666666789999999999996554

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.70  E-value=2.5e-17  Score=127.89  Aligned_cols=117  Identities=22%  Similarity=0.244  Sum_probs=81.1

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEE--EEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILG--ICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~--~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .||+++|.+|+|||||++++++.++.  ..+.+|.......  ..+.....+.+|||+|....  ...       ...++
T Consensus         3 ~Ki~viG~~~vGKTsLi~r~~~~~f~--~~~~~T~~~~~~~~~~~~~~~~~l~~~d~~g~~~~--~~~-------~~~~~   71 (171)
T d2erxa1           3 YRVAVFGAGGVGKSSLVLRFVKGTFR--ESYIPTVEDTYRQVISCDKSICTLQITDTTGSHQF--PAM-------QRLSI   71 (171)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTCCCC--SSCCCCSCEEEEEEEEETTEEEEEEEEECCSCSSC--HHH-------HHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCC--CccCcceeeccccceeeccccceeccccccccccc--ccc-------ccccc
Confidence            47999999999999999999998764  3444444433333  33344467889999994332  222       23457


Q ss_pred             cCccEEEEEEeCCC--CchhHHHHHHHhhcc--cCCCCCEEEEEecCCCCChHh
Q 025346          194 INADCIVVLVDACK--APERIDEILEEGVGD--HKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       194 ~~~d~iv~vid~~~--~~~~~~~~~~~~~~~--~~~~~piivV~nK~Dl~~~~~  243 (254)
                      ..+|++++|+|+++  ++..+..++..+.+.  ...++|+++|+||+|+.+.++
T Consensus        72 ~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilVgnK~Dl~~~~~  125 (171)
T d2erxa1          72 SKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSRE  125 (171)
T ss_dssp             HHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGCC
T ss_pred             cceeEEEEEeecccccchhcccchhhhhhhhhccCCCCcEEEEeeccccccccc
Confidence            78999999999987  455556666554432  236789999999999976544

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.70  E-value=3.7e-17  Score=128.21  Aligned_cols=114  Identities=17%  Similarity=0.202  Sum_probs=83.2

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEE--EEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILG--ICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~--~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .||+++|.+|+|||||+++++.+++.  ..+.+|.......  ..++....+.+|||+|.  ..+....       ..++
T Consensus         3 ~KivliG~~~vGKTsli~r~~~~~f~--~~~~~t~~~~~~~~~~~~~~~~~~~i~D~~g~--~~~~~~~-------~~~~   71 (179)
T d1m7ba_           3 CKIVVVGDSQCGKTALLHVFAKDCFP--ENYVPTVFENYTASFEIDTQRIELSLWDTSGS--PYYDNVR-------PLSY   71 (179)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSCCC--SSCCCCSEEEEEEEEECSSCEEEEEEEEECCS--GGGTTTG-------GGGC
T ss_pred             eEEEEECCCCcCHHHHHHHHHhCCCC--CccCCceeecccccccccceEEeecccccccc--ccccccc-------cchh
Confidence            37999999999999999999998874  3344443333322  33455678899999994  3333322       2458


Q ss_pred             cCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          194 INADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       194 ~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      ..+|++++|+|+++  +++....++.........+.|+++|+||+|+..
T Consensus        72 ~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~  120 (179)
T d1m7ba_          72 PDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRT  120 (179)
T ss_dssp             TTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCEEEEEEECGGGGG
T ss_pred             hhhhhhheeeecccCCCHHHHHHHHHHHHhccCCcceEEEEEecccccc
Confidence            89999999999988  345666666666666667899999999999864

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.70  E-value=3.8e-17  Score=126.46  Aligned_cols=117  Identities=19%  Similarity=0.204  Sum_probs=86.3

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEE--EEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILG--ICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~--~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      ..||+++|.+|+|||||++++..+++.  ..+.++.......  ..+.....+.+||++|...  ...+.       ..+
T Consensus         3 ~~KivvvG~~~vGKTsli~r~~~~~f~--~~~~~t~~~~~~~~~~~~~~~~~~~~~d~~g~~~--~~~~~-------~~~   71 (167)
T d1c1ya_           3 EYKLVVLGSGGVGKSALTVQFVQGIFV--EKYDPTIEDSYRKQVEVDCQQCMLEILDTAGTEQ--FTAMR-------DLY   71 (167)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHCCCC--CSCCCCSEEEEEEEEESSSCEEEEEEEEECSSCS--STTHH-------HHH
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcCCCC--CccCCccccccceeEEeeeeEEEeccccccCccc--ccccc-------ccc
Confidence            458999999999999999999998874  3344443333332  3345567899999999543  33332       234


Q ss_pred             ccCccEEEEEEeCCC--CchhHHHHHHHhhccc-CCCCCEEEEEecCCCCChH
Q 025346          193 GINADCIVVLVDACK--APERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       193 ~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~  242 (254)
                      +..+|++++|+|+++  +++.+..|+..+.+.. .++.|+++|+||+|+....
T Consensus        72 ~~~~~~~ilv~d~~~~~sf~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~  124 (167)
T d1c1ya_          72 MKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDER  124 (167)
T ss_dssp             HHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGGC
T ss_pred             ccccceeEEeeeccchhhhHhHHHHHHHHHHhcCCCCCeEEEEEEecCccccc
Confidence            778999999999998  5677778887766543 4679999999999997653

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=99.70  E-value=3.2e-17  Score=127.21  Aligned_cols=118  Identities=20%  Similarity=0.230  Sum_probs=83.3

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEE--EEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILG--ICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~--~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      ..||+++|.+|+|||||++++..+++.  ..+.+|.......  ..++....+.+|||+|....  ..+       ...+
T Consensus         4 ~~KivlvG~~~vGKTsli~~~~~~~f~--~~~~~T~~~~~~~~~~~~~~~~~l~i~d~~g~~~~--~~~-------~~~~   72 (168)
T d1u8za_           4 LHKVIMVGSGGVGKSALTLQFMYDEFV--EDYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDY--AAI-------RDNY   72 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCC--SCCCTTCCEEEEEEEEETTEEEEEEEEECCC---C--HHH-------HHHH
T ss_pred             eeEEEEECCCCcCHHHHHHHHHhCCCC--cccCCccccccccccccccccccccccccccccch--hhh-------hhhc
Confidence            458999999999999999999988763  3444444333332  23445678899999995332  222       2344


Q ss_pred             ccCccEEEEEEeCCC--CchhHHHHHHHhhccc-CCCCCEEEEEecCCCCChHh
Q 025346          193 GINADCIVVLVDACK--APERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       193 ~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~~  243 (254)
                      ++.+|++++|+|.++  ++..+..|+.++.+.. ..+.|+++|+||+|+...++
T Consensus        73 ~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiivgnK~Dl~~~~~  126 (168)
T d1u8za_          73 FRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQ  126 (168)
T ss_dssp             HHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGGGGCC
T ss_pred             ccccceeEEEeeccchhhhhhHHHHHHHHHHhhCCCCCcEEEEecccccccccc
Confidence            678999999999988  4566667777665543 46789999999999865433

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.70  E-value=3.2e-17  Score=126.56  Aligned_cols=118  Identities=19%  Similarity=0.214  Sum_probs=83.3

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCcccccc-CCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVT-NKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~-~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      .||+++|.+|+|||||++++...++.... +..+.+.........+....+.+|||+|.  ..+..+..       .+++
T Consensus         3 iKv~liG~~~vGKSsLi~rl~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~~~i~d~~g~--~~~~~~~~-------~~~~   73 (164)
T d1z2aa1           3 IKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQ--EEFDAITK-------AYYR   73 (164)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTEEEEEEEECCTTG--GGTTCCCH-------HHHT
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccceeeeeecCceeeeeeeccCCc--cchhhhhh-------hhhc
Confidence            48999999999999999999987764211 11222333333444455678999999994  33333332       3478


Q ss_pred             CccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          195 NADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       195 ~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      .++++++|+|+++  +++.+..|+..+.+. ..++|+++|+||+|+.+.++
T Consensus        74 ~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~iilVgnK~Dl~~~~~  123 (164)
T d1z2aa1          74 GAQACVLVFSTTDRESFEAISSWREKVVAE-VGDIPTALVQNKIDLLDDSC  123 (164)
T ss_dssp             TCCEEEEEEETTCHHHHHTHHHHHHHHHHH-HCSCCEEEEEECGGGGGGCS
T ss_pred             cCceEEEEEeccchhhhhhccccccccccc-CCCceEEEeeccCCccccee
Confidence            9999999999988  456666677665443 36799999999999976543

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.69  E-value=1.6e-17  Score=129.13  Aligned_cols=117  Identities=18%  Similarity=0.211  Sum_probs=80.7

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCce-EEEEE--EEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTT-RHRIL--GICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt-~~~~~--~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      .||+++|.+|+|||||+++++..++.  ..+.+|. .+...  ...++....+.+|||+|  ...+..+       +..+
T Consensus         4 ~Ki~vvG~~~vGKTsli~~~~~~~f~--~~~~~Ti~~~~~~~~~~~~~~~~~l~i~D~~g--~~~~~~~-------~~~~   72 (170)
T d1i2ma_           4 FKLVLVGDGGTGKTTFVKRHLTGEFE--KKYVATLGVEVHPLVFHTNRGPIKFNVWDTAG--QEKFGGL-------RDGY   72 (170)
T ss_dssp             EEEEEEECTTSSHHHHHHTTC-------CCEEEETTEEEEEEEECBTTCCEEEEEEECTT--HHHHSSC-------GGGG
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCC--cccccceecccccccccccccccccccccccc--cccccee-------cchh
Confidence            58999999999999999999988764  2222222 22222  22344567899999999  3333322       2345


Q ss_pred             ccCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhH
Q 025346          193 GINADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEI  244 (254)
Q Consensus       193 ~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~  244 (254)
                      +..++++++|+|+++  +++.+..|+..+.+. ..++|+++|+||+|+......
T Consensus        73 ~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~-~~~~piilvgnK~Dl~~~~~~  125 (170)
T d1i2ma_          73 YIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV-CENIPIVLCGNKVDIKDRKVK  125 (170)
T ss_dssp             TTTCCEEEEEEETTSGGGGTTHHHHHHHHHHH-HCSCCEEEEEECCCCSCSCCT
T ss_pred             cccccchhhccccccccccchhHHHHHHHhhc-cCCCceeeecchhhhhhhhhh
Confidence            889999999999988  567778887776543 367999999999999776543

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.69  E-value=5.6e-17  Score=125.85  Aligned_cols=118  Identities=19%  Similarity=0.223  Sum_probs=84.4

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEE--EEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRI--LGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~--~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .||+++|.+|+|||||++++...++.... .+.......  ..........+.+|||+|  ...+..+..       .++
T Consensus         7 ~Ki~vvG~~~vGKTsLi~~l~~~~f~~~~-~~t~~~~~~~~~~~~~~~~~~~~~~d~~g--~~~~~~~~~-------~~~   76 (170)
T d1r2qa_           7 FKLVLLGESAVGKSSLVLRFVKGQFHEFQ-ESTIGAAFLTQTVCLDDTTVKFEIWDTAG--QERYHSLAP-------MYY   76 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCCTTC-CCCSSEEEEEEEEEETTEEEEEEEEEECC--SGGGGGGHH-------HHH
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCccc-ccccccccccceeeccceEEEEEeccCCC--chhhhhhHH-------HHh
Confidence            58999999999999999999988765222 222222222  222333456799999999  444444333       347


Q ss_pred             cCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          194 INADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       194 ~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      +.++++++|+|.++  ++.....++..+.+...++.|+++|+||+|+..+++
T Consensus        77 ~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~  128 (170)
T d1r2qa_          77 RGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRA  128 (170)
T ss_dssp             TTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCC
T ss_pred             hCcceEEEEeccchhhHHHHHHHHhhhhhhccCCCceEEeeccccccccccc
Confidence            89999999999988  355666777776666667899999999999876544

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.69  E-value=7.9e-17  Score=124.63  Aligned_cols=118  Identities=18%  Similarity=0.207  Sum_probs=84.4

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEE---EEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRH---RILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~---~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      ..||+++|.+|+|||||++++...++..  .+.+++..   ............+.+|||+|.  ..+..+..       .
T Consensus         4 ~~Ki~lvG~~~vGKTsli~rl~~~~f~~--~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~--~~~~~~~~-------~   72 (167)
T d1z0ja1           4 ELKVCLLGDTGVGKSSIMWRFVEDSFDP--NINPTIGASFMTKTVQYQNELHKFLIWDTAGL--ERFRALAP-------M   72 (167)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCT--TCCCCCSEEEEEEEEEETTEEEEEEEEEECCS--GGGGGGTH-------H
T ss_pred             eeEEEEECCCCcCHHHHHHHHHhCCCCc--ccccccccccccccccccccccceeeeecCCc--hhhhHHHH-------H
Confidence            4589999999999999999999888742  33333222   222223334556889999994  33344433       3


Q ss_pred             HccCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          192 AGINADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      ++..++++++|+|+++  ++..+..++.........+.|+++|+||+|+.+.+.
T Consensus        73 ~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~  126 (167)
T d1z0ja1          73 YYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVRE  126 (167)
T ss_dssp             HHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCGGGCC
T ss_pred             HHhhccceEEEeeechhhhhhhHHHhhhhhhhccCCcceEEEecccchhccccc
Confidence            4789999999999987  456666777666666667899999999999976543

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.69  E-value=4e-17  Score=129.58  Aligned_cols=119  Identities=18%  Similarity=0.140  Sum_probs=84.8

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCcccccc-CCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVT-NKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~-~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      .||+++|.+|+|||||++++....+.... +..+++.......+......+.+|||||.  ..+..+       +..+++
T Consensus         7 ~KivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~--e~~~~~-------~~~~~~   77 (194)
T d2bcgy1           7 FKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQ--ERFRTI-------TSSYYR   77 (194)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTT--TTTTCC-------CGGGGT
T ss_pred             EEEEEECCCCcCHHHHHHHHhhCCCCCCcCCccceeEEEEEEEEeeEEEEEEEEECCCc--hhhHHH-------HHHHhc
Confidence            58999999999999999999987754221 22223333333344555678999999994  333333       234578


Q ss_pred             CccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          195 NADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       195 ~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      .++++++|+|.++  ++.....++..+.+....+.|+++|+||+|+.+...
T Consensus        78 ~a~~~i~v~d~t~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~~~~  128 (194)
T d2bcgy1          78 GSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRV  128 (194)
T ss_dssp             TCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCC
T ss_pred             cCCEEEEEEeCcchhhhhhHhhhhhhhhhcccCCceEEEEEeccccccccc
Confidence            9999999999987  345555566555555567899999999999987543

>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=99.69  E-value=5.3e-17  Score=126.43  Aligned_cols=118  Identities=22%  Similarity=0.222  Sum_probs=84.1

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEE--EEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRH--RILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~--~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .||+++|.+|+|||||++++...++.. ...+.....  ......+.....+.+|||||.  ..+.       ..+..++
T Consensus         6 ~KI~lvG~~~vGKTsll~~~~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~--~~~~-------~~~~~~~   75 (174)
T d2bmea1           6 FKFLVIGNAGTGKSCLLHQFIEKKFKD-DSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQ--ERFR-------SVTRSYY   75 (174)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSSCCT-TCCCCSEEEEEEEEEEETTEEEEEEEEEECCS--GGGH-------HHHHTTS
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCc-ccccccccceeeEEEEecCcceeEEEEECCCc--hhhh-------hhHHHHh
Confidence            589999999999999999999887642 222222222  222233444567999999993  3222       2244568


Q ss_pred             cCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          194 INADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       194 ~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      ..++++++|+|.++  ++..+..++..+......++|+++|+||+|+....+
T Consensus        76 ~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piivv~nK~D~~~~~~  127 (174)
T d2bmea1          76 RGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADRE  127 (174)
T ss_dssp             TTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCC
T ss_pred             hhCCEEEEEEecccchhHHHHhhhhcccccccCCceEEEEEEecccccchhc
Confidence            89999999999987  345666777776666667899999999999865433

>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=99.69  E-value=4e-16  Score=123.57  Aligned_cols=136  Identities=26%  Similarity=0.331  Sum_probs=87.8

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCc-cccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhh----hhHHH
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQK-LSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHM----LDSMM  185 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~-~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~----~~~~~  185 (254)
                      |....++|+++|.+|+|||||+|++++.+ ...++..+++|........   ...+.++|++|........    ....+
T Consensus        19 p~~~~~~I~lvG~~n~GKSTLin~L~g~~~~~~~~~~~~~t~~~~~~~~---~~~~~~~d~~~~~~~~~~~~~~~~~~~~   95 (195)
T d1svia_          19 PEGGLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYII---NDELHFVDVPGYGFAKVSKSEREAWGRM   95 (195)
T ss_dssp             CCSCCCEEEEEEBTTSSHHHHHHHHHTC-------------CCEEEEEE---TTTEEEEECCCBCCCSSCHHHHHHHHHH
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHhcCCCceEEeecccceeeecccccc---cccceEEEEEeeccccccccccchhhhH
Confidence            45556789999999999999999999865 3456667777766554433   3456778888864432221    12223


Q ss_pred             HHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHHHHHHH
Q 025346          186 MKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLEVT  251 (254)
Q Consensus       186 ~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~~~~~~  251 (254)
                      ..........++++++|+|++.+.......+...++.  .++|+++|+||+|+..+.+..+..+.+
T Consensus        96 ~~~~~~~~~~~~~vi~viD~~~~~~~~~~~~~~~l~~--~~~piivv~NK~D~~~~~~~~~~~~~~  159 (195)
T d1svia_          96 IETYITTREELKAVVQIVDLRHAPSNDDVQMYEFLKY--YGIPVIVIATKADKIPKGKWDKHAKVV  159 (195)
T ss_dssp             HHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHH--TTCCEEEEEECGGGSCGGGHHHHHHHH
T ss_pred             Hhhhhccccchhhhhhhhhcccccccccccccccccc--ccCcceechhhccccCHHHHHHHHHHH
Confidence            3455566778999999999998776665555555543  468999999999999887766654443

>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=99.68  E-value=1.3e-16  Score=124.10  Aligned_cols=116  Identities=17%  Similarity=0.164  Sum_probs=84.5

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      .+..+|+++|.+|+|||||++++.........    +|..............+.+|||||.....         ..+..+
T Consensus        10 ~k~~kIvlvG~~~vGKTSli~rl~~~~~~~~~----~t~~~~~~~~~~~~~~~~i~D~~g~~~~~---------~~~~~~   76 (173)
T d1e0sa_          10 NKEMRILMLGLDAAGKTTILYKLKLGQSVTTI----PTVGFNVETVTYKNVKFNVWDVGGQDKIR---------PLWRHY   76 (173)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHTTCCCCEEEE----EETTEEEEEEEETTEEEEEEEESCCGGGH---------HHHGGG
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHhcCCCCCcc----ceeeeeEEEeeccceeeEEecCCCcchhh---------hHHHhh
Confidence            34568999999999999999999987654222    22233344556678899999999954332         334456


Q ss_pred             ccCccEEEEEEeCCC--CchhHHHHHHHhhcc-cCCCCCEEEEEecCCCCCh
Q 025346          193 GINADCIVVLVDACK--APERIDEILEEGVGD-HKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       193 ~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~-~~~~~piivV~nK~Dl~~~  241 (254)
                      +..++++++|+|+++  .......++....+. ...+.|+++|+||+|+.+.
T Consensus        77 ~~~~~~ii~v~D~s~~~~~~~~~~~l~~~~~~~~~~~~piiiv~NK~Dl~~~  128 (173)
T d1e0sa_          77 YTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDA  128 (173)
T ss_dssp             TTTCCEEEEEEETTCGGGHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTC
T ss_pred             hcccceEEEEEecccchhHHHHHHHHHHHhhhcccccceeeeeeeccccccc
Confidence            899999999999987  345555666655543 3467999999999999754

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.68  E-value=5.8e-17  Score=126.17  Aligned_cols=117  Identities=20%  Similarity=0.252  Sum_probs=83.2

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCC-ceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQ-TTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~-tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      .||+++|.+|+|||||++++++.++......+. .+..............+.+||++|  +..+..+..       .++.
T Consensus         4 ~KivvvG~~~vGKTsli~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g--~~~~~~~~~-------~~~~   74 (173)
T d2a5ja1           4 FKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAG--QESFRSITR-------SYYR   74 (173)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEECCTT--GGGTSCCCH-------HHHT
T ss_pred             EEEEEECCCCcCHHHHHHHHhcCCCCCCcccceeeccceeeeeeeeeEEEEEeecccC--ccchhhHHH-------HHhh
Confidence            479999999999999999999887653332222 222222333344457899999999  433344333       3468


Q ss_pred             CccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          195 NADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       195 ~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      .+|++++|+|+++  ++.....++..+.+....++|+++|+||+|+...
T Consensus        75 ~~d~~ilv~d~~~~~sf~~~~~~~~~~~~~~~~~~piilv~nK~D~~~~  123 (173)
T d2a5ja1          75 GAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESR  123 (173)
T ss_dssp             TCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGG
T ss_pred             ccCEEEEEEeecChHHHHhHHHHHHHHHHhCCCCCeEEEEecCCchhhh
Confidence            8999999999988  4566777777776666678999999999998644

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.68  E-value=7.8e-17  Score=124.89  Aligned_cols=116  Identities=18%  Similarity=0.169  Sum_probs=79.4

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEE--EEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILG--ICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~--~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .||+++|.+|+|||||++++...++.  ..+.+|.......  ..++....+.+|||+|....  ..        ...++
T Consensus         3 iKi~lvG~~~vGKTsli~r~~~~~f~--~~~~pTi~~~~~~~~~~~~~~~~l~i~D~~g~~~~--~~--------~~~~~   70 (168)
T d2atva1           3 VKLAIFGRAGVGKSALVVRFLTKRFI--WEYDPTLESTYRHQATIDDEVVSMEILDTAGQEDT--IQ--------REGHM   70 (168)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSCCC--SCCCTTCCEEEEEEEEETTEEEEEEEEECCCCCCC--HH--------HHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCCCC--CccCCceeccccccccccccceEEEEeeccccccc--cc--------chhhh
Confidence            47999999999999999999998764  3444443332222  23344578999999995332  11        22346


Q ss_pred             cCccEEEEEEeCCC--CchhHHHHHHHhhc-ccCCCCCEEEEEecCCCCChHh
Q 025346          194 INADCIVVLVDACK--APERIDEILEEGVG-DHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       194 ~~~d~iv~vid~~~--~~~~~~~~~~~~~~-~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      ..++++++|+|+++  ++..+..++..... ....+.|+++|+||+|+...++
T Consensus        71 ~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~r~  123 (168)
T d2atva1          71 RWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQ  123 (168)
T ss_dssp             HHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGGGGCC
T ss_pred             cccccceeecccCCccchhhhhhhcccccccccccCcceeeeccchhhhhhcc
Confidence            78999999999998  34455554433222 2246799999999999965543

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.68  E-value=1.1e-16  Score=124.29  Aligned_cols=117  Identities=21%  Similarity=0.215  Sum_probs=81.4

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEE--EecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGI--CSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~--~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      ..||+++|.+|+|||||++++..+.+.  ..+.++........  .++....+.+|||+|....  ...       ...+
T Consensus         5 ~~Ki~lvG~~~vGKTsLi~r~~~~~f~--~~~~~t~~~~~~~~~~~~~~~~~~~~~d~~g~~~~--~~~-------~~~~   73 (171)
T d2erya1           5 KYRLVVVGGGGVGKSALTIQFIQSYFV--TDYDPTIEDSYTKQCVIDDRAARLDILDTAGQEEF--GAM-------REQY   73 (171)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSCCC--SSCCTTCCEEEEEEEEETTEEEEEEEEECC----C--CHH-------HHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCCCC--cccCcccccceeeeeeecccccccccccccccccc--ccc-------cccc
Confidence            358999999999999999999988763  34444443333333  3344568999999995433  222       2344


Q ss_pred             ccCccEEEEEEeCCC--CchhHHHHHHHhhccc-CCCCCEEEEEecCCCCChH
Q 025346          193 GINADCIVVLVDACK--APERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       193 ~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~  242 (254)
                      +..+|++++|+|.++  ++..+..|+..+.+.. ..+.|+++|+||+|+...+
T Consensus        74 ~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~  126 (171)
T d2erya1          74 MRTGEGFLLVFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQR  126 (171)
T ss_dssp             HHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCSEEEEEECTTCTTSC
T ss_pred             ccccceEEEeeccccccchhhHHHHhHHHHhhcccCCCCEEEEEeccchhhhc
Confidence            678999999999988  4566777776655443 3578999999999997653

>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=99.68  E-value=1.2e-16  Score=127.46  Aligned_cols=118  Identities=17%  Similarity=0.264  Sum_probs=84.6

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      .++|+++|.+|+|||||+|++.+.++.     +++|........+..+..+.+|||||.....     ............
T Consensus         3 ~p~V~lvG~~n~GKTSLln~l~~~~~~-----~~tt~~~~~~~~~~~~~~~~l~D~~g~~~~~-----~~~~~~~~~~~~   72 (209)
T d1nrjb_           3 QPSIIIAGPQNSGKTSLLTLLTTDSVR-----PTVVSQEPLSAADYDGSGVTLVDFPGHVKLR-----YKLSDYLKTRAK   72 (209)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHSSCC-----CBCCCSSCEEETTGGGSSCEEEECCCCGGGT-----HHHHHHHHHHGG
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCC-----CeEEecceEEEEEeCCeEEEEEecccccchh-----hHHHHHHHHHhh
Confidence            458999999999999999999987653     4455555566677788899999999954332     223344555677


Q ss_pred             CccEEEEEEeCCCC---chhHHHHHHHh----hcccCCCCCEEEEEecCCCCChH
Q 025346          195 NADCIVVLVDACKA---PERIDEILEEG----VGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       195 ~~d~iv~vid~~~~---~~~~~~~~~~~----~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      .++.+++++|+...   ......++...    ......+.|+++|+||+|+.+..
T Consensus        73 ~~~~~i~~vd~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~piiiv~NK~D~~~~~  127 (209)
T d1nrjb_          73 FVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTAR  127 (209)
T ss_dssp             GEEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCC
T ss_pred             hccccceEEEEecccccHHHHHHHHHHHHHHHHHHHhccCCeEEEEEeecccccC
Confidence            88999999998763   34444443322    22345789999999999997654

>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=99.67  E-value=1.8e-16  Score=124.17  Aligned_cols=118  Identities=15%  Similarity=0.164  Sum_probs=82.7

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHH
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVR  190 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~  190 (254)
                      ...+..+|+++|.+|+|||||++++.+..+....+..+..    .......+..+.+|||||...  +..+       +.
T Consensus        13 ~~~k~~KI~lvG~~~vGKTsLi~~l~~~~~~~~~~t~~~~----~~~~~~~~~~~~i~D~~g~~~--~~~~-------~~   79 (182)
T d1moza_          13 GSNKELRILILGLDGAGKTTILYRLQIGEVVTTKPTIGFN----VETLSYKNLKLNVWDLGGQTS--IRPY-------WR   79 (182)
T ss_dssp             TCSSCEEEEEEEETTSSHHHHHHHTCCSEEEEECSSTTCC----EEEEEETTEEEEEEEEC------CCTT-------GG
T ss_pred             CCCceEEEEEECCCCCCHHHHHHHHhcCCCCccccccceE----EEEEeeCCEEEEEEecccccc--cchh-------HH
Confidence            3455679999999999999999999988765433322222    234456788999999999433  2222       23


Q ss_pred             HHccCccEEEEEEeCCCC--chhHHHHHHHhhccc-CCCCCEEEEEecCCCCCh
Q 025346          191 SAGINADCIVVLVDACKA--PERIDEILEEGVGDH-KDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~  241 (254)
                      .++..++++++|+|+++.  +.....++...+... ..+.|+++|+||+|+.+.
T Consensus        80 ~~~~~~~~ii~v~d~~d~~s~~~~~~~l~~~~~~~~~~~~piliv~NK~Dl~~~  133 (182)
T d1moza_          80 CYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGA  133 (182)
T ss_dssp             GTTTTEEEEEEEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTTC
T ss_pred             hhhccceeEEEEeeecccccchhHHHHHHHHHHhhccCCcceEEEEEeeccccc
Confidence            457899999999999874  445556666655433 357999999999999753

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.67  E-value=1.3e-16  Score=122.94  Aligned_cols=121  Identities=21%  Similarity=0.213  Sum_probs=85.1

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCC-ceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQ-TTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~-tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      ..||+++|.+|+|||||++++...++........ ................+.+||++|.....  .      ..+..++
T Consensus         2 ~~Kv~liG~~~vGKTsLl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~------~~~~~~~   73 (165)
T d1z06a1           2 IFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFR--K------SMVQHYY   73 (165)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEECCCSHHHH--T------TTHHHHH
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCCccCcccccccceeeeeeeccceEEEEEeccCchhhc--c------ccceeee
Confidence            3589999999999999999999888653322222 22223333445556789999999942221  1      1123457


Q ss_pred             cCccEEEEEEeCCC--CchhHHHHHHHhhccc-CCCCCEEEEEecCCCCChHh
Q 025346          194 INADCIVVLVDACK--APERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       194 ~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~~  243 (254)
                      ..+|++++|+|+++  +++.+..++.++.+.. ..+.|+++|+||+|+.++.+
T Consensus        74 ~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi~lvgnK~Dl~~~~~  126 (165)
T d1z06a1          74 RNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQ  126 (165)
T ss_dssp             TTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGGCC
T ss_pred             cCCCceEEEEEeehhhhhhhhhhhhHHHHhhccCCCCeEEEEeccccchhccc
Confidence            89999999999998  4566677777765543 36799999999999976543

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.67  E-value=4.6e-17  Score=125.98  Aligned_cols=117  Identities=19%  Similarity=0.154  Sum_probs=81.7

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCc-eEEEE--EEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQT-TRHRI--LGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~t-t~~~~--~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      .||+++|.+|+|||||++++...++..  .+.++ .....  ....+.....+.+|||+|....  ..       .+..+
T Consensus         4 fKivlvG~~~vGKTsLi~r~~~~~f~~--~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~--~~-------~~~~~   72 (167)
T d1z08a1           4 FKVVLLGEGCVGKTSLVLRYCENKFND--KHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERF--HA-------LGPIY   72 (167)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHCCCCS--SCCCCCSCEEEEEEEESSSCEEEEEEEECCCC----------------CCS
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCc--ccccccccchheeeeccCCccceeeeeccCCccee--cc-------cchhh
Confidence            489999999999999999999888752  22222 22222  2233344578999999994322  22       23345


Q ss_pred             ccCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          193 GINADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       193 ~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      +.++|++++|+|+++  ++..+..++..+........|+++|+||+|+...++
T Consensus        73 ~~~~~~~i~v~d~~~~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~~~  125 (167)
T d1z08a1          73 YRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERH  125 (167)
T ss_dssp             STTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGGGGCC
T ss_pred             ccCCceeEEEEeCCchhHHHhhhhhhhhcccccccccceeeeccccccccccc
Confidence            889999999999998  456667777665555556789999999999976544

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.67  E-value=2.3e-16  Score=121.81  Aligned_cols=115  Identities=23%  Similarity=0.215  Sum_probs=81.7

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEE--EEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILG--ICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~--~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .||+++|.+|+|||||++++++..+.  ..+.++.......  ...+....+.+||++|....  ..       ....++
T Consensus         4 ~Ki~viG~~~vGKTsli~~l~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~~~~~--~~-------~~~~~~   72 (166)
T d1ctqa_           4 YKLVVVGAGGVGKSALTIQLIQNHFV--DEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEY--SA-------MRDQYM   72 (166)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHCCCC--CSCCCCSEEEEEEEEEETTEEEEEEEEEECCCGGG--HH-------HHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCC--CccCCccceeeccceeeeceeeeeeeeeccCcccc--cc-------chhhhh
Confidence            57999999999999999999988764  3333333322222  23344567999999994332  22       223447


Q ss_pred             cCccEEEEEEeCCC--CchhHHHHHHHhhccc-CCCCCEEEEEecCCCCCh
Q 025346          194 INADCIVVLVDACK--APERIDEILEEGVGDH-KDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       194 ~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~  241 (254)
                      ..++++++|+|.++  +++....|+..+.+.. ..++|+++|+||+|+...
T Consensus        73 ~~~~~~iiv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~  123 (166)
T d1ctqa_          73 RTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAAR  123 (166)
T ss_dssp             HHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSSCCEEEEEECTTCSCC
T ss_pred             hcccccceeecccccccHHHHHHHHHHHHHhcCCCCCeEEEEecccccccc
Confidence            78999999999987  4566777776655443 356899999999999654

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.66  E-value=4.9e-16  Score=124.16  Aligned_cols=120  Identities=18%  Similarity=0.183  Sum_probs=79.9

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEE-EecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGI-CSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~-~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      ++|+++|++|+|||||+|++++.++....  ++.+....... ....+..+.+||+||....        ....+..++.
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~~~~~~~~--~t~~~~~~~~~~~~~~~~~~~~~d~~g~~~~--------~~~~~~~~~~   70 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLTGQYRDTQ--TSITDSSAIYKVNNNRGNSLTLIDLPGHESL--------RFQLLDRFKS   70 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSCCCCBC--CCCSCEEEEEECSSTTCCEEEEEECCCCHHH--------HHHHHHHHGG
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCccc--CCeeEEEEEEEEeeeeeeeeeeeeccccccc--------cchhhhhhhh
Confidence            36999999999999999999998875433  32222222222 2455778999999994211        1133455678


Q ss_pred             CccEEEEEEeCCCCch---hHHHHHHHhhc---ccCCCCCEEEEEecCCCCChHhHH
Q 025346          195 NADCIVVLVDACKAPE---RIDEILEEGVG---DHKDKLPILLVLNKKDLIKPGEIA  245 (254)
Q Consensus       195 ~~d~iv~vid~~~~~~---~~~~~~~~~~~---~~~~~~piivV~nK~Dl~~~~~~~  245 (254)
                      .++++++|+|+++...   ....++..++.   ....++|++||+||+|+.......
T Consensus        71 ~~~~~i~v~D~~d~~~~~~~~~~~l~~~l~~~~~~~~~~pilvv~NK~Dl~~a~~~~  127 (207)
T d2fh5b1          71 SARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAKSAK  127 (207)
T ss_dssp             GEEEEEEEEETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTCCCHH
T ss_pred             hccccceEEEcccccccHHHHHHHHHHHHHhHHHhhcCCcEEEEEECcccCCCCCHH
Confidence            9999999999987432   22333333322   234568999999999998654433

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.66  E-value=2.3e-16  Score=122.34  Aligned_cols=119  Identities=18%  Similarity=0.154  Sum_probs=81.8

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEE--EEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRIL--GICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~--~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .||+++|.+++|||||+++++..++......+.+......  ....+....+.+|||||.  ..+.       ..+..++
T Consensus         7 fKi~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~--e~~~-------~~~~~~~   77 (170)
T d2g6ba1           7 FKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQ--ERFR-------SVTHAYY   77 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC-----------------CCG
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCcccccceeeeeeEEEEEEecCcEEEEEEEECCCc--hhhH-------HHHHHhh
Confidence            5899999999999999999998876422222222222222  233344468899999994  3222       2233457


Q ss_pred             cCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          194 INADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       194 ~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      ..+|++++|+|.++  ++.....++...........|+++|+||+|+.....
T Consensus        78 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~d~~~~~~  129 (170)
T d2g6ba1          78 RDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERV  129 (170)
T ss_dssp             GGCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTTSCCC
T ss_pred             cCCceeEEEecCCcccchhhhhhhhhhhhhccCCCceEEEEEeeechhhccc
Confidence            89999999999987  345566666666666667889999999999987644

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=99.66  E-value=3.8e-16  Score=129.34  Aligned_cols=128  Identities=18%  Similarity=0.234  Sum_probs=91.8

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHH-
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRS-  191 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~-  191 (254)
                      ....+|+++|.+|+|||||+|.+++.+...++..+++|+..........+..+.++||||+.+.....  ...+..... 
T Consensus        30 ~~~l~I~LvG~tg~GKSSliN~ilg~~~~~vs~~~~~T~~~~~~~~~~~g~~i~viDTPGl~~~~~~~--~~~~~~i~~~  107 (257)
T d1h65a_          30 VNSLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSRAGFTLNIIDTPGLIEGGYIN--DMALNIIKSF  107 (257)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSSCCCSSCEEEEEEETTEEEEEEECCCSEETTEEC--HHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCcHHHHHHHHhCCCceeecCCCCcceeEEEEEEEeccEEEEEEeeecccCCcchH--HHHHHHHHHH
Confidence            34568999999999999999999999988788888899888888888889999999999987543221  222222222 


Q ss_pred             -HccCccEEEEEEeCCCC-chh-HHHHHHHhhcccCC--CCCEEEEEecCCCCChH
Q 025346          192 -AGINADCIVVLVDACKA-PER-IDEILEEGVGDHKD--KLPILLVLNKKDLIKPG  242 (254)
Q Consensus       192 -~~~~~d~iv~vid~~~~-~~~-~~~~~~~~~~~~~~--~~piivV~nK~Dl~~~~  242 (254)
                       .....++++||++.+.. ++. ....+..+...++.  ..++++|+||+|...++
T Consensus       108 ~~~~~~~~il~v~~~~~~r~~~~~~~~l~~l~~~fg~~~~~~~ivv~t~~D~~~~~  163 (257)
T d1h65a_         108 LLDKTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPPD  163 (257)
T ss_dssp             TTTCEECEEEEEEESSCCCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCCCGG
T ss_pred             HhcCCCCeEEEEEECCCCCCCHHHHHHHHHHHHHcchhhhhCEEEEEECcccCCcC
Confidence             24567899999988653 333 33333333333332  25899999999998754

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.64  E-value=5.7e-16  Score=120.42  Aligned_cols=120  Identities=23%  Similarity=0.236  Sum_probs=82.3

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEE--EEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRIL--GICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~--~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .||+++|.+|+|||||++++.+.........+++..+...  ...++....+.+||++|..+.     +. +  ....++
T Consensus         4 ~Kv~lvG~~~vGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~~~~g~-----e~-~--~~~~~~   75 (172)
T d2g3ya1           4 YRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWENKGE-----NE-W--LHDHCM   75 (172)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHCCCCTTCCC---CCTTEEEEEEEETTEEEEEEEECCTTTTHH-----HH-H--HHHCCC
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCcCCccccccceeeecceeeeccCCceeeeeeecccccccc-----cc-c--cccccc
Confidence            5899999999999999999998775533333333322222  233445567889998873221     11 1  133468


Q ss_pred             cCccEEEEEEeCCC--CchhHHHHHHHhhccc-CCCCCEEEEEecCCCCChHh
Q 025346          194 INADCIVVLVDACK--APERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       194 ~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~~  243 (254)
                      ..+|++++|+|+++  ++..+..|+..+.... ..++|+++|+||+|+.+.++
T Consensus        76 ~~~~~~ilvfd~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~  128 (172)
T d2g3ya1          76 QVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCRE  128 (172)
T ss_dssp             CCCSEEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGGGCC
T ss_pred             cccceeeeeecccccchhhhhhhhhhhhhhccccCCceEEEEecccccccccc
Confidence            89999999999988  4566677776665543 36799999999999976544

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.64  E-value=4.1e-16  Score=122.56  Aligned_cols=118  Identities=17%  Similarity=0.155  Sum_probs=78.5

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEE--e----------cCCeeEEEEecCCCcccchhhhhH
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGIC--S----------GPEYQMILYDTPGIIEKKIHMLDS  183 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~--~----------~~~~~~~liDtpG~~~~~~~~~~~  183 (254)
                      .||+++|.+|+|||||++++...++.. ...+..+........  +          .....+.+|||||  +..+.    
T Consensus         6 ~Ki~ivG~~~vGKTsLi~~l~~~~~~~-~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~i~dt~G--~e~~~----   78 (186)
T d2f7sa1           6 IKLLALGDSGVGKTTFLYRYTDNKFNP-KFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAG--QERFR----   78 (186)
T ss_dssp             EEEEEESCTTSSHHHHHHHHHCSCCCC-EEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEES--HHHHH----
T ss_pred             EEEEEECCCCcCHHHHHHHHhcCCCCC-ccCCcccceeeEEEEEEecccccccccccceEEeccccCCc--chhhH----
Confidence            589999999999999999999877642 111111111111111  1          1235789999999  33222    


Q ss_pred             HHHHHHHHHccCccEEEEEEeCCC--CchhHHHHHHHhhccc-CCCCCEEEEEecCCCCChHh
Q 025346          184 MMMKNVRSAGINADCIVVLVDACK--APERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       184 ~~~~~~~~~~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~~  243 (254)
                         ..+..++..++++++|+|+++  ++..+..++..+.... ....|+++|+||+|+...++
T Consensus        79 ---~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~~  138 (186)
T d2f7sa1          79 ---SLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQRE  138 (186)
T ss_dssp             ---HHHHHHHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGCC
T ss_pred             ---HHHHHHHhcCCEEEEEEeccccccceeeeeccchhhhhccCCCceEEEEeeeccchhhhc
Confidence               334455789999999999988  3455566665554432 35678999999999976543

>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=99.64  E-value=4e-16  Score=121.29  Aligned_cols=118  Identities=21%  Similarity=0.215  Sum_probs=75.1

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCC-CCceEEE-EEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNK-PQTTRHR-ILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~-~~tt~~~-~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .||+++|.+|+|||||++++.+.++...... .+.+... ...........+.+|||||.....         ..+..++
T Consensus         3 ~Ki~~vG~~~vGKSsLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~---------~~~~~~~   73 (175)
T d1ky3a_           3 LKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQ---------SLGVAFY   73 (175)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC-------------------CCS
T ss_pred             EEEEEECCCCcCHHHHHHHHHcCCCCCccCcccccceeeeeeeecCcccccceeeccCCchhhh---------hHHHHHh
Confidence            4799999999999999999998876422111 1111111 111122334678999999942221         2344568


Q ss_pred             cCccEEEEEEeCCC--CchhHHHHHHHhhcc----cCCCCCEEEEEecCCCCChH
Q 025346          194 INADCIVVLVDACK--APERIDEILEEGVGD----HKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       194 ~~~d~iv~vid~~~--~~~~~~~~~~~~~~~----~~~~~piivV~nK~Dl~~~~  242 (254)
                      ..++++++|+|+++  ++.....|+.++...    ...++|+++|+||+|+.+.+
T Consensus        74 ~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~nK~Dl~~~~  128 (175)
T d1ky3a_          74 RGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESK  128 (175)
T ss_dssp             TTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGG
T ss_pred             hccceEEEEeecccccccchhhhcchhhhhhhhhcccccCcEEEEecccchhhhh
Confidence            89999999999987  345566666555432    23578999999999997643

>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=99.63  E-value=1.2e-15  Score=119.46  Aligned_cols=122  Identities=22%  Similarity=0.272  Sum_probs=80.6

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCce------EEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHH
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTT------RHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMK  187 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt------~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~  187 (254)
                      +..+|+++|.+++|||||+|++++.......+..+++      ...........+..+.++|+||..         .+..
T Consensus         4 k~inIaiiG~~naGKSTL~n~L~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~d~~g~~---------~~~~   74 (179)
T d1wb1a4           4 KNINLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLENYRITLVDAPGHA---------DLIR   74 (179)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEETTEEEEECCCSSHH---------HHHH
T ss_pred             CCEEEEEEeCCCCcHHHHHHHHHHhcCceecccccceeeeeeeccccccccccCCcccccccccccc---------cccc
Confidence            3457999999999999999999975533222222222      222222344567889999999932         2334


Q ss_pred             HHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHH
Q 025346          188 NVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAK  246 (254)
Q Consensus       188 ~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~  246 (254)
                      .....+..+|++++|+|++++.......+...+.  ..++|+++|+||+|+...++...
T Consensus        75 ~~~~~l~~~d~~ilv~d~~~g~~~~~~~~~~~~~--~~~~p~iiv~NKiD~~~~~~~~~  131 (179)
T d1wb1a4          75 AVVSAADIIDLALIVVDAKEGPKTQTGEHMLILD--HFNIPIIVVITKSDNAGTEEIKR  131 (179)
T ss_dssp             HHHHHTTSCCEEEEEEETTTCSCHHHHHHHHHHH--HTTCCBCEEEECTTSSCHHHHHH
T ss_pred             chhhhhhhccccccccccccccchhhhhhhhhhh--hcCCcceeccccccccCHHHHHH
Confidence            4556688999999999999976655444333333  34789999999999998876543

>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=99.63  E-value=4.5e-16  Score=124.52  Aligned_cols=117  Identities=18%  Similarity=0.155  Sum_probs=84.3

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCcc----------ccccC------CCCceEEEEEEEEecCCeeEEEEecCCCcccch
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKL----------SIVTN------KPQTTRHRILGICSGPEYQMILYDTPGIIEKKI  178 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~----------~~~~~------~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~  178 (254)
                      ..+|+++|..++|||||+++++...-          ....+      ..+.|.+.....+.+.+..+.++||||+.+.. 
T Consensus         3 ~ini~iiGhvd~GKSTL~~~Ll~~~g~~~~~~~~~~~~~~d~~~eE~~rgiTi~~~~~~~~~~~~~i~iiDtPGh~df~-   81 (204)
T d2c78a3           3 HVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAKRHYSHVDCPGHADYI-   81 (204)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEECSSCEEEEEECCCSGGGH-
T ss_pred             CeEEEEEeCCCCcHHHHHHHHHHHhhhccCCcchhhhhhcccchHHhcCCeEEEeeEEEEEeCCeEEEEEeCCCchhhH-
Confidence            35799999999999999999973210          00111      11566666666778899999999999965543 


Q ss_pred             hhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCC-EEEEEecCCCCChH
Q 025346          179 HMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLP-ILLVLNKKDLIKPG  242 (254)
Q Consensus       179 ~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~p-iivV~nK~Dl~~~~  242 (254)
                              ....+.+..+|++|+|+|+.++..........+...  .++| +++++||+|+.+..
T Consensus        82 --------~~~~~~~~~aD~avlVvda~~Gv~~qt~~~~~~~~~--~gi~~iiv~iNK~D~~~~~  136 (204)
T d2c78a3          82 --------KNMITGAAQMDGAILVVSAADGPMPQTREHILLARQ--VGVPYIVVFMNKVDMVDDP  136 (204)
T ss_dssp             --------HHHHHHHTTCSSEEEEEETTTCCCHHHHHHHHHHHH--TTCCCEEEEEECGGGCCCH
T ss_pred             --------HHHHHHHHHCCEEEEEEECCCCCcHHHHHHHHHHHH--cCCCeEEEEEEecccCCCH
Confidence                    334456789999999999999877765544444443  3555 78889999998754

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.63  E-value=3.3e-16  Score=122.95  Aligned_cols=116  Identities=24%  Similarity=0.273  Sum_probs=80.5

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCC---ceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQ---TTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~---tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      .||+++|.+|+|||||++++.+.++.  ..+.+   .+.........+....+.+|||||.....  ..       +..+
T Consensus         3 ~Kv~vvG~~~vGKSSLi~~l~~~~f~--~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~--~~-------~~~~   71 (184)
T d1vg8a_           3 LKVIILGDSGVGKTSLMNQYVNKKFS--NQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQ--SL-------GVAF   71 (184)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSCCC--SSCCCCCSEEEEEEEEESSSCEEEEEEEEECSSGGGS--CS-------CCGG
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCC--CCcCCccceeeeeeeeeeCCceEEEEeeecCCccccc--cc-------cccc
Confidence            47999999999999999999988764  22322   22333333344556789999999954322  21       1234


Q ss_pred             ccCccEEEEEEeCCC--CchhHHHHHHHhhcc----cCCCCCEEEEEecCCCCChH
Q 025346          193 GINADCIVVLVDACK--APERIDEILEEGVGD----HKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       193 ~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~----~~~~~piivV~nK~Dl~~~~  242 (254)
                      +..++++++++|.++  ++..+..|+..+...    ...++|+++|+||+|+.+.+
T Consensus        72 ~~~~~~~i~~~d~~~~~~~~~~~~~~~~i~~~~~~~~~~~ip~ilv~nK~Dl~~~~  127 (184)
T d1vg8a_          72 YRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENRQ  127 (184)
T ss_dssp             GTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSSCCC
T ss_pred             ccCccEEEEeecccchhhhhcchhhHHHHHHHhccccccCCCEEEEEEeecccccc
Confidence            788999999999987  345556666554332    23468999999999987653

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.62  E-value=1.6e-15  Score=117.37  Aligned_cols=114  Identities=22%  Similarity=0.237  Sum_probs=82.7

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCce-EEEE--EEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTT-RHRI--LGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt-~~~~--~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      .||+++|.+|+|||||++++..+++..  .+.++. ....  ..........+.+|||+|..  ....+.       ..+
T Consensus         4 iKi~vvG~~~vGKTsLi~~~~~~~f~~--~~~~t~~~~~~~~~i~~~~~~~~l~i~d~~g~~--~~~~~~-------~~~   72 (170)
T d1ek0a_           4 IKLVLLGEAAVGKSSIVLRFVSNDFAE--NKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQE--RFASLA-------PMY   72 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCCT--TCCCCSSEEEEEEEEEETTEEEEEEEEEECCSG--GGGGGH-------HHH
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCc--cccccccceeeccccccccccccccccccCCch--hHHHHH-------HHH
Confidence            589999999999999999999988753  233332 2222  22333445789999999943  333332       234


Q ss_pred             ccCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          193 GINADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       193 ~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      +..+|++++|+|.++  ++.....++...........|+++|+||+|+.+
T Consensus        73 ~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~v~nk~d~~~  122 (170)
T d1ek0a_          73 YRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDMLQ  122 (170)
T ss_dssp             HTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGG
T ss_pred             HhccceEEEEEeCCcccchhhhhhhhhhhccccccccceeeeeccccccc
Confidence            789999999999998  456666777666665667899999999999854

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.62  E-value=1.2e-15  Score=117.62  Aligned_cols=117  Identities=19%  Similarity=0.240  Sum_probs=80.2

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEE--EEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILG--ICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~--~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .||+++|.+|+|||||+++++..++.. ...++++......  ...+....+.+|||||  +..+..+..       .++
T Consensus         3 ~Ki~vvG~~~vGKTSli~~l~~~~~~~-~~~~t~~~~~~~~~i~~~~~~~~~~i~Dt~G--~~~~~~~~~-------~~~   72 (166)
T d1g16a_           3 MKILLIGDSGVGKSCLLVRFVEDKFNP-SFITTIGIDFKIKTVDINGKKVKLQIWDTAG--QERFRTITT-------AYY   72 (166)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHCCCCC--------CCEEEEEEESSSCEEEEEEECCTT--GGGTSCCCH-------HHH
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCC-ccCCccceeEEEEEEEECCEEEEEEEEECCC--chhhHHHHH-------HHH
Confidence            489999999999999999999887642 2223333333322  3344456788999999  443344333       347


Q ss_pred             cCccEEEEEEeCCCC--chhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          194 INADCIVVLVDACKA--PERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       194 ~~~d~iv~vid~~~~--~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      +.++++++|+|.++.  +.....++...........|+++++||.|+....
T Consensus        73 ~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~i~~~~k~d~~~~~  123 (166)
T d1g16a_          73 RGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMETRV  123 (166)
T ss_dssp             TTEEEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTTCC
T ss_pred             hcCCEEEEEEECCCccCHHHHHhhhhhhhccccCcceeeeecchhhhhhhh
Confidence            899999999999983  4455555555555556678999999999997653

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.62  E-value=1.7e-16  Score=123.53  Aligned_cols=117  Identities=14%  Similarity=0.160  Sum_probs=63.5

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEe--cCCeeEEEEecCCCcccchhhhhHHHHHHHHHHc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICS--GPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAG  193 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~--~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~  193 (254)
                      .||+++|.+|+|||||++++++..+. ....+..+.......+.  +....+.+|||||.  ..+..+       +..++
T Consensus         7 ~Ki~vvG~~~vGKTsLi~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~--e~~~~~-------~~~~~   76 (173)
T d2fu5c1           7 FKLLLIGDSGVGKTCVLFRFSEDAFN-STFISTIGIDFKIRTIELDGKRIKLQIWDTAGQ--ERFRTI-------TTAYY   76 (173)
T ss_dssp             EEEEEECCCCC-----------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC------------------CCTTT
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCC-CccCccccceEEEEEEEECCEEEEEEEEECCCc--hhhHHH-------HHHhc
Confidence            58999999999999999999987753 22222223333333333  34567889999993  222222       33457


Q ss_pred             cCccEEEEEEeCCC--CchhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          194 INADCIVVLVDACK--APERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       194 ~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      +.++++++|+|+++  ++..+..++..+......+.|+++|+||+|+....
T Consensus        77 ~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~D~~~~~  127 (173)
T d2fu5c1          77 RGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKR  127 (173)
T ss_dssp             TTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CCSCC
T ss_pred             cCCCEEEEEEECCChhhHHHHHHHHHHhhhhccCCceEEEEEecccchhhc
Confidence            89999999999988  34566667666665666789999999999998653

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.62  E-value=2.6e-15  Score=116.72  Aligned_cols=115  Identities=20%  Similarity=0.186  Sum_probs=78.1

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCce---EEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTT---RHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRS  191 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt---~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~  191 (254)
                      -.||+++|.+|+|||||++++..+++..  .+..++   ..............+.+|||+|.....         .....
T Consensus         6 ~~KI~vvG~~~vGKSSli~~~~~~~~~~--~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~---------~~~~~   74 (174)
T d1wmsa_           6 LFKVILLGDGGVGKSSLMNRYVTNKFDT--QLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFR---------SLRTP   74 (174)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCC------CCSEEEEEEEEEETTEEEEEEEEECCCCGGGH---------HHHGG
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhCCCCC--ccccceeeeeeeeeeeecCceeeEeeecccCcceeh---------hhhhh
Confidence            3589999999999999999999887642  222222   222222333445678999999943321         23345


Q ss_pred             HccCccEEEEEEeCCC--CchhHHHHHHHhhcc----cCCCCCEEEEEecCCCCC
Q 025346          192 AGINADCIVVLVDACK--APERIDEILEEGVGD----HKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       192 ~~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~----~~~~~piivV~nK~Dl~~  240 (254)
                      .+..++++++++|.++  ++.....|+.++...    ...+.|+++|+||+|+.+
T Consensus        75 ~~~~~~~~i~~~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilVgnK~Dl~~  129 (174)
T d1wmsa_          75 FYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISE  129 (174)
T ss_dssp             GGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCSS
T ss_pred             hhhccceEEEEEeeecccccchhhhHHHHHHHHhccccCCCceEEEeccccchhh
Confidence            5789999999999987  345555665544322    235689999999999865

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.61  E-value=3.5e-15  Score=116.34  Aligned_cols=117  Identities=19%  Similarity=0.206  Sum_probs=81.8

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEE--EEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRI--LGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~--~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      ..||+++|.+|+|||||++++.+.++.. ...+..+....  ....+.....+.+|||||..  .+..+..       .+
T Consensus         7 ~iKi~vvG~~~vGKTsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~--~~~~~~~-------~~   76 (177)
T d1x3sa1           7 TLKILIIGESGVGKSSLLLRFTDDTFDP-ELAATIGVDFKVKTISVDGNKAKLAIWDTAGQE--RFRTLTP-------SY   76 (177)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCT-TCCCCCSEEEEEEEEEETTEEEEEEEEEECSSG--GGCCSHH-------HH
T ss_pred             eeEEEEECCCCcCHHHHHHHHHhCCCCC-ccccceeecceeEEEEEeccccEEEEEECCCch--hhHHHHH-------HH
Confidence            4589999999999999999999887642 22222222222  22334456689999999943  3333322       34


Q ss_pred             ccCccEEEEEEeCCC--CchhHHHHHHHhhccc-CCCCCEEEEEecCCCCCh
Q 025346          193 GINADCIVVLVDACK--APERIDEILEEGVGDH-KDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       193 ~~~~d~iv~vid~~~--~~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~  241 (254)
                      +..+|++++|+|+++  ++.....++.++.+.. ....|+++++||.|....
T Consensus        77 ~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~i~~~~nk~d~~~~  128 (177)
T d1x3sa1          77 YRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKENR  128 (177)
T ss_dssp             HTTCCEEEEEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSSSC
T ss_pred             HhcCCEEEEEEECCCccccccchhhhhhhcccccccceeeEEEeeccccccc
Confidence            789999999999987  3455667776665433 356899999999998654

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor IF2/eIF5b, N-terminal (G) domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=99.61  E-value=3.1e-16  Score=127.52  Aligned_cols=117  Identities=22%  Similarity=0.218  Sum_probs=77.8

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEE------------------EEecCCeeEEEEecCCCcc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILG------------------ICSGPEYQMILYDTPGIIE  175 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~------------------~~~~~~~~~~liDtpG~~~  175 (254)
                      +.|.|+++|.+++|||||+|++++..... .....++......                  .+...+.++.++||||+.+
T Consensus         4 r~p~IaIiGh~d~GKSTL~~~L~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iDtPGh~~   82 (227)
T d1g7sa4           4 RSPIVSVLGHVDHGKTTLLDHIRGSAVAS-REAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHEA   82 (227)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHHHHSC-C----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTSC
T ss_pred             CCCEEEEEeCCCccHHHHHHHHHhhcchh-eecCceeeeccccccccccccccccccccceeecccccccccccccceec
Confidence            34569999999999999999998764331 1111122110000                  1234566899999999644


Q ss_pred             cchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          176 KKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       176 ~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      ....         ....+..+|++|+|+|+.++.+.....+...+.  ..++|+++|+||+|+...+
T Consensus        83 f~~~---------~~~~~~~~D~~ilVvda~~g~~~~~~~~~~~~~--~~~~p~iivlNK~D~~~~~  138 (227)
T d1g7sa4          83 FTTL---------RKRGGALADLAILIVDINEGFKPQTQEALNILR--MYRTPFVVAANKIDRIHGW  138 (227)
T ss_dssp             CTTS---------BCSSSBSCSEEEEEEETTTCCCHHHHHHHHHHH--HTTCCEEEEEECGGGSTTC
T ss_pred             cccc---------chhcccccceEEEEEecccCcccchhHHHHHhh--cCCCeEEEEEECccCCCch
Confidence            3211         123367899999999999987776655555444  2478999999999997643

>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=99.60  E-value=7.8e-16  Score=120.76  Aligned_cols=125  Identities=23%  Similarity=0.260  Sum_probs=81.4

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEe-cCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccC
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICS-GPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGIN  195 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~-~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~  195 (254)
                      .|+++|.+|+|||||+|++++.+.. +.+.+++|.....+... ..+..+.+|||||+........ ... ..+...+..
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~~~~~-~~~~~~~T~~~~~~~~~~~~~~~~~~~DtpG~~~~~~~~~-~~~-~~~l~~~~~   79 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSSAKPK-IADYHFTTLVPNLGMVETDDGRSFVMADLPGLIEGAHQGV-GLG-HQFLRHIER   79 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEECCE-ESSTTSSCCCCCEEEEECSSSCEEEEEEHHHHHHHTTCTT-TTH-HHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHhCCCCc-eecCCCceEeeeeceeEecCCcEEEEecCCCcccCchHHH-HHH-HHHHHHHHH
Confidence            5999999999999999999988765 56666666555554444 3456799999999643221111 111 333445667


Q ss_pred             ccEEEEEEeCCCC--chhHHH-----HHHHhhcccCCCCCEEEEEecCCCCChHhH
Q 025346          196 ADCIVVLVDACKA--PERIDE-----ILEEGVGDHKDKLPILLVLNKKDLIKPGEI  244 (254)
Q Consensus       196 ~d~iv~vid~~~~--~~~~~~-----~~~~~~~~~~~~~piivV~nK~Dl~~~~~~  244 (254)
                      ++.++++++....  ......     ...........++|+++|+||+|+....+.
T Consensus        80 ~~~i~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kp~ivv~NK~Dl~~~~~~  135 (185)
T d1lnza2          80 TRVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEAAEN  135 (185)
T ss_dssp             CCEEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTHHHH
T ss_pred             hhhhhheeeecccccchhhhhhhhhhhccchhhhhccCCcchhhccccchHhHHHH
Confidence            8999999887542  111111     111222222356899999999999977544

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.59  E-value=1.8e-15  Score=118.02  Aligned_cols=109  Identities=14%  Similarity=0.218  Sum_probs=76.2

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEE--EEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILG--ICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~--~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      ..+++++|.+|+|||||++++++.++..   ..+++......  ..++....+.+|||+|....              .+
T Consensus         5 ~~ki~vlG~~~vGKTsLi~~~~~~~f~~---~~~t~~~~~~~~i~v~~~~~~l~i~Dt~g~~~~--------------~~   67 (175)
T d2bmja1           5 ELRLGVLGDARSGKSSLIHRFLTGSYQV---LEKTESEQYKKEMLVDGQTHLVLIREEAGAPDA--------------KF   67 (175)
T ss_dssp             EEEEEEECCTTTTHHHHHHHHHHSCCCC---CCCSSCEEEEEEEEETTEEEEEEEEECSSCCCH--------------HH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCCC---cCCccceeEEEEeecCceEEEEEEeeccccccc--------------cc
Confidence            4689999999999999999999988742   22233222232  33455578999999994321              23


Q ss_pred             ccCccEEEEEEeCCC--CchhHHHHHHHhhc---ccCCCCCEEEEEecCCCCC
Q 025346          193 GINADCIVVLVDACK--APERIDEILEEGVG---DHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       193 ~~~~d~iv~vid~~~--~~~~~~~~~~~~~~---~~~~~~piivV~nK~Dl~~  240 (254)
                      ++.+|++|+|+|+++  +++.+..|...+..   ....++|+++|+||.|+..
T Consensus        68 ~~~ad~~ilVfd~~~~~Sf~~~~~~~~~i~~~~~~~~~~~pi~lV~~k~d~d~  120 (175)
T d2bmja1          68 SGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISA  120 (175)
T ss_dssp             HHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHCC--CCCCEEEEEEECTTCCS
T ss_pred             ccccceeEEEeecccchhhhhhHHHHHHHHHHhhcccCCccEEEEeeecCcch
Confidence            567999999999998  35556555554432   2335689999999988743

>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=99.59  E-value=9.9e-15  Score=115.80  Aligned_cols=119  Identities=18%  Similarity=0.113  Sum_probs=85.3

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCc---------------cccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchh
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQK---------------LSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIH  179 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~---------------~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~  179 (254)
                      ..+|+++|..++|||||++++++..               ........+.|.+.....+.+.+..+.++||||.      
T Consensus         3 ~ini~iiGHvd~GKSTL~~~l~~~~~~~~~~~~~~~~~~~~~~~Er~rgiTi~~~~~~~~~~~~~~~~iDtPGh------   76 (196)
T d1d2ea3           3 HVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYSTAARHYAHTDCPGH------   76 (196)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECEEEEEECSSCEEEEEECSSH------
T ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHHHHcCcchhhhhhhcccchhhcCCCccCCcceEEEEeceeeEEeecCcch------
Confidence            3579999999999999999997420               0001223355666666677788899999999993      


Q ss_pred             hhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          180 MLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       180 ~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                         ..+.....+.+..+|++++|+|+.++..........+.... ...|+|+++||+|+...++
T Consensus        77 ---~~f~~~~~~~~~~aD~allVVda~~G~~~QT~~~~~~a~~~-~~~~iIv~iNK~D~~~~~~  136 (196)
T d1d2ea3          77 ---ADYVKNMITGTAPLDGCILVVAANDGPMPQTREHLLLARQI-GVEHVVVYVNKADAVQDSE  136 (196)
T ss_dssp             ---HHHHHHHHHTSSCCSEEEEEEETTTCSCHHHHHHHHHHHHT-TCCCEEEEEECGGGCSCHH
T ss_pred             ---HHHHHHHHHHHhhcCeEEEEEEcCCCCchhHHHHHHHHHHh-cCCcEEEEEecccccccHH
Confidence               33445566678999999999999998776655444433322 2368999999999986543

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=99.55  E-value=4.9e-14  Score=106.89  Aligned_cols=114  Identities=16%  Similarity=0.160  Sum_probs=80.5

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCc
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINA  196 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~  196 (254)
                      ||+++|++|+|||||++++.+.++...  .+.+..  .....+.....+.+||+||.....         .....+...+
T Consensus         2 kivlvG~~~vGKSsLi~~l~~~~~~~~--~~~~~~--~~~~~~~~~~~~~~~d~~g~~~~~---------~~~~~~~~~~   68 (160)
T d1r8sa_           2 RILMVGLDAAGKTTILYKLKLGEIVTT--IPTIGF--NVETVEYKNISFTVWDVGGQDKIR---------PLWRHYFQNT   68 (160)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHCSSCC--CCCSSC--CEEEEECSSCEEEEEECCCCGGGH---------HHHHHHTTTC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCcc--ccceee--EEEEEeeeeEEEEEecCCCcccch---------hhhhhhhccc
Confidence            799999999999999999998876422  222211  223455678899999999953321         2344568899


Q ss_pred             cEEEEEEeCCCC--chhHHHHHHHhhccc-CCCCCEEEEEecCCCCChHh
Q 025346          197 DCIVVLVDACKA--PERIDEILEEGVGDH-KDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       197 d~iv~vid~~~~--~~~~~~~~~~~~~~~-~~~~piivV~nK~Dl~~~~~  243 (254)
                      +++++++|..+.  ......++.+..... ....|+++|+||+|+.+...
T Consensus        69 ~~~i~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~k~d~~~~~~  118 (160)
T d1r8sa_          69 QGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMN  118 (160)
T ss_dssp             SEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCC
T ss_pred             eeEEEEEEecChHHHHHHHHHHHHHHHhhcccCceEEEEeeccccccccc
Confidence            999999999873  344445555544433 36689999999999986543

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=99.51  E-value=1.1e-13  Score=107.11  Aligned_cols=120  Identities=18%  Similarity=0.203  Sum_probs=80.3

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      .+..+|+++|.+|+|||||++++.+.++.........+..    .....+..+.++|++|.....  .       .+..+
T Consensus        13 ~k~~kI~vvG~~~~GKSsLi~rl~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~d~~~~~~~~--~-------~~~~~   79 (177)
T d1zj6a1          13 HQEHKVIIVGLDNAGKTTILYQFSMNEVVHTSPTIGSNVE----EIVINNTRFLMWDIGGQESLR--S-------SWNTY   79 (177)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHHTTSCEEEECCSCSSCE----EEEETTEEEEEEECCC----C--G-------GGHHH
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHhcCCCCccccccceeEE----EEeecceEEEEeccccccccc--c-------chhhh
Confidence            3457899999999999999999999887654444443322    233457889999999954332  1       12234


Q ss_pred             ccCccEEEEEEeCCCCc--hhHHHHHHH-hhcccCCCCCEEEEEecCCCCChHhHH
Q 025346          193 GINADCIVVLVDACKAP--ERIDEILEE-GVGDHKDKLPILLVLNKKDLIKPGEIA  245 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~~--~~~~~~~~~-~~~~~~~~~piivV~nK~Dl~~~~~~~  245 (254)
                      ...++++++++|.++..  ......... .......+.|+++|+||+|+.......
T Consensus        80 ~~~~~~~i~v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~  135 (177)
T d1zj6a1          80 YTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECMTVA  135 (177)
T ss_dssp             HTTCCEEEEEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCCCHH
T ss_pred             hccceeeeeecccccccchhhhhhhhhhhhhcccccceEEEEEEEcccccccCcHH
Confidence            67899999999998743  222222222 222334679999999999997654433

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=99.51  E-value=6e-14  Score=108.88  Aligned_cols=124  Identities=36%  Similarity=0.610  Sum_probs=89.8

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccC
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGIN  195 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~  195 (254)
                      ..|+++|.+|+|||||+|++++.+...++..+.++..............+..+|++|.......................
T Consensus         6 ~~I~iiG~~nvGKSSLin~L~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (179)
T d1egaa1           6 GFIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEGAYQAIYVDTPGLHMEEKRAINRLMNKAASSSIGD   85 (179)
T ss_dssp             EEEEEECSSSSSHHHHHHHHHTCSEEECCCCSSCCSSCEEEEEEETTEEEEEESSSSCCHHHHHHHHHHHTCCTTSCCCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCceeeccCCCceEEEEEeeeecCCceeEeecCCCceecchhhhhhhhhhccccchhh
Confidence            46899999999999999999999888777777777777777777778888899999965443333222222222223457


Q ss_pred             ccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          196 ADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       196 ~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      +++++++.|..+...........+.   ....|.++|+||+|.+...
T Consensus        86 ~~~~l~~~d~~~~~~~~~~~~~~l~---~~~~~~i~v~~k~d~~~~~  129 (179)
T d1egaa1          86 VELVIFVVEGTRWTPDDEMVLNKLR---EGKAPVILAVNKVDNVQEK  129 (179)
T ss_dssp             EEEEEEEEETTCCCHHHHHHHHHHH---SSSSCEEEEEESTTTCCCH
T ss_pred             cceeEEEEecCccchhHHHHHHHhh---hccCceeeeeeeeeccchh
Confidence            8889999998876555555444433   2457899999999988764

>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=99.49  E-value=8.5e-14  Score=115.54  Aligned_cols=116  Identities=18%  Similarity=0.206  Sum_probs=82.5

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCcc--c---ccc------------CCCCceEEEEEEEEecCCeeEEEEecCCCcccc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKL--S---IVT------------NKPQTTRHRILGICSGPEYQMILYDTPGIIEKK  177 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~--~---~~~------------~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~  177 (254)
                      .++|+++|+.++|||||+.+++...-  .   .+.            ...+.|.......+.+.+.+++++||||+.+..
T Consensus         6 iRni~i~gh~~~GKTtL~e~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~r~~si~~~~~~~~~~~~~~n~iDtPG~~dF~   85 (276)
T d2bv3a2           6 LRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFWKDHRINIIDAPGHVDFT   85 (276)
T ss_dssp             EEEEEEEECTTSCHHHHHHHHHHHHTSSCC-------------------CCCCCCCSEEEEEETTEEEEEECCCSSSSCS
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhcCccccccceecCceEEeccHHHHhcCCccccceeeeccCCeEEEEecCCchhhhH
Confidence            45799999999999999999974211  0   011            111222333345677889999999999987765


Q ss_pred             hhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          178 IHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       178 ~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      .+.         ...+..+|++|+|+|+.++.+.....+.....  ..++|.++++||+|....
T Consensus        86 ~e~---------~~~l~~~D~avlVvda~~Gv~~~T~~~w~~a~--~~~lP~i~fINKmDr~~a  138 (276)
T d2bv3a2          86 IEV---------ERSMRVLDGAIVVFDSSQGVEPQSETVWRQAE--KYKVPRIAFANKMDKTGA  138 (276)
T ss_dssp             TTH---------HHHHHHCCEEEEEEETTTSSCHHHHHHHHHHH--TTTCCEEEEEECTTSTTC
T ss_pred             HHH---------HHHHHhhhheEEeccccCCcchhHHHHHHHHH--HcCCCEEEEEeccccccc
Confidence            333         23467799999999999988766655444444  358999999999999765

>d2qn6a3 c.37.1.8 (A:2-206) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=99.46  E-value=4.6e-13  Score=106.72  Aligned_cols=125  Identities=19%  Similarity=0.245  Sum_probs=76.6

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCC--------CceEEEEEEEE-----------------------ecCC
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKP--------QTTRHRILGIC-----------------------SGPE  162 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~--------~tt~~~~~~~~-----------------------~~~~  162 (254)
                      +..+|+++|..++|||||++++++..........        +.+.. .....                       ....
T Consensus         7 p~ini~iiGhVd~GKSTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (205)
T d2qn6a3           7 PEVNIGVVGHVDHGKTTLVQAITGIWTSKHSEELKRGMTIKLGYAET-NIGVCESCKKPEAYVTEPSCKSCGSDDEPKFL   85 (205)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHSCCC--------------CEEEEE-EEEECTTSCTTTTEESSSCCGGGTCCSCCEEE
T ss_pred             CCeEEEEEEccCCcHHHHHHHHHhhhchhhHHHHHhhcccccchhhh-hhhhhhhhhhhheeeecccceeeeeeccccce
Confidence            3458999999999999999999864221111100        00000 00000                       0012


Q ss_pred             eeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCc-hhHHHHHHHhhcccCCCCCEEEEEecCCCCCh
Q 025346          163 YQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAP-ERIDEILEEGVGDHKDKLPILLVLNKKDLIKP  241 (254)
Q Consensus       163 ~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~-~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~  241 (254)
                      ..+.++||||.         ..+.......+..+|++|+|+|+.++. +........+.... .-.|+++++||+|+.+.
T Consensus        86 r~~~iiD~PGH---------~df~~~~~~~~~~ad~ailvVda~~gi~~~~t~e~~~~~~~~-~i~~iIV~vNK~Dl~~~  155 (205)
T d2qn6a3          86 RRISFIDAPGH---------EVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGII-GVKNLIIVQNKVDVVSK  155 (205)
T ss_dssp             EEEEEEECSCH---------HHHHHHHHHTSSCCSEEEEEEETTSCSSCHHHHHHHHHHHHT-TCCCEEEEEECGGGSCH
T ss_pred             EEEEEeccchH---------HHHHhhhhcceeccccccccccccccccchhHHHHHHHHHHc-CCceeeeccccCCCccc
Confidence            46899999993         334455566688999999999999975 43333333333322 22589999999999988


Q ss_pred             HhHHHHHH
Q 025346          242 GEIAKKLE  249 (254)
Q Consensus       242 ~~~~~~~~  249 (254)
                      ++......
T Consensus       156 ~~~~~~~~  163 (205)
T d2qn6a3         156 EEALSQYR  163 (205)
T ss_dssp             HHHHHHHH
T ss_pred             hHHHHHHH
Confidence            76544433

>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=99.45  E-value=1.4e-13  Score=113.82  Aligned_cols=113  Identities=24%  Similarity=0.168  Sum_probs=80.9

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCcc-----ccccC------------CCCceEEEEEEEEecCCeeEEEEecCCCcccch
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKL-----SIVTN------------KPQTTRHRILGICSGPEYQMILYDTPGIIEKKI  178 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~-----~~~~~------------~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~  178 (254)
                      ++|+++|+.++|||||+.+++...-     ..+..            ..+.|.......+.+.+.+++++||||+.+.. 
T Consensus         3 RNv~iiGh~~~GKTtL~e~ll~~~g~~~~~g~v~~g~~~~D~~~~E~~r~~ti~~~~~~~~~~~~~~n~iDtPGh~dF~-   81 (267)
T d2dy1a2           3 RTVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLFRGHRVFLLDAPGYGDFV-   81 (267)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEETTEEEEEEECCCSGGGH-
T ss_pred             eEEEEEcCCCCcHHHHHHHHHHHcCCchhhccchhccccccchHHHHHhCCeEEeecccccccccceeEEccCchhhhh-
Confidence            4799999999999999999963211     00111            12233444455677889999999999976653 


Q ss_pred             hhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCC
Q 025346          179 HMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLI  239 (254)
Q Consensus       179 ~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~  239 (254)
                              ......+..+|++|+|+|+.++.+...........  ..++|.++++||+|..
T Consensus        82 --------~e~~~al~~~D~avlvvda~~Gv~~~t~~~~~~~~--~~~~p~~i~iNk~D~~  132 (267)
T d2dy1a2          82 --------GEIRGALEAADAALVAVSAEAGVQVGTERAWTVAE--RLGLPRMVVVTKLDKG  132 (267)
T ss_dssp             --------HHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHH--HTTCCEEEEEECGGGC
T ss_pred             --------hhhhhhhcccCceEEEeeccCCccchhHHHHHhhh--hccccccccccccccc
Confidence                    33444577899999999999987666555444444  3478999999999974

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.44  E-value=9.3e-13  Score=99.70  Aligned_cols=115  Identities=20%  Similarity=0.202  Sum_probs=79.6

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccC
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGIN  195 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~  195 (254)
                      .||+++|++|+|||||+|++.+.++..+.+..++    ........+....++|++|....  ..       ....+...
T Consensus         1 ~KI~liG~~nvGKSSLln~l~~~~~~~~~~t~~~----~~~~~~~~~~~~~~~~~~~~~~~--~~-------~~~~~~~~   67 (166)
T d2qtvb1           1 GKLLFLGLDNAGKTTLLHMLKNDRLATLQPTWHP----TSEELAIGNIKFTTFDLGGHIQA--RR-------LWKDYFPE   67 (166)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCSC----EEEEECCTTCCEEEEECCCSGGG--GG-------GGGGGCTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCeeeceeeE----eEEEeccCCeeEEEEeeccchhh--hh-------hHhhhhhh
Confidence            3799999999999999999999887544333333    33345566788999999994332  22       22345788


Q ss_pred             ccEEEEEEeCCCCch--hHHHHHHHhhc-ccCCCCCEEEEEecCCCCChHh
Q 025346          196 ADCIVVLVDACKAPE--RIDEILEEGVG-DHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       196 ~d~iv~vid~~~~~~--~~~~~~~~~~~-~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      ++++++++|.++...  ....++..... ....+.|+++++||.|+.....
T Consensus        68 ~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~i~~~k~d~~~~~~  118 (166)
T d2qtvb1          68 VNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNAVS  118 (166)
T ss_dssp             CSEEEEEEETTCGGGHHHHHHHHHHHHTCTTTTTCCEEEEEECTTSSSCCC
T ss_pred             eeeeeeeccccchhhhhhhhHHHHhhhhhhccCCceEEEEeccccccccCC
Confidence            999999999987432  23333333332 2346789999999999976433

>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=99.42  E-value=1e-13  Score=109.61  Aligned_cols=125  Identities=15%  Similarity=0.161  Sum_probs=76.8

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCcccc--ccCCCCceEEEEEE--EE---------------------ecCCeeEEEEec
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSI--VTNKPQTTRHRILG--IC---------------------SGPEYQMILYDT  170 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~--~~~~~~tt~~~~~~--~~---------------------~~~~~~~~liDt  170 (254)
                      .+|+++|..++|||||++++++.....  .....+.|......  ..                     ......+.++||
T Consensus         6 inIaiiGhvd~GKSTL~~~L~g~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iDt   85 (195)
T d1kk1a3           6 VNIGMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVSFIDA   85 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEEEEEEEC
T ss_pred             EEEEEEeccCCcHHHHHHHHHhhhhhhhHHHHHcCcccccchhhhhhhccchhhhccceeeeeeeeeeecCceeEeeecc
Confidence            478999999999999999998743211  11112222111000  00                     111245899999


Q ss_pred             CCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCc-hhH-HHHHHHhhcccCCCCCEEEEEecCCCCChHhHHHHH
Q 025346          171 PGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAP-ERI-DEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKL  248 (254)
Q Consensus       171 pG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~-~~~-~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~~~  248 (254)
                      ||.         ..+.....+.+..+|++++|+|+..+. ... .+.+ .+.... ...++++++||+|+.+.....+..
T Consensus        86 PGh---------~~f~~~~~~~~~~~d~~ilvvda~~g~~~~~t~e~~-~~~~~~-~~~~iiv~inK~D~~d~~~~~~~~  154 (195)
T d1kk1a3          86 PGH---------EALMTTMLAGASLMDGAILVIAANEPCPRPQTREHL-MALQII-GQKNIIIAQNKIELVDKEKALENY  154 (195)
T ss_dssp             SSH---------HHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHH-HHHHHH-TCCCEEEEEECGGGSCHHHHHHHH
T ss_pred             chh---------hhhhHHhhcccccccccccccchhhhhhhhhhHHHH-HHHHHh-cCccceeeeecccchhhHHHHHHH
Confidence            993         334455556678899999999999864 332 2332 222222 224688999999999887655544


Q ss_pred             HHH
Q 025346          249 EVT  251 (254)
Q Consensus       249 ~~~  251 (254)
                      ..+
T Consensus       155 ~~~  157 (195)
T d1kk1a3         155 RQI  157 (195)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            433

>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=99.40  E-value=1.5e-12  Score=105.02  Aligned_cols=117  Identities=21%  Similarity=0.183  Sum_probs=78.2

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccc----------cccCC----------------------CCceEEEEEEEEecC
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLS----------IVTNK----------------------PQTTRHRILGICSGP  161 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~----------~~~~~----------------------~~tt~~~~~~~~~~~  161 (254)
                      ...+++++|...+|||||+++++...-.          ..+..                      .+.|.......+...
T Consensus         8 ~~~~i~viGHVd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~~d~~~~e~~~g~ti~~~~~~~~~~   87 (222)
T d1zunb3           8 EMLRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAEREQGITIDVAYRYFSTA   87 (222)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHHHTTCC------------------CCC--CHHHHHHHHC-----CCCCCEEEEEECS
T ss_pred             CcceEEEEcCCCCCHHHHHHHHHHHcCCcchHHHHHHHHHHHhcCccccceeeeeccccchhhhccCCCceeeEEEEecc
Confidence            4467999999999999999999632110          00001                      112222223345567


Q ss_pred             CeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCC-EEEEEecCCCCC
Q 025346          162 EYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLP-ILLVLNKKDLIK  240 (254)
Q Consensus       162 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~p-iivV~nK~Dl~~  240 (254)
                      +..+.++||||..+..         ....+.+..+|++++|+|+..+..........+....  ++| +++++||+|+.+
T Consensus        88 ~~~~~iiD~PGH~dfv---------~~~~~g~~~aD~ailVvda~~G~~~Qt~e~~~~~~~~--gv~~iiv~vNK~D~~~  156 (222)
T d1zunb3          88 KRKFIIADTPGHEQYT---------RNMATGASTCDLAIILVDARYGVQTQTRRHSYIASLL--GIKHIVVAINKMDLNG  156 (222)
T ss_dssp             SEEEEEEECCCSGGGH---------HHHHHHHTTCSEEEEEEETTTCSCHHHHHHHHHHHHT--TCCEEEEEEECTTTTT
T ss_pred             ceEEEEEeccchhhhh---------hhhccccccCceEEEEeccccCcccchHHHHHHHHHc--CCCEEEEEEEcccccc
Confidence            7899999999965442         3444557899999999999998776655544444433  444 899999999986


Q ss_pred             h
Q 025346          241 P  241 (254)
Q Consensus       241 ~  241 (254)
                      .
T Consensus       157 ~  157 (222)
T d1zunb3         157 F  157 (222)
T ss_dssp             S
T ss_pred             c
Confidence            3

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.39  E-value=1.8e-13  Score=110.41  Aligned_cols=112  Identities=17%  Similarity=0.214  Sum_probs=78.0

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      ..||+++|..|+|||||++++...++.     |  |.......++.++..+.+||++|.....         ..+..++.
T Consensus         6 ~~KilllG~~~vGKTsll~~~~~~~~~-----p--TiG~~~~~~~~~~~~~~~~D~~Gq~~~r---------~~w~~~~~   69 (221)
T d1azta2           6 THRLLLLGAGESGKSTIVKQMRILHVV-----L--TSGIFETKFQVDKVNFHMFDVGGQRDER---------RKWIQCFN   69 (221)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHHHHCC-----C--CCSCEEEEEEETTEEEEEEECCCSTTTT---------TGGGGGCT
T ss_pred             cCEEEEECCCCCCHHHHHHHHhcCCcC-----C--CCCeEEEEEEECcEEEEEEecCccceec---------cchhhhcc
Confidence            468999999999999999999754331     1  2222334456778999999999953322         33456689


Q ss_pred             CccEEEEEEeCCCC---------c---hhHHHHHHHhhcc-cCCCCCEEEEEecCCCCChH
Q 025346          195 NADCIVVLVDACKA---------P---ERIDEILEEGVGD-HKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       195 ~~d~iv~vid~~~~---------~---~~~~~~~~~~~~~-~~~~~piivV~nK~Dl~~~~  242 (254)
                      .++++++++|.++.         .   .+....+..++.. ...++|++|++||+|+....
T Consensus        70 ~~~~ii~v~d~s~~~~~~~~~~~~~r~~e~~~~~~~il~~~~~~~~~iil~~NK~Dl~~~k  130 (221)
T d1azta2          70 DVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLLAEK  130 (221)
T ss_dssp             TCSEEEEEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECHHHHHHH
T ss_pred             cccceEEEEEccccccccccccchHHHHHHHHHHHHHhcChhhCCCcEEEEechhhhhhhh
Confidence            99999999999752         1   1222334444433 33679999999999997654

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.39  E-value=4.7e-13  Score=105.44  Aligned_cols=111  Identities=23%  Similarity=0.193  Sum_probs=75.1

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      ..||+++|.+|+|||||++++.   +  ...+.+ |.......++.....+.+||++|....         ...+..++.
T Consensus         2 ~iKivllG~~~vGKTsll~r~~---f--~~~~~p-TiG~~~~~~~~~~~~~~~~D~~gq~~~---------~~~~~~~~~   66 (200)
T d1zcba2           2 LVKILLLGAGESGKSTFLKQMR---I--IHGQDP-TKGIHEYDFEIKNVPFKMVDVGGQRSE---------RKRWFECFD   66 (200)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHH---H--HHSCCC-CSSEEEEEEEETTEEEEEEEECC----------------CTTSCT
T ss_pred             eEEEEEECCCCCCHHHHHHHHh---c--CCCCCC-eeeeEEEEEeeeeeeeeeecccceeee---------ccccccccc
Confidence            4589999999999999999993   2  222223 333444557778899999999994322         133445688


Q ss_pred             CccEEEEEEeCCCCc------------hhHHHHHHHhhcc-cCCCCCEEEEEecCCCCC
Q 025346          195 NADCIVVLVDACKAP------------ERIDEILEEGVGD-HKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       195 ~~d~iv~vid~~~~~------------~~~~~~~~~~~~~-~~~~~piivV~nK~Dl~~  240 (254)
                      .++++++++|.++..            .....++..++.. ...+.|+++|+||+|+..
T Consensus        67 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~  125 (200)
T d1zcba2          67 SVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTDLLE  125 (200)
T ss_dssp             TCCEEEEEEETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHH
T ss_pred             ccceeEEEEEcCCcceeeeecccchhhhHHHHHHHHHhhChhhcCceEEEEeccchhhh
Confidence            999999999998631            2223334444433 346899999999999853

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.38  E-value=3.3e-13  Score=118.16  Aligned_cols=116  Identities=20%  Similarity=0.169  Sum_probs=71.5

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCcccc----ccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSI----VTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVR  190 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~----~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~  190 (254)
                      +.+|+++|.+|+|||||+|.++|.....    .....+||....... ......+.+|||||+....... +... .  .
T Consensus        56 ~l~Iai~G~~n~GKSSLiNaL~G~~~~~~~~~~~g~~~tT~~~~~~~-~~~~~~~~l~DtPG~~~~~~~~-~~~~-~--~  130 (400)
T d1tq4a_          56 VLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYK-HPNIPNVVFWDLPGIGSTNFPP-DTYL-E--K  130 (400)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHTCCTTSTTSCCCCC----CCCEEEE-CSSCTTEEEEECCCGGGSSCCH-HHHH-H--H
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCcCCCccCCCCCCCCceeeeeee-ccCCCeEEEEeCCCcccccccH-HHHH-H--H
Confidence            4689999999999999999999854321    223344565544322 3345568999999986554322 2221 1  1


Q ss_pred             HHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCC
Q 025346          191 SAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLI  239 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~  239 (254)
                      .....+|+++++.|..  +...+..+...+.  ..+.|+++|+||+|..
T Consensus       131 ~~~~~~d~~l~~~~~~--~~~~d~~l~~~l~--~~~k~~~~V~nK~D~~  175 (400)
T d1tq4a_         131 MKFYEYDFFIIISATR--FKKNDIDIAKAIS--MMKKEFYFVRTKVDSD  175 (400)
T ss_dssp             TTGGGCSEEEEEESSC--CCHHHHHHHHHHH--HTTCEEEEEECCHHHH
T ss_pred             hhhhcceEEEEecCCC--CCHHHHHHHHHHH--HcCCCEEEEEeCcccc
Confidence            2256788888877643  3333333333333  2468999999999964

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=99.38  E-value=2.4e-12  Score=97.99  Aligned_cols=117  Identities=17%  Similarity=0.203  Sum_probs=80.4

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      ..+|+++|.+|+|||||++++.+.++..+.  +  |...........+..+.++|++|.....  .       .......
T Consensus         5 e~kI~ivG~~~vGKSSLi~~~~~~~~~~~~--~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~-------~~~~~~~   71 (169)
T d1upta_           5 EMRILILGLDGAGKTTILYRLQVGEVVTTI--P--TIGFNVETVTYKNLKFQVWDLGGLTSIR--P-------YWRCYYS   71 (169)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHSSCCCCC--C--CSSEEEEEEEETTEEEEEEEECCCGGGG--G-------GGGGGCT
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCCCCccee--c--ccceeeeeeccCceEEEEeecccccccc--c-------cchhhhh
Confidence            468999999999999999999998875322  2  2223334455678899999999954332  1       1224477


Q ss_pred             CccEEEEEEeCCCC--chhHHHHHHHhh-cccCCCCCEEEEEecCCCCChHhH
Q 025346          195 NADCIVVLVDACKA--PERIDEILEEGV-GDHKDKLPILLVLNKKDLIKPGEI  244 (254)
Q Consensus       195 ~~d~iv~vid~~~~--~~~~~~~~~~~~-~~~~~~~piivV~nK~Dl~~~~~~  244 (254)
                      ..+++++++|..+.  .......+.... .......|+++|+||.|+......
T Consensus        72 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iv~nk~Dl~~~~~~  124 (169)
T d1upta_          72 NTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMTS  124 (169)
T ss_dssp             TCSEEEEEEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCH
T ss_pred             hhhhhhhhhhhhhcchhhhccchhhhhhhhhccccceEEEEEeeccccccccH
Confidence            89999999998763  333333333333 233467899999999999876443

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.37  E-value=5.1e-13  Score=104.55  Aligned_cols=107  Identities=20%  Similarity=0.159  Sum_probs=75.2

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccC
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGIN  195 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~  195 (254)
                      .||+++|..|+|||||++++...+++      ++.  .....++.....+.+|||+|.  ..+..+       +..++..
T Consensus         3 ~KivllG~~~vGKTsl~~r~~~~~~~------t~~--~~~~~~~~~~~~~~i~D~~Gq--~~~~~~-------~~~~~~~   65 (195)
T d1svsa1           3 VKLLLLGAGESGKSTIVKQMKIIHEA------GTG--IVETHFTFKDLHFKMFDVGGQ--RSERKK-------WIHCFEG   65 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHSC------CCS--EEEEEEEETTEEEEEEEECCS--GGGGGG-------GGGGCTT
T ss_pred             eEEEEECCCCCCHHHHHHHHhhCCCC------Ccc--EEEEEEEeeeeeeeeeccccc--cccccc-------hhhcccC
Confidence            58999999999999999999865543      111  223456777899999999994  333333       3456899


Q ss_pred             ccEEEEEEeCCCCc------------hhHHHHHHHh-hcccCCCCCEEEEEecCCCC
Q 025346          196 ADCIVVLVDACKAP------------ERIDEILEEG-VGDHKDKLPILLVLNKKDLI  239 (254)
Q Consensus       196 ~d~iv~vid~~~~~------------~~~~~~~~~~-~~~~~~~~piivV~nK~Dl~  239 (254)
                      ++++++|+|.++..            .+....+..+ ......+.|+++|+||+|+.
T Consensus        66 ~~~~i~v~d~~~~~~~~~~~~~~~~~~e~~~~~~~i~~~~~~~~~~~~lv~Nk~d~~  122 (195)
T d1svsa1          66 VTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKDLF  122 (195)
T ss_dssp             CSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHH
T ss_pred             CceeeeEEeecccchHHHHhhhhHHHHHHHHHHHHHhcccccCCCCEEEEeccchhh
Confidence            99999999986521            1122233333 33345778999999999974

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=99.35  E-value=5.3e-12  Score=97.80  Aligned_cols=138  Identities=21%  Similarity=0.204  Sum_probs=75.1

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhh--hHHHHHH
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHML--DSMMMKN  188 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~--~~~~~~~  188 (254)
                      |....++|+++|.+|+|||||+|++++.+........+++...........+......++++.........  .......
T Consensus        12 p~~~~~~I~lvG~~NvGKSSL~n~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (188)
T d1puia_          12 PSDTGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVADGKRLVDLPGYGYAEVPEEMKRKWQRALGE   91 (188)
T ss_dssp             SCSCSEEEEEEECTTSSHHHHHTTTCCC-------------CCEEEEEEETTEEEEECCCCC------CCHHHHHHHHHH
T ss_pred             CCccCCEEEEECCCCCCHHHHHHHHhCCCceEeecccccceeeccceecccccceeeeecccccchhhhhhhhhhhhhhh
Confidence            56678899999999999999999999987665555555554444444444454444445444322211111  1112222


Q ss_pred             HHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHHHHHH
Q 025346          189 VRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLEV  250 (254)
Q Consensus       189 ~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~~~~~  250 (254)
                      ..........++.+.+.................  ....++++++||+|+..........+.
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~v~~k~D~~~~~~~~~~~~~  151 (188)
T d1puia_          92 YLEKRQSLQGLVVLMDIRHPLKDLDQQMIEWAV--DSNIAVLVLLTKADKLASGARKAQLNM  151 (188)
T ss_dssp             HHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHH--HTTCCEEEEEECGGGSCHHHHHHHHHH
T ss_pred             hhhhhhheeEEEEeecccccchhHHHHHHHHhh--hccccccchhhhhhccCHHHHHHHHHH
Confidence            333355666777777777755444333333222  246789999999999998766554433

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.33  E-value=1.1e-12  Score=103.07  Aligned_cols=112  Identities=23%  Similarity=0.124  Sum_probs=77.8

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHcc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI  194 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  194 (254)
                      ..||+++|.+|+|||||++++....+.   ..|  |.......+......+.+||++|....  .       ..+..++.
T Consensus         2 e~Kiv~lG~~~vGKTsll~r~~~~~~~---~~p--TiG~~~~~~~~~~~~~~~~d~~g~~~~--~-------~~~~~~~~   67 (200)
T d2bcjq2           2 ELKLLLLGTGESGKSTFIKQMRIIHGS---GVP--TTGIIEYPFDLQSVIFRMVDVGGQRSE--R-------RKWIHCFE   67 (200)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHHTSS---CCC--CCSCEEEEEECSSCEEEEEECCCSTTG--G-------GGGGGGCS
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCCCC---CCc--eeeEEEEEEeccceeeeeccccccccc--c-------cccccccc
Confidence            358999999999999999999876653   222  222233455677889999999994332  2       22345689


Q ss_pred             CccEEEEEEeCCCCc-------------hhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          195 NADCIVVLVDACKAP-------------ERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       195 ~~d~iv~vid~~~~~-------------~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      .++++++++|.++..             +....|...+......+.|+++|+||+|+..
T Consensus        68 ~~~~~i~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~~v~NK~Dl~~  126 (200)
T d2bcjq2          68 NVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDLLE  126 (200)
T ss_dssp             SCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHHCGGGSSSEEEEEEECHHHHH
T ss_pred             ccceeeEeeeccchhhhhhhhccccchHHHHHHHHHHHhhhhccCccEEEecchhhhhh
Confidence            999999999987621             1222333333344457899999999999854

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=99.32  E-value=7.9e-12  Score=96.53  Aligned_cols=118  Identities=23%  Similarity=0.239  Sum_probs=74.2

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccchhhhhHHHHHHHHHH
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSA  192 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~  192 (254)
                      .+..||+++|.+|+|||||++++.+..+....+..+.+..    .....+....++|++|.....         ......
T Consensus        11 ~k~~kI~lvG~~~vGKTsLl~~l~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~---------~~~~~~   77 (186)
T d1f6ba_          11 KKTGKLVFLGLDNAGKTTLLHMLKDDRLGQHVPTLHPTSE----ELTIAGMTFTTFDLGGHIQAR---------RVWKNY   77 (186)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHHSCC------CCCCCSCE----EEEETTEEEEEEEECC----C---------CGGGGG
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCcceeccccccee----EEEecccccccccccchhhhh---------hHHhhh
Confidence            4567999999999999999999999887543333333322    233456778899999854332         112245


Q ss_pred             ccCccEEEEEEeCCCCc--hhHHHHH-HHhhcccCCCCCEEEEEecCCCCChHh
Q 025346          193 GINADCIVVLVDACKAP--ERIDEIL-EEGVGDHKDKLPILLVLNKKDLIKPGE  243 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~~--~~~~~~~-~~~~~~~~~~~piivV~nK~Dl~~~~~  243 (254)
                      ....+++++++|.++..  ......+ .........+.|+++++||.|+.....
T Consensus        78 ~~~~~~~~~~~d~~d~~~~~~~~~~~~~~~~~~~~~~~~~li~~~K~D~~~~~~  131 (186)
T d1f6ba_          78 LPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPEAIS  131 (186)
T ss_dssp             GGGCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTTCCC
T ss_pred             hcccceeeeeeeccCccchHHHHHHHHHhhcccccCCCceEEEEeccCccccCC
Confidence            77899999999998732  2222222 222223346799999999999976433

>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=99.27  E-value=2.3e-12  Score=104.97  Aligned_cols=114  Identities=23%  Similarity=0.241  Sum_probs=76.7

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCcc------------------------------ccccCCCCceEEEEEEEEecCCeeE
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKL------------------------------SIVTNKPQTTRHRILGICSGPEYQM  165 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~------------------------------~~~~~~~~tt~~~~~~~~~~~~~~~  165 (254)
                      .+|+++|+.++|||||+.+++...-                              .......+.|.+.....+.+.+.++
T Consensus         7 iNi~iiGHvD~GKsTl~~~ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~~~~~i   86 (239)
T d1f60a3           7 INVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIALWKFETPKYQV   86 (239)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTCCCSCSCEEEECSSEEE
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHHhcCCccceeeecccchhhhcceeccccceeEeccCCEEE
Confidence            5899999999999999999963100                              0011223445444455667888999


Q ss_pred             EEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCc-------h-hHHHHHHHhhcccCCCCC-EEEEEecC
Q 025346          166 ILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAP-------E-RIDEILEEGVGDHKDKLP-ILLVLNKK  236 (254)
Q Consensus       166 ~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~-------~-~~~~~~~~~~~~~~~~~p-iivV~nK~  236 (254)
                      .++||||..+..         ....+.+..+|++|+|+|+..+.       . ...+.+ .+..  ..++| +++++||+
T Consensus        87 ~iiDtPGH~df~---------~~~~~g~~~~D~ailvvda~~G~~e~g~~~~~QT~eh~-~~~~--~~gv~~iiv~iNKm  154 (239)
T d1f60a3          87 TVIDAPGHRDFI---------KNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHA-LLAF--TLGVRQLIVAVNKM  154 (239)
T ss_dssp             EEEECCCCTTHH---------HHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHH-HHHH--HTTCCEEEEEEECG
T ss_pred             EEEECCCcHHHH---------HHHHHHHHHhCEEEEEEECCCCccccccCchHhHHHHH-HHHH--HcCCCeEEEEEECC
Confidence            999999965442         44556688999999999998742       1 122222 2222  12454 88999999


Q ss_pred             CCCCh
Q 025346          237 DLIKP  241 (254)
Q Consensus       237 Dl~~~  241 (254)
                      |+.+.
T Consensus       155 D~~~~  159 (239)
T d1f60a3         155 DSVKW  159 (239)
T ss_dssp             GGGTT
T ss_pred             CCCCC
Confidence            99764

>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=99.27  E-value=5.8e-12  Score=101.59  Aligned_cols=116  Identities=22%  Similarity=0.251  Sum_probs=72.6

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCc------------------------------cccccCCCCceEEEEEEEEecCCee
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQK------------------------------LSIVTNKPQTTRHRILGICSGPEYQ  164 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~------------------------------~~~~~~~~~tt~~~~~~~~~~~~~~  164 (254)
                      ..+|+++|..++|||||+.+++...                              ........+.|.......+.+.+..
T Consensus         3 ~iNi~viGHVd~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~ti~~~~~~~~~~~~~   82 (224)
T d1jnya3           3 HLNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERERGVTINLTFMRFETKKYF   82 (224)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC-----------CEEECSSCE
T ss_pred             ccEEEEEecCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCcccccccccccCchhhhcCCccccceEEEEecCCce
Confidence            3579999999999999999886310                              0001223344444445566778899


Q ss_pred             EEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchh--------HHHHHHHhhcccCCCCCEEEEEecC
Q 025346          165 MILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPER--------IDEILEEGVGDHKDKLPILLVLNKK  236 (254)
Q Consensus       165 ~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~--------~~~~~~~~~~~~~~~~piivV~nK~  236 (254)
                      +.++||||..+.         .....+.+..+|++|+|+|+.++...        ..+.+. +.... ...++++++||+
T Consensus        83 i~iiDtPGH~df---------~~~~~~g~~~~D~allVVda~~G~~~~t~~~~~qt~e~l~-~~~~~-~~~~iIv~iNK~  151 (224)
T d1jnya3          83 FTIIDAPGHRDF---------VKNMITGASQADAAILVVSAKKGEYEAGMSVEGQTREHII-LAKTM-GLDQLIVAVNKM  151 (224)
T ss_dssp             EEECCCSSSTTH---------HHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHHH-HHHHT-TCTTCEEEEECG
T ss_pred             eEEeeCCCcHHH---------HHHHHHHHHhhceEEEEEecccCcccccccccchhHHHHH-HHHHh-CCCceEEEEEcc
Confidence            999999996443         24455668899999999999986422        212211 11111 234689999999


Q ss_pred             CCCCh
Q 025346          237 DLIKP  241 (254)
Q Consensus       237 Dl~~~  241 (254)
                      |+..+
T Consensus       152 D~~~~  156 (224)
T d1jnya3         152 DLTEP  156 (224)
T ss_dssp             GGSSS
T ss_pred             cCCCc
Confidence            99753

>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=99.24  E-value=3.7e-12  Score=108.65  Aligned_cols=114  Identities=21%  Similarity=0.235  Sum_probs=73.8

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccc---------------cCCCCceEEEEEEEE----------------ecCCe
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIV---------------TNKPQTTRHRILGIC----------------SGPEY  163 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~---------------~~~~~tt~~~~~~~~----------------~~~~~  163 (254)
                      .++|+++|+.++|||||+.+++...-...               ....+.|.......+                .+...
T Consensus        17 IRNI~iiGhvd~GKTTL~d~Ll~~~g~i~~~~~~~~~~~D~~~~E~eRgiTi~~~~~~l~~~~~~~~~~~~~~~~~~~~~   96 (341)
T d1n0ua2          17 VRNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGNSF   96 (341)
T ss_dssp             EEEEEEECCGGGTHHHHHHHHHHHHBCCBC------------------CCCBCCCEEEEEEECCHHHHHHCSSCCCSSEE
T ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHCCCccccccccccccccchhHHhcCceEeCCEEEEEeccCcccccchhccccccce
Confidence            45799999999999999999973211000               000111211111111                12345


Q ss_pred             eEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCC
Q 025346          164 QMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLI  239 (254)
Q Consensus       164 ~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~  239 (254)
                      .+.++||||+.+..         ......++.+|++++|+|+.++.......+.....  ..+.|+++|+||+|..
T Consensus        97 ~inliDtPGh~dF~---------~ev~~al~~~D~allVVda~eGv~~qT~~~~~~a~--~~~~p~i~viNKiDr~  161 (341)
T d1n0ua2          97 LINLIDSPGHVDFS---------SEVTAALRVTDGALVVVDTIEGVCVQTETVLRQAL--GERIKPVVVINKVDRA  161 (341)
T ss_dssp             EEEEECCCCCCSSC---------HHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHH--HTTCEEEEEEECHHHH
T ss_pred             EEEEEcCCCcHHHH---------HHHHHHHhhcCceEEEEecccCcchhHHHHHHHHH--HcCCCeEEEEECcccc
Confidence            69999999977664         33344567899999999999987665544433332  3478999999999974

>d2akab1 c.37.1.8 (B:6-304) Dynamin G domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Dynamin G domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.21  E-value=7.6e-11  Score=98.69  Aligned_cols=126  Identities=20%  Similarity=0.268  Sum_probs=76.0

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEE-----------------------------------
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGIC-----------------------------------  158 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~-----------------------------------  158 (254)
                      ..|+|+++|..++|||||+|.+++.++...+..+.|.......+.                                   
T Consensus        25 ~~P~ivvvG~~SsGKSsliNaLlg~~~lP~~~~~~T~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  104 (299)
T d2akab1          25 DLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETDRVT  104 (299)
T ss_dssp             CCCEEEEEEBTTSCHHHHHHHHHTSCCSCCCSSCSCSSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHHHC
T ss_pred             CCCeEEEEcCCCCCHHHHHHHHhCCCcCCCCCCccccCCEEEEEeccccceeEEEeCCCCeeCCHHHHHHHHHHHHHHhh
Confidence            456899999999999999999999886544444433211111100                                   


Q ss_pred             ---------------e-cCCeeEEEEecCCCcccch----hhhhHHHHHHHHHHccCccE-EEEEEeCCCCchhH--HHH
Q 025346          159 ---------------S-GPEYQMILYDTPGIIEKKI----HMLDSMMMKNVRSAGINADC-IVVLVDACKAPERI--DEI  215 (254)
Q Consensus       159 ---------------~-~~~~~~~liDtpG~~~~~~----~~~~~~~~~~~~~~~~~~d~-iv~vid~~~~~~~~--~~~  215 (254)
                                     . .....+.++||||+.....    .............++...+. +++|.++.......  ..+
T Consensus       105 ~~~~~~~~~~i~l~~~~p~~~~l~liD~PG~~~~~~~~~~~~~~~~i~~~~~~y~~~~~~~il~v~~a~~~~~~~~~~~~  184 (299)
T d2akab1         105 GTNKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKI  184 (299)
T ss_dssp             SSTTCCCSCCEEEEEEETTCCSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHHH
T ss_pred             CCCcCcCCccEEEEEcCCCCCCeeEEccCCccccccCCcchhHHHHHHHHHHHHhcCccceeeeecccccchhhhHHHHH
Confidence                           0 0113589999999875432    11222233445666666665 55666666544332  222


Q ss_pred             HHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          216 LEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       216 ~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      ... +.  ....++++|+||+|+..+.
T Consensus       185 ~~~-~~--~~~~r~i~Vltk~D~~~~~  208 (299)
T d2akab1         185 AKE-VD--PQGQRTIGVITKLDLMDEG  208 (299)
T ss_dssp             HHH-HC--TTCSSEEEEEECGGGSCTT
T ss_pred             HHH-hC--cCCCceeeEEeccccccch
Confidence            222 22  3446899999999998764

>d1jwyb_ c.37.1.8 (B:) Dynamin G domain {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Dynamin G domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=99.18  E-value=9e-11  Score=98.63  Aligned_cols=127  Identities=21%  Similarity=0.253  Sum_probs=72.1

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEE-----------------------------------
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGI-----------------------------------  157 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~-----------------------------------  157 (254)
                      ...|+++++|..++|||||+|.++|.++..++..+.|.......+                                   
T Consensus        22 ~~lP~ivVvG~~ssGKSSliNaLlG~~~lP~~~~~~T~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  101 (306)
T d1jwyb_          22 LDLPQIVVVGSQSSGKSSVLENIVGRDFLPRGSGIVTRRPLILQLTHLPIADDGSQTQEWGEFLHKPNDMFYDFSEIREE  101 (306)
T ss_dssp             TCCCEEEEEECSSSSHHHHHHHHHTSCCCCC--------CEEEEEEECCCCTTSCCCCCEEEESSSTTCCBCCTHHHHHH
T ss_pred             CCCCeEEEEeCCCCCHHHHHHHHhCCCCCCCCCCccccCCEEEEEecCCcccCccchhhhhHHhhcCCceecCHHHHHHH
Confidence            335689999999999999999999988653443332211111100                                   


Q ss_pred             -----------------------E-ecCCeeEEEEecCCCcccchh----hhhHHHHHHHHHHccCccEEEEEE-eCCCC
Q 025346          158 -----------------------C-SGPEYQMILYDTPGIIEKKIH----MLDSMMMKNVRSAGINADCIVVLV-DACKA  208 (254)
Q Consensus       158 -----------------------~-~~~~~~~~liDtpG~~~~~~~----~~~~~~~~~~~~~~~~~d~iv~vi-d~~~~  208 (254)
                                             . ......+.++||||+......    .........+..|+..++.+++++ ++...
T Consensus       102 i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~iiDtPG~~~~~~~~~~~~~~~~~~~~~~~yi~~~~~~il~v~~~~~~  181 (306)
T d1jwyb_         102 IIRDTDRMTGKNKGISAQPINLKIYSPHVVNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTD  181 (306)
T ss_dssp             HHHHCC--------CCCCCEEEEEEETTSCSEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSC
T ss_pred             HHHHHHHhcCCCCcccccceEEEecCCCCCCceEecCCCccccccCCcchhHHHHHHHHHHHHHhCCCceeEEeeccccc
Confidence                                   0 001246889999998753321    122233355667788888755554 55443


Q ss_pred             c--hhHHHHHHHhhcccCCCCCEEEEEecCCCCChH
Q 025346          209 P--ERIDEILEEGVGDHKDKLPILLVLNKKDLIKPG  242 (254)
Q Consensus       209 ~--~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~  242 (254)
                      .  .....+...+ .  ....++++|+||+|.....
T Consensus       182 ~~~~~~~~~~~~~-~--~~~~r~i~Vitk~D~~~~~  214 (306)
T d1jwyb_         182 LANSDALQLAKEV-D--PEGKRTIGVITKLDLMDKG  214 (306)
T ss_dssp             STTCSHHHHHHHH-C--SSCSSEEEEEECTTSSCSS
T ss_pred             ccccHHHHHHHHh-C--cCCCeEEEEEeccccccch
Confidence            2  2222333332 2  3456899999999997653

>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=99.15  E-value=6.1e-11  Score=96.77  Aligned_cols=114  Identities=18%  Similarity=0.158  Sum_probs=64.6

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccc------------------------------cccCCCCceEEEEEEEEecCCee
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLS------------------------------IVTNKPQTTRHRILGICSGPEYQ  164 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~------------------------------~~~~~~~tt~~~~~~~~~~~~~~  164 (254)
                      ..+|+++|+.++|||||+.+++...-.                              ......+.+.........+....
T Consensus        24 ~iNi~iiGHVD~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~ti~~~~~~~~~~~~~  103 (245)
T d1r5ba3          24 HVNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEEREKGKTVEVGRAYFETEHRR  103 (245)
T ss_dssp             EEEEEEEECGGGTHHHHHHHHHHHTTSSCHHHHHHHHHHTCC----------------------------CCEEECSSEE
T ss_pred             ceEEEEEeeCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCCccchhhhhhhccccccccCccccccccccccccce
Confidence            347999999999999999999531100                              00111122222223345567789


Q ss_pred             EEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCch--------hHHHHHHHhhcccCCCC-CEEEEEec
Q 025346          165 MILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPE--------RIDEILEEGVGDHKDKL-PILLVLNK  235 (254)
Q Consensus       165 ~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~--------~~~~~~~~~~~~~~~~~-piivV~nK  235 (254)
                      +.++||||..+.         .....+....+|++++|+|+.++..        ...+.+. +...  .++ ++++++||
T Consensus       104 i~~iDtPGH~df---------~~~~~~g~~~aD~ailVVda~~G~~~~~~~~~~QT~e~l~-l~~~--~~i~~iiv~iNK  171 (245)
T d1r5ba3         104 FSLLDAPGHKGY---------VTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAV-LART--QGINHLVVVINK  171 (245)
T ss_dssp             EEECCCCC--------------------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHH-HHHH--TTCSSEEEEEEC
T ss_pred             eeeecccccccc---------hhhhhhhhhhhcceeeEEEcCCCccCCccccccchHHHHH-HHHH--cCCCeEEEEEEc
Confidence            999999995443         2444455789999999999987532        1222222 2221  234 58899999


Q ss_pred             CCCCC
Q 025346          236 KDLIK  240 (254)
Q Consensus       236 ~Dl~~  240 (254)
                      +|+..
T Consensus       172 mD~~~  176 (245)
T d1r5ba3         172 MDEPS  176 (245)
T ss_dssp             TTSTT
T ss_pred             CCCCc
Confidence            99964

>d1wxqa1 c.37.1.8 (A:1-319) GTP-binding protein PH0525 {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein PH0525
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=99.11  E-value=2.4e-11  Score=102.85  Aligned_cols=88  Identities=24%  Similarity=0.272  Sum_probs=47.0

Q ss_pred             EEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEe------------------------cCCeeEEEEecCC
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICS------------------------GPEYQMILYDTPG  172 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~------------------------~~~~~~~liDtpG  172 (254)
                      +|+++|.|++|||||+|.+.+.+.. ++++|+||.++..+...                        ....++.++|+||
T Consensus         2 ~v~lvG~pn~GKStlfn~lt~~~~~-v~nypftT~~pn~Gv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~D~pG   80 (319)
T d1wxqa1           2 EIGVVGKPNVGKSTFFSAATLVDVE-IANYPFTTIEANVGVTYAITDHPCKELGCSPNPQNYEYRNGLALIPVKMVDVAG   80 (319)
T ss_dssp             EEEEEECTTSSHHHHHHHHHC---------------CCEEEEEEEEECSCSSSCCSCCCSSSCEETTEEEEEEEEEECC-
T ss_pred             cEeEECCCCCCHHHHHHHHHCCCCc-hhcCCCCcccCccceeeCCCCchhhhhhhccCccccccccccccccEEEEECCC
Confidence            6999999999999999999998764 89999999876554321                        1124699999999


Q ss_pred             CcccchhhhhHHHHHHHHHHccCccEEEEEEeCCC
Q 025346          173 IIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACK  207 (254)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~  207 (254)
                      +......  ......++...++.+|++++|+|+..
T Consensus        81 li~ga~~--g~~~~~~~l~~i~~~d~ii~VVd~~~  113 (319)
T d1wxqa1          81 LVPGAHE--GRGLGNKFLDDLRMASALIHVVDATG  113 (319)
T ss_dssp             ----------------CCCSSTTCSEEEEEEETTC
T ss_pred             cccchhc--ccchHHHHHHhhccceEEEEEecccc
Confidence            8654322  12222444455789999999999863

>d1ni3a1 c.37.1.8 (A:11-306) YchF GTP-binding protein N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=99.03  E-value=1.5e-10  Score=96.93  Aligned_cols=92  Identities=22%  Similarity=0.220  Sum_probs=70.0

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCC-----------------eeEEEEecCCCccc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPE-----------------YQMILYDTPGIIEK  176 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~-----------------~~~~liDtpG~~~~  176 (254)
                      ...+++++|.|++|||||+|.+++...+.++++|+||.++..+.+..++                 ..+.++|.||+...
T Consensus         9 ~~~kiGivG~Pn~GKSTlfnalT~~~~~~~anypftTi~pn~g~v~v~d~r~~~l~~~~~~~~~~~~~i~~~DvaGLv~g   88 (296)
T d1ni3a1           9 NNLKTGIVGMPNVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGLTKG   88 (296)
T ss_dssp             SCCEEEEEECSSSSHHHHHHHHHHSTTTSTTCCSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGGCCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHCCCCCCcCCCCccCccCCeEEEeccccchhhhhhcccCCceecccceeeeccccccc
Confidence            3468999999999999999999987766689999999877666654332                 46899999998765


Q ss_pred             chhhhhHHHHHHHHHHccCccEEEEEEeCCC
Q 025346          177 KIHMLDSMMMKNVRSAGINADCIVVLVDACK  207 (254)
Q Consensus       177 ~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~  207 (254)
                      ..+..  ....++...++.+|++++|+|+..
T Consensus        89 A~~g~--GLGn~fL~~ir~~d~lihVV~~f~  117 (296)
T d1ni3a1          89 ASTGV--GLGNAFLSHVRAVDAIYQVVRAFD  117 (296)
T ss_dssp             CCSSS--SSCHHHHHHHTTCSEEEEEEECCC
T ss_pred             ccccc--ccHHHHHHHhhccceeEEEEeccC
Confidence            43221  011345566899999999999854

>d1jala1 c.37.1.8 (A:1-278) YchF GTP-binding protein N-terminal domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Haemophilus influenzae [TaxId: 727]

Probab=99.02  E-value=8.7e-11  Score=97.57  Aligned_cols=89  Identities=24%  Similarity=0.265  Sum_probs=63.9

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCC-----------------eeEEEEecCCCcccc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPE-----------------YQMILYDTPGIIEKK  177 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~-----------------~~~~liDtpG~~~~~  177 (254)
                      ..+++++|.|++|||||+|+++..+.. +.+||+||..+..+.+..++                 ..+.++|.||+....
T Consensus         2 ~~~~GivG~Pn~GKSTlf~~lt~~~~~-~~~ypf~ti~pn~gvv~v~d~r~~~l~~~~~~~~~~~a~i~~~Di~GLi~ga   80 (278)
T d1jala1           2 GFKCGIVGLPNVGKSTLFNALTKAGIE-AANYPFCTIEPNTGVVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVAGA   80 (278)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTC-------CCCCCCCCSSEEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCTTH
T ss_pred             CceEEEECCCCCCHHHHHHHHHCCCCc-cccCCCCCCCCceEEEecccHhHHHHHHhcCCCceeeeeEEEEEccccCCCc
Confidence            458999999999999999999988764 78999999887777765433                 248899999987654


Q ss_pred             hhhhhHHHHHHHHHHccCccEEEEEEeCC
Q 025346          178 IHMLDSMMMKNVRSAGINADCIVVLVDAC  206 (254)
Q Consensus       178 ~~~~~~~~~~~~~~~~~~~d~iv~vid~~  206 (254)
                      .+.  .....++.+.++.+|++++|+|+.
T Consensus        81 ~~g--~Glg~~FL~~ir~~d~LihVVr~f  107 (278)
T d1jala1          81 SKG--EGLGNKFLANIRETDAIGHVVRCF  107 (278)
T ss_dssp             HHH--GGGTCCHHHHHHTCSEEEEEEECS
T ss_pred             ccC--CCccHHHHHHHHhccceEEEeecc
Confidence            221  111234567789999999999873

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=98.88  E-value=1.1e-09  Score=88.16  Aligned_cols=82  Identities=20%  Similarity=0.163  Sum_probs=47.2

Q ss_pred             eeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHH---HHHHhhcccCCCCCEEEEEecCCCC
Q 025346          163 YQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDE---ILEEGVGDHKDKLPILLVLNKKDLI  239 (254)
Q Consensus       163 ~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~---~~~~~~~~~~~~~piivV~nK~Dl~  239 (254)
                      ..+.++|+||..+.....  ... ... ......+.+++++|+.........   .+...........|.++|+||+|+.
T Consensus        95 ~~~~~id~~g~~~~~~~~--~~~-~~~-~~~~~~~~~v~vvd~~~~~~~~~~~~~~l~~~~~~~~~~~~~ivvinK~D~~  170 (244)
T d1yrba1          95 NDYVLIDTPGQMETFLFH--EFG-VRL-MENLPYPLVVYISDPEILKKPNDYCFVRFFALLIDLRLGATTIPALNKVDLL  170 (244)
T ss_dssp             CSEEEEECCSSHHHHHHS--HHH-HHH-HHTSSSCEEEEEECGGGCCSHHHHHHHHHHHHHHHHHHTSCEEEEECCGGGC
T ss_pred             cceeeeccccchhHHHHH--HHH-HHH-HhhccCceEEEEeccccccCchhHhhHHHHHHHHHHHhCCCceeeeeccccc
Confidence            459999999964332111  111 111 123456789999998764433221   1111111112368999999999999


Q ss_pred             ChHhHHHHH
Q 025346          240 KPGEIAKKL  248 (254)
Q Consensus       240 ~~~~~~~~~  248 (254)
                      ..++.....
T Consensus       171 ~~~~~~~~~  179 (244)
T d1yrba1         171 SEEEKERHR  179 (244)
T ss_dssp             CHHHHHHHH
T ss_pred             cHHHHHHHH
Confidence            987765544

>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=98.83  E-value=2.8e-09  Score=88.04  Aligned_cols=64  Identities=30%  Similarity=0.430  Sum_probs=42.2

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCccccccCCCCceEEEEEEEEecCCeeEEEEecCCCcccc
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQKLSIVTNKPQTTRHRILGICSGPEYQMILYDTPGIIEKK  177 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~  177 (254)
                      ......+++++|.|++|||||+|++.+.+...+++.|++|++......   +..+.++||||+.-+.
T Consensus       108 ~~~~~~~v~vvG~PNvGKSsliN~L~~~~~~~~~~~pG~Tr~~~~i~~---~~~~~l~DTPGi~~p~  171 (273)
T d1puja_         108 VKPRAIRALIIGIPNVGKSTLINRLAKKNIAKTGDRPGITTSQQWVKV---GKELELLDTPGILWPK  171 (273)
T ss_dssp             CCCCCEEEEEEESTTSSHHHHHHHHHTSCCC------------CCEEE---TTTEEEEECCCCCCSC
T ss_pred             CCCCceEEEEEecCccchhhhhhhhhccceEEECCcccccccceEEEC---CCCeEEecCCCccccC
Confidence            445667899999999999999999999998889999999987554332   3469999999986544

>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=98.66  E-value=4.4e-08  Score=82.63  Aligned_cols=114  Identities=25%  Similarity=0.337  Sum_probs=66.4

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHh------cCccccccCCCCceEE--EEE-----------------EEE---------
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMI------GQKLSIVTNKPQTTRH--RIL-----------------GIC---------  158 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~------~~~~~~~~~~~~tt~~--~~~-----------------~~~---------  158 (254)
                      .+..+|++.|+||+|||||++++.      +.+++.....|.++..  ...                 ...         
T Consensus        52 ~~~~~IgitG~pGaGKSTLi~~l~~~~~~~g~~vavlavDpss~~~ggailgdr~rm~~~~~~~~~~ir~~~~~g~lgg~  131 (327)
T d2p67a1          52 GNTLRLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIAVDPSSPVTGGSILGDKTRMNDLARAEAAFIRPVPSSGHLGGA  131 (327)
T ss_dssp             SCSEEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC---------------CTTTTCTTEEEEEECC-----CH
T ss_pred             CCceEEEeeCCCCCCHHHHHHHHHHHHHhcCCceeeecCCCceeeeccccccchhHHHHhcccccccccccccccccccc
Confidence            457789999999999999999997      3444433333332211  000                 000         


Q ss_pred             -----------ecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCc--hhHHHHHHHhhcccCC
Q 025346          159 -----------SGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAP--ERIDEILEEGVGDHKD  225 (254)
Q Consensus       159 -----------~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~--~~~~~~~~~~~~~~~~  225 (254)
                                 +..+..+.++.|.|..+...            .....+|.+++|++...+.  +.....+.++      
T Consensus       132 ~~~~~~~~~~~~~~g~d~iliEtvG~gq~e~------------~i~~~aD~~l~v~~P~~Gd~iq~~k~gi~e~------  193 (327)
T d2p67a1         132 SQRARELMLLCEAAGYDVVIVETVGVGQSET------------EVARMVDCFISLQIAGGGDDLQGIKKGLMEV------  193 (327)
T ss_dssp             HHHHHHHHHHHHHTTCSEEEEEEECCTTHHH------------HHHTTCSEEEEEECC------CCCCHHHHHH------
T ss_pred             hhhhhHHHHHHHhcCCCeEEEeeccccccch------------hhhhccceEEEEecCCCchhhhhhchhhhcc------
Confidence                       11235677888888655421            2356799999999876532  2222333332      


Q ss_pred             CCCEEEEEecCCCCChHhHHH
Q 025346          226 KLPILLVLNKKDLIKPGEIAK  246 (254)
Q Consensus       226 ~~piivV~nK~Dl~~~~~~~~  246 (254)
                        +=++|+||+|+........
T Consensus       194 --aDi~VvNKaD~~~~~~~~~  212 (327)
T d2p67a1         194 --ADLIVINKDDGDNHTNVAI  212 (327)
T ss_dssp             --CSEEEECCCCTTCHHHHHH
T ss_pred             --ccEEEEEeecccchHHHHH
Confidence              3388999999988765543

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=98.35  E-value=1.1e-07  Score=79.95  Aligned_cols=114  Identities=25%  Similarity=0.333  Sum_probs=68.3

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcC------ccccccCCCCce-------------------EEEEEEE----------
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQ------KLSIVTNKPQTT-------------------RHRILGI----------  157 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~------~~~~~~~~~~tt-------------------~~~~~~~----------  157 (254)
                      .+..+|.+.|+||+|||||++++...      +++.....|.++                   ...+...          
T Consensus        49 ~~~~~igitG~pGaGKSTli~~l~~~~~~~g~~vaViavDpss~~~gg~llgdr~rm~~~~~~~~~~ir~~~~~~~~gg~  128 (323)
T d2qm8a1          49 GRAIRVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPSSTRTGGSILGDKTRMARLAIDRNAFIRPSPSSGTLGGV  128 (323)
T ss_dssp             CCSEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECGGGGSSCCCSSCCGGGSTTGGGCTTEEEECCCCCSSHHHH
T ss_pred             CCceEEeeeCCCCCCHHHHHHHHHHHHhhcCCceeeeecccccHHHHhccccchhhHHHHhcccceeeccccccccccch
Confidence            45678999999999999999998742      222222222111                   0011100          


Q ss_pred             ----------EecCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchh--HHHHHHHhhcccCC
Q 025346          158 ----------CSGPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPER--IDEILEEGVGDHKD  225 (254)
Q Consensus       158 ----------~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~--~~~~~~~~~~~~~~  225 (254)
                                +...+..+.|+.|.|..+...            .....+|..++|+....+.+-  ...-+.+       
T Consensus       129 ~~~~~~~i~~~~~~g~d~iiiETVG~gq~e~------------~~~~~~D~~v~v~~p~~GD~iQ~~k~gilE-------  189 (323)
T d2qm8a1         129 AAKTRETMLLCEAAGFDVILVETVGVGQSET------------AVADLTDFFLVLMLPGAGDELQGIKKGIFE-------  189 (323)
T ss_dssp             HHHHHHHHHHHHHTTCCEEEEEECSSSSCHH------------HHHTTSSEEEEEECSCC------CCTTHHH-------
T ss_pred             hHHHHHHHHhhccCCCCeEEEeehhhhhhhh------------hhhcccceEEEEeeccchhhhhhhhhhHhh-------
Confidence                      012457789999999766531            124669999999998774221  1111111       


Q ss_pred             CCCEEEEEecCCCCChHhHHH
Q 025346          226 KLPILLVLNKKDLIKPGEIAK  246 (254)
Q Consensus       226 ~~piivV~nK~Dl~~~~~~~~  246 (254)
                       +.=++|+||+|+........
T Consensus       190 -~aDi~vvNKaD~~~~~~~~~  209 (323)
T d2qm8a1         190 -LADMIAVNKADDGDGERRAS  209 (323)
T ss_dssp             -HCSEEEEECCSTTCCHHHHH
T ss_pred             -hhheeeEeccccccchHHHH
Confidence             33489999999987766543

>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=98.35  E-value=1.4e-07  Score=75.01  Aligned_cols=62  Identities=26%  Similarity=0.194  Sum_probs=39.7

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCcccccc-------CCCCceEEEEEEEEecCCeeEEEEecCCCcccchh
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVT-------NKPQTTRHRILGICSGPEYQMILYDTPGIIEKKIH  179 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~-------~~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~~~  179 (254)
                      +...+++|.+|+|||||+|.+.+.....++       ...+||.......+..+   -.++||||+.+....
T Consensus        95 ~kt~~~~G~SGVGKSTLiN~L~~~~~~~T~~vs~~~~rGrHTTt~~~l~~l~~g---g~iiDTPG~r~~~l~  163 (225)
T d1u0la2          95 GKISTMAGLSGVGKSSLLNAINPGLKLRVSEVSEKLQRGRHTTTTAQLLKFDFG---GYVVDTPGFANLEIN  163 (225)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHSTTCCCC-------------CCCSCCEEECTTS---CEEESSCSSTTCCCC
T ss_pred             CCeEEEECCCCCCHHHHHHhhcchhhhhccCcccccCCCCccccceeEEEECCC---cEEEeCCcccccccc
Confidence            557899999999999999999876432222       22345555444444332   478999998655433

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=98.13  E-value=1.1e-05  Score=63.23  Aligned_cols=76  Identities=20%  Similarity=0.147  Sum_probs=42.1

Q ss_pred             CCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          161 PEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       161 ~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      .+..+.++||||..........-..+..+... ...+-+++|++++...+......... ...   -+--+++||.|...
T Consensus        93 ~~~d~IlIDTaGr~~~~~~~~~~~el~~~~~~-~~~~~~~LVl~a~~~~~~~~~~~~~~-~~~---~~~~lI~TKlDet~  167 (211)
T d1j8yf2          93 EKMEIIIVDTAGRHGYGEEAALLEEMKNIYEA-IKPDEVTLVIDASIGQKAYDLASKFN-QAS---KIGTIIITKMDGTA  167 (211)
T ss_dssp             TTCSEEEEECCCSCCTTCHHHHHHHHHHHHHH-HCCSEEEEEEEGGGGGGHHHHHHHHH-HHC---TTEEEEEECTTSCS
T ss_pred             cCCceEEEecCCcCccchhhHHHHHHHHHHhh-cCCceEEEEEecccCcchHHHHhhhh-ccc---CcceEEEecccCCC
Confidence            34579999999963321111111111222222 34678999999988665554443322 211   12346789999864


Q ss_pred             h
Q 025346          241 P  241 (254)
Q Consensus       241 ~  241 (254)
                      .
T Consensus       168 ~  168 (211)
T d1j8yf2         168 K  168 (211)
T ss_dssp             C
T ss_pred             c
Confidence            3

>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=98.11  E-value=3.1e-07  Score=73.21  Aligned_cols=59  Identities=27%  Similarity=0.265  Sum_probs=34.0

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccc---cC----CCCceEEEEEEEEecCCeeEEEEecCCCcccc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIV---TN----KPQTTRHRILGICSGPEYQMILYDTPGIIEKK  177 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~---~~----~~~tt~~~~~~~~~~~~~~~~liDtpG~~~~~  177 (254)
                      ....+++|++|+|||||+|++.+.....+   +.    ..+||........  ++  -.++||||+.+..
T Consensus        97 ~~~~vl~G~SGVGKSSLiN~L~~~~~~~t~~vs~~~~rGrHTTt~~~l~~~--~g--g~iiDTPG~r~~~  162 (231)
T d1t9ha2          97 DKTTVFAGQSGVGKSSLLNAISPELGLRTNEISEHLGRGKHTTRHVELIHT--SG--GLVADTPGFSSLE  162 (231)
T ss_dssp             TSEEEEEESHHHHHHHHHHHHCC-------------------CCCCCEEEE--TT--EEEESSCSCSSCC
T ss_pred             cceEEEECCCCccHHHHHHhhccHhHhhhcccccccCCCceeeeeEEEEec--CC--CEEEECCcccccc
Confidence            45688999999999999999998643222   21    1234443332222  22  2588999986544

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=98.10  E-value=2e-05  Score=61.51  Aligned_cols=73  Identities=16%  Similarity=0.256  Sum_probs=42.6

Q ss_pred             CeeEEEEecCCCcccchhhhhHHHHHHHHHH-----ccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecC
Q 025346          162 EYQMILYDTPGIIEKKIHMLDSMMMKNVRSA-----GINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKK  236 (254)
Q Consensus       162 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~-----~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~  236 (254)
                      +..+.++||||......+.+...  ..+...     ....+-+++|+|++.......+....... .   -+--+++||.
T Consensus        88 ~~d~ilIDTaGr~~~d~~l~~el--~~~~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~~~-~---~~~~lI~TKl  161 (207)
T d1okkd2          88 GYDLLFVDTAGRLHTKHNLMEEL--KKVKRAIAKADPEEPKEVWLVLDAVTGQNGLEQAKKFHEA-V---GLTGVIVTKL  161 (207)
T ss_dssp             TCSEEEECCCCCCTTCHHHHHHH--HHHHHHHHHHCTTCCSEEEEEEETTBCTHHHHHHHHHHHH-H---CCSEEEEECT
T ss_pred             CCCEEEcCccccchhhHHHHHHH--HHHHHHhhhcccCCCceEEEEeecccCchHHHHHHHhhhc-c---CCceEEEecc
Confidence            45789999999655443333222  111111     13567899999999876665555433221 1   1225678999


Q ss_pred             CCCC
Q 025346          237 DLIK  240 (254)
Q Consensus       237 Dl~~  240 (254)
                      |...
T Consensus       162 Det~  165 (207)
T d1okkd2         162 DGTA  165 (207)
T ss_dssp             TSSC
T ss_pred             CCCC
Confidence            9753

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=98.09  E-value=1.8e-05  Score=62.51  Aligned_cols=121  Identities=19%  Similarity=0.356  Sum_probs=63.6

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCc----cccccCCCC-ceEEEE---------EE------EEe---------------
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQK----LSIVTNKPQ-TTRHRI---------LG------ICS---------------  159 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~----~~~~~~~~~-tt~~~~---------~~------~~~---------------  159 (254)
                      .+..++.|.-|+|||||+++++...    .+...+..+ ...+..         ..      .+.               
T Consensus         3 iPv~iitGFLGaGKTTll~~lL~~~~~~riaVI~Ne~g~~~iD~~~~~~~~~~~~el~~gcicc~~~~~~~~~l~~~~~~   82 (222)
T d1nija1           3 IAVTLLTGFLGAGKTTLLRHILNEQHGYKIAVIENEFGEVSVDDQLIGDRATQIKTLTNGCICCSRSNELEDALLDLLDN   82 (222)
T ss_dssp             EEEEEEEESSSSSCHHHHHHHHHSCCCCCEEEECSSCCSCCEEEEEECTTSCEEEEETTSCEEECTTSCHHHHHHHHHHH
T ss_pred             CCEEEEeeCCCCCHHHHHHHHHhcCCCCcEEEEEecccchhhhhhhhcccccceEEecCCcceeccchhHHHHHHHHHHH
Confidence            4568899999999999999998642    221211111 111100         00      010               


Q ss_pred             ----cCCeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHH--HHHHhhcccCCCCCEEEEE
Q 025346          160 ----GPEYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDE--ILEEGVGDHKDKLPILLVL  233 (254)
Q Consensus       160 ----~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~--~~~~~~~~~~~~~piivV~  233 (254)
                          .......++.+.|..+.. ..+............-..+.++.|+|+.........  .+...+.     .-=++|+
T Consensus        83 ~~~~~~~~d~iiIE~sG~~~p~-~l~~~~~~~~~~~~~~~l~~vi~vVDa~~~~~~~~~~~~~~~Qi~-----~AD~ivl  156 (222)
T d1nija1          83 LDKGNIQFDRLVIECTGMADPG-PIIQTFFSHEVLCQRYLLDGVIALVDAVHADEQMNQFTIAQSQVG-----YADRILL  156 (222)
T ss_dssp             HHHTSCCCSEEEEEEETTCCHH-HHHHHHHHSHHHHHHEEEEEEEEEEETTTHHHHHHHCHHHHHHHH-----TCSEEEE
T ss_pred             HhhccCCcceeEEeecccchhh-HHHHHHHhhhcccccccccchhhhhhhhhhhhhhhhhHHHHHHHH-----hCCcccc
Confidence                011346788888865432 111111111122223356889999999885433221  1212121     1126889


Q ss_pred             ecCCCCCh
Q 025346          234 NKKDLIKP  241 (254)
Q Consensus       234 nK~Dl~~~  241 (254)
                      ||+|+.++
T Consensus       157 NK~Dl~~~  164 (222)
T d1nija1         157 TKTDVAGE  164 (222)
T ss_dssp             ECTTTCSC
T ss_pred             cccccccH
Confidence            99999864

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=98.07  E-value=1.2e-05  Score=63.15  Aligned_cols=73  Identities=14%  Similarity=0.175  Sum_probs=41.7

Q ss_pred             CeeEEEEecCCCcccchhhhhHHHHHHHHHHcc-----CccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecC
Q 025346          162 EYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI-----NADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKK  236 (254)
Q Consensus       162 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~-----~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~  236 (254)
                      +..+.++||||......+.+...  ..+.....     ..+-+++|+|++.......+....... .   -+--+++||.
T Consensus        93 ~~d~ilIDTaGr~~~d~~~~~el--~~~~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~~~-~---~~~~lI~TKl  166 (213)
T d1vmaa2          93 NKDVVIIDTAGRLHTKKNLMEEL--RKVHRVVKKKIPDAPHETLLVIDATTGQNGLVQAKIFKEA-V---NVTGIILTKL  166 (213)
T ss_dssp             TCSEEEEEECCCCSCHHHHHHHH--HHHHHHGGGTCTTCCSEEEEEEEGGGHHHHHHHHHHHHHH-S---CCCEEEEECG
T ss_pred             CCCEEEEeccccccchHHHHHHH--HHHHhhhhhccccccceeEEeeccccCcchhhhhhhhccc-c---CCceEEEecc
Confidence            45789999999655443333221  22222222     257789999998765555544333221 1   2335777999


Q ss_pred             CCCC
Q 025346          237 DLIK  240 (254)
Q Consensus       237 Dl~~  240 (254)
                      |...
T Consensus       167 De~~  170 (213)
T d1vmaa2         167 DGTA  170 (213)
T ss_dssp             GGCS
T ss_pred             cCCC
Confidence            8753

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=98.03  E-value=4.9e-06  Score=65.27  Aligned_cols=73  Identities=15%  Similarity=0.192  Sum_probs=42.7

Q ss_pred             CeeEEEEecCCCcccchhhhhHHHHHHHHHHcc-----CccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecC
Q 025346          162 EYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGI-----NADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKK  236 (254)
Q Consensus       162 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~-----~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~  236 (254)
                      +..+.++||||........++..  ..+.....     ..+-+++|+|++.......+....... .   -+--+++||.
T Consensus        91 ~~d~ilIDTaGr~~~d~~~~~el--~~l~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~~~-~---~~~~lIlTKl  164 (211)
T d2qy9a2          91 NIDVLIADTAGRLQNKSHLMEEL--KKIVRVMKKLDVEAPHEVMLTIDASTGQNAVSQAKLFHEA-V---GLTGITLTKL  164 (211)
T ss_dssp             TCSEEEECCCCCGGGHHHHHHHH--HHHHHHHTTTCTTCCSEEEEEEEGGGTHHHHHHHHHHHHH-S---CCCEEEEECC
T ss_pred             CCCEEEeccCCCccccHHHHHHH--HHHHHHHhhhcccCcceeeeehhcccCcchHHHHhhhhhc-c---CCceEEEeec
Confidence            45789999999654433222221  22223232     356899999998876665554433211 1   1335778999


Q ss_pred             CCCC
Q 025346          237 DLIK  240 (254)
Q Consensus       237 Dl~~  240 (254)
                      |...
T Consensus       165 De~~  168 (211)
T d2qy9a2         165 DGTA  168 (211)
T ss_dssp             TTCT
T ss_pred             CCCC
Confidence            9754

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=97.96  E-value=6.4e-06  Score=67.29  Aligned_cols=62  Identities=21%  Similarity=0.178  Sum_probs=50.1

Q ss_pred             HHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHHHHHHHh
Q 025346          187 KNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKLEVTT  252 (254)
Q Consensus       187 ~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~~~~~~~  252 (254)
                      .++...+..+|+|++|+|+..+.......+..+++    +.|+++|+||+|+.+++...++.+.++
T Consensus         7 r~i~~~i~~~DvIl~V~DaR~P~ss~~~~l~~~~~----~Kp~IlVlNK~DLv~~~~~~~w~~~f~   68 (273)
T d1puja_           7 REVTEKLKLIDIVYELVDARIPMSSRNPMIEDILK----NKPRIMLLNKADKADAAVTQQWKEHFE   68 (273)
T ss_dssp             HHHHHHGGGCSEEEEEEETTSTTTTSCHHHHHHCS----SSCEEEEEECGGGSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCEEEEEEECCCCCCCCCHHHHHHHc----CCCeEEEEECccCCchHHHHHHHHHHH
Confidence            44556789999999999999877666666666654    679999999999999988887777664

>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=97.89  E-value=5.8e-05  Score=58.85  Aligned_cols=72  Identities=19%  Similarity=0.205  Sum_probs=41.2

Q ss_pred             CeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCCCCC
Q 025346          162 EYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKDLIK  240 (254)
Q Consensus       162 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~  240 (254)
                      +..+.+|||||........+...  ..+.. ....+-+++|+|++.+........ ...+..+   .--+++||.|...
T Consensus        92 ~~d~vlIDTaGr~~~d~~~~~el--~~~~~-~~~~~~~llv~~a~~~~~~~~~~~-~f~~~~~---~~~~I~TKlDe~~  163 (207)
T d1ls1a2          92 ARDLILVDTAGRLQIDEPLMGEL--ARLKE-VLGPDEVLLVLDAMTGQEALSVAR-AFDEKVG---VTGLVLTKLDGDA  163 (207)
T ss_dssp             TCCEEEEECCCCSSCCHHHHHHH--HHHHH-HHCCSEEEEEEEGGGTHHHHHHHH-HHHHHTC---CCEEEEECGGGCS
T ss_pred             cCcceeecccccchhhhhhHHHH--HHHHh-hcCCceEEEEeccccchhHHHHHH-HHHhhCC---CCeeEEeecCccc
Confidence            45789999999655443333222  22222 346788999999987655444332 2222111   2246778888643

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.44  E-value=0.00019  Score=58.35  Aligned_cols=63  Identities=25%  Similarity=0.314  Sum_probs=43.2

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccc--cccCCCCceEEEEEEEE---ecCCeeEEEEecCCCcccc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLS--IVTNKPQTTRHRILGIC---SGPEYQMILYDTPGIIEKK  177 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~--~~~~~~~tt~~~~~~~~---~~~~~~~~liDtpG~~~~~  177 (254)
                      ...|.++|+.++|||+|+|.+++....  .......+|........   ...+..+.++||.|+.+..
T Consensus        32 v~vvsi~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~Giw~~~~~~~~~~~~~~~~lDteG~~~~~   99 (277)
T d1f5na2          32 MVVVAIVGLYRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIWMWCVPHPKKPGHILVLLDTEGLGDVE   99 (277)
T ss_dssp             EEEEEEEEBTTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEEEEEEECSSSTTCEEEEEEECCBCCGG
T ss_pred             EEEEEEECCCCCCHHHHHHHHcCCCCCCccCCCCCCCCCceEEEEeeccCCCCceEEEEecccccccc
Confidence            346999999999999999999987632  12222345554443222   3456789999999986643

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.23  E-value=8.6e-06  Score=63.02  Aligned_cols=45  Identities=9%  Similarity=-0.068  Sum_probs=31.1

Q ss_pred             HHccCccEEEEEEeCCCCchhHHHHHHHhhcccCCCCCEEEEEecCC
Q 025346          191 SAGINADCIVVLVDACKAPERIDEILEEGVGDHKDKLPILLVLNKKD  237 (254)
Q Consensus       191 ~~~~~~d~iv~vid~~~~~~~~~~~~~~~~~~~~~~~piivV~nK~D  237 (254)
                      ..+....+.+.++|+.......+..+..+....  +.+++++.++|+
T Consensus        79 ~~~~~~~~~~vi~d~~~~~~~~r~~~~~~~~~~--~~~~~~~~~~~~  123 (213)
T d1bifa1          79 KFLSEEGGHVAVFDATNTTRERRAMIFNFGEQN--GYKTFFVESICV  123 (213)
T ss_dssp             HHHHTTCCSEEEEESCCCSHHHHHHHHHHHHHH--TCEEEEEEECCC
T ss_pred             HHHHhcCCCEEEeecCCccHHHHHHHHHHHHhc--CCeEEEEEeecc
Confidence            334455666778999887777777776665533  567788888876

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=97.21  E-value=4.7e-05  Score=60.88  Aligned_cols=48  Identities=17%  Similarity=0.094  Sum_probs=37.3

Q ss_pred             hhhhccCCcCCCCCCCchhhhhccccCCCCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346           83 FLSLSEKPDRNMASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus        83 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      +.++.++|......+.++.+        ...++..++++|++|+|||||++.+.+-
T Consensus         4 ~knvsf~Y~~~~~vL~~isl--------~i~~Ge~vaivG~sGsGKSTLl~ll~gl   51 (242)
T d1mv5a_           4 ARHVDFAYDDSEQILRDISF--------EAQPNSIIAFAGPSGGGKSTIFSLLERF   51 (242)
T ss_dssp             EEEEEECSSSSSCSEEEEEE--------EECTTEEEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEEEECCCCCceeeeeEE--------EEcCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            34567777655556677665        5567789999999999999999999864

>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=96.86  E-value=0.00018  Score=57.65  Aligned_cols=51  Identities=18%  Similarity=0.146  Sum_probs=38.6

Q ss_pred             hHhhhhhccCCcCC--CCCCCchhhhhccccCCCCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346           80 ASSFLSLSEKPDRN--MASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus        80 ~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~~~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ...+.++.+.|...  ...+.++.+        ...++..++++|++|+|||||++.+.+-
T Consensus        11 ~I~~~nvsf~Y~~~~~~~vL~~isl--------~i~~Ge~vaivG~sGsGKSTLl~li~gl   63 (251)
T d1jj7a_          11 LVQFQDVSFAYPNRPDVLVLQGLTF--------TLRPGEVTALVGPNGSGKSTVAALLQNL   63 (251)
T ss_dssp             CEEEEEEEECCTTSTTCCSEEEEEE--------EECTTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             eEEEEEEEEECCCCCCCEeEeceEE--------EEcCCCEEEEECCCCCcHHHHHHHHhcc
Confidence            45667778887532  235566654        5567789999999999999999999874

>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=96.85  E-value=0.00025  Score=52.93  Aligned_cols=22  Identities=32%  Similarity=0.723  Sum_probs=20.2

Q ss_pred             EEEEEeCCCCChHHHHHHHhcC
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      +|+++|++|+|||||++.+++.
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            6999999999999999999863

>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=96.81  E-value=0.0002  Score=57.50  Aligned_cols=50  Identities=18%  Similarity=0.220  Sum_probs=38.7

Q ss_pred             HhhhhhccCCcCC-CCCCCchhhhhccccCCCCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346           81 SSFLSLSEKPDRN-MASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus        81 ~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~~~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..+.++.++|... ...+.++.+        ...++..++++|++|+|||||++.+++-
T Consensus        14 I~~~nvsf~Y~~~~~~~L~~isl--------~i~~Ge~iaivG~sGsGKSTLl~ll~gl   64 (253)
T d3b60a1          14 LEFRNVTFTYPGREVPALRNINL--------KIPAGKTVALVGRSGSGKSTIASLITRF   64 (253)
T ss_dssp             EEEEEEEECSSSSSCCSEEEEEE--------EECTTCEEEEEECTTSSHHHHHHHHTTT
T ss_pred             EEEEEEEEEeCCCCCceeeceEE--------EEcCCCEEEEECCCCChHHHHHHHHhcc
Confidence            5667778888643 356667664        4566779999999999999999999864

>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=96.79  E-value=0.00027  Score=52.66  Aligned_cols=23  Identities=39%  Similarity=0.577  Sum_probs=20.9

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ..+|++.|++|+|||||++.+..
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~   29 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAA   29 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            56899999999999999999874

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=96.72  E-value=0.00042  Score=51.02  Aligned_cols=22  Identities=27%  Similarity=0.356  Sum_probs=20.1

Q ss_pred             cEEEEEeCCCCChHHHHHHHhc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      |.++++|++|+|||||++.++.
T Consensus         3 Pvi~itG~~GSGKTTL~~~L~~   24 (170)
T d1np6a_           3 PLLAFAAWSGTGKTTLLKKLIP   24 (170)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            5799999999999999999974

>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=96.70  E-value=0.00015  Score=57.70  Aligned_cols=48  Identities=17%  Similarity=0.289  Sum_probs=34.4

Q ss_pred             hhhhccCCcCCC-CCCCchhhhhccccCCCCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346           83 FLSLSEKPDRNM-ASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus        83 ~~~~~~~~~~~~-~~l~~~~~~~~~~~~~~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      +.++.++|.... ..+.++.+        ...++.+++++|++|+|||||++.+.+-
T Consensus         4 ~~nvsf~Y~~~~~~vL~~isl--------~i~~Ge~vaIvG~sGsGKSTLl~ll~gl   52 (241)
T d2pmka1           4 FRNIRFRYKPDSPVILDNINL--------SIKQGEVIGIVGRSGSGKSTLTKLIQRF   52 (241)
T ss_dssp             EEEEEEESSTTSCEEEEEEEE--------EEETTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEEEEeCCCCcceEeeeEE--------EEcCCCEEEEECCCCCCHHHHHHHHHhc
Confidence            344566664333 24455554        4566779999999999999999999875

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=96.67  E-value=0.00041  Score=51.13  Aligned_cols=23  Identities=30%  Similarity=0.560  Sum_probs=20.4

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .++|+++|++|+||||+++.+..
T Consensus         4 ~~~I~i~G~pGsGKTTia~~La~   26 (173)
T d1rkba_           4 LPNILLTGTPGVGKTTLGKELAS   26 (173)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999998864

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=96.63  E-value=0.00065  Score=50.16  Aligned_cols=25  Identities=24%  Similarity=0.469  Sum_probs=22.1

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +++.+|++.|++|+||||+.+.+..
T Consensus         3 pk~~~I~i~G~~GsGKTT~~~~La~   27 (174)
T d1y63a_           3 PKGINILITGTPGTGKTSMAEMIAA   27 (174)
T ss_dssp             CSSCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCEEEEEeCCCCCHHHHHHHHHH
Confidence            5567899999999999999998874

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=96.59  E-value=0.0095  Score=46.99  Aligned_cols=23  Identities=30%  Similarity=0.408  Sum_probs=20.3

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ...|++.|++|+|||++++.+..
T Consensus        40 ~~~vLL~GppGtGKT~la~alA~   62 (246)
T d1d2na_          40 LVSVLLEGPPHSGKTALAAKIAE   62 (246)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEECcCCCCHHHHHHHHhh
Confidence            45699999999999999999874

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.58  E-value=0.00039  Score=52.56  Aligned_cols=41  Identities=24%  Similarity=0.353  Sum_probs=26.1

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcCccc-cccCCCCceEEEEEE
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQKLS-IVTNKPQTTRHRILG  156 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~~~~-~~~~~~~tt~~~~~~  156 (254)
                      ..|+++||+|+||+||+++++..... .....+.||+..-.+
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~~~~~~~~~~v~~TTR~~R~~   45 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLITKHPDRFAYPIPHTTRPPKKD   45 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHCTTTEECCCCEECSCC---
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhCCcCeeeccccccCCCCCc
Confidence            35889999999999999999854321 123345555543333

>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=96.55  E-value=0.00045  Score=52.11  Aligned_cols=24  Identities=29%  Similarity=0.368  Sum_probs=20.5

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcC
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      +..++++|++|+||||+++.+...
T Consensus         2 G~iivl~GpsG~GK~tl~~~L~~~   25 (182)
T d1znwa1           2 GRVVVLSGPSAVGKSTVVRCLRER   25 (182)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhh
Confidence            346889999999999999998754

>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=96.51  E-value=0.0008  Score=50.89  Aligned_cols=25  Identities=32%  Similarity=0.434  Sum_probs=21.7

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +++.+|+++|+||+||||.+..+..
T Consensus         1 p~~~riil~G~pGSGKsT~a~~La~   25 (190)
T d1ak2a1           1 PKGVRAVLLGPPGAGKGTQAPKLAK   25 (190)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCccEEEEECCCCCCHHHHHHHHHH
Confidence            3567899999999999999998873

>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=96.46  E-value=0.0003  Score=56.41  Aligned_cols=50  Identities=26%  Similarity=0.186  Sum_probs=38.7

Q ss_pred             HhhhhhccCCcCCC-CCCCchhhhhccccCCCCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346           81 SSFLSLSEKPDRNM-ASPDDYEIEEFDYASHPNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus        81 ~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~~~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..+.++.++|.... ..+.++.+        ...++.+++++|++|+|||||++.+.+-
T Consensus        17 I~~~nvsf~Y~~~~~~vL~~isl--------~i~~Ge~vaivG~sGsGKSTLl~ll~gl   67 (255)
T d2hyda1          17 IDIDHVSFQYNDNEAPILKDINL--------SIEKGETVAFVGMSGGGKSTLINLIPRF   67 (255)
T ss_dssp             EEEEEEEECSCSSSCCSEEEEEE--------EECTTCEEEEECSTTSSHHHHHTTTTTS
T ss_pred             EEEEEEEEEeCCCCCcceeceEE--------EEcCCCEEEEECCCCCcHHHHHHHHHhc
Confidence            56677788886543 55677664        4567779999999999999999988864

>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=96.41  E-value=0.0061  Score=48.48  Aligned_cols=23  Identities=35%  Similarity=0.583  Sum_probs=20.3

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +..+++.|++|+|||++++.+..
T Consensus        45 ~~~iLL~GppGtGKT~la~~iA~   67 (256)
T d1lv7a_          45 PKGVLMVGPPGTGKTLLAKAIAG   67 (256)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCeEEeeCCCCCCccHHHHHHHH
Confidence            45699999999999999999874

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=96.36  E-value=0.0013  Score=49.75  Aligned_cols=25  Identities=36%  Similarity=0.538  Sum_probs=21.3

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .++..|+++|++|+||||++..+..
T Consensus         4 ~kp~iI~i~G~pGSGKsT~a~~La~   28 (194)
T d1qf9a_           4 SKPNVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHH
Confidence            4456789999999999999998864

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.35  E-value=0.00033  Score=54.33  Aligned_cols=24  Identities=21%  Similarity=0.296  Sum_probs=20.7

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcC
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      +..++++||+|+||+||++.++..
T Consensus         2 G~livi~GPSG~GK~tl~~~L~~~   25 (205)
T d1s96a_           2 GTLYIVSAPSGAGKSSLIQALLKT   25 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhh
Confidence            346889999999999999999854

>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=96.28  E-value=0.001  Score=48.02  Aligned_cols=21  Identities=38%  Similarity=0.621  Sum_probs=18.6

Q ss_pred             EEEEEeCCCCChHHHHHHHhc
Q 025346          117 YVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~  137 (254)
                      -|+++|++|+||||+++.+..
T Consensus         4 lIii~G~pGsGKTTla~~L~~   24 (152)
T d1ly1a_           4 IILTIGCPGSGKSTWAREFIA   24 (152)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478899999999999998864

>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=96.19  E-value=0.0018  Score=47.71  Aligned_cols=26  Identities=19%  Similarity=0.184  Sum_probs=21.6

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ..++..|.++|.+|+||||+...+..
T Consensus         3 ~~~g~~I~l~G~~GsGKTTia~~La~   28 (183)
T d1m8pa3           3 ATQGFTIFLTGYMNSGKDAIARALQV   28 (183)
T ss_dssp             TTCCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            34566788999999999999988763

>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=96.18  E-value=0.0038  Score=49.94  Aligned_cols=26  Identities=31%  Similarity=0.428  Sum_probs=21.8

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..+..+++.|++|+|||++++.+...
T Consensus        39 ~~~~giLL~Gp~GtGKT~l~~ala~~   64 (265)
T d1r7ra3          39 TPSKGVLFYGPPGCGKTLLAKAIANE   64 (265)
T ss_dssp             CCCCEEEEBCCTTSSHHHHHHHHHHH
T ss_pred             CCCCeEEEECCCCCcchhHHHHHHHH
Confidence            34556999999999999999998753

>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=96.17  E-value=0.002  Score=48.19  Aligned_cols=26  Identities=27%  Similarity=0.414  Sum_probs=22.0

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .+.+..|+++|.+|+||||++..++.
T Consensus        11 ~~~p~liil~G~pGsGKST~a~~l~~   36 (172)
T d1yj5a2          11 SPNPEVVVAVGFPGAGKSTFIQEHLV   36 (172)
T ss_dssp             CSSCCEEEEECCTTSSHHHHHHHHTG
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            34566899999999999999998864

>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=96.16  E-value=0.0019  Score=47.39  Aligned_cols=26  Identities=27%  Similarity=0.451  Sum_probs=21.7

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +..+.-++++|++|+||||+.+.+..
T Consensus         3 ~~~~~iivl~G~~GsGKsT~a~~La~   28 (171)
T d1knqa_           3 NHDHHIYVLMGVSGSGKSAVASEVAH   28 (171)
T ss_dssp             CTTSEEEEEECSTTSCHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            34556788899999999999999864

>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=96.16  E-value=0.0015  Score=49.23  Aligned_cols=23  Identities=26%  Similarity=0.296  Sum_probs=19.9

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +.+|++.|++|+||||++..+..
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~   25 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKT   25 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999988753

>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=96.13  E-value=0.0015  Score=47.25  Aligned_cols=22  Identities=27%  Similarity=0.424  Sum_probs=19.2

Q ss_pred             cEEEEEeCCCCChHHHHHHHhc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ..|+++|++|+||||+...+..
T Consensus         3 k~I~l~G~~GsGKSTvak~La~   24 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQ   24 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            3589999999999999998864

>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=96.12  E-value=0.01  Score=47.08  Aligned_cols=24  Identities=21%  Similarity=0.404  Sum_probs=20.7

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .+..+++.|++|+|||++++.+..
T Consensus        37 ~~~giLL~GppGtGKT~l~~ala~   60 (258)
T d1e32a2          37 PPRGILLYGPPGTGKTLIARAVAN   60 (258)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCceeEEecCCCCCchHHHHHHHH
Confidence            345699999999999999998875

>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=96.12  E-value=0.002  Score=48.79  Aligned_cols=27  Identities=22%  Similarity=0.447  Sum_probs=22.8

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..+..+|+++|+||+||||+...+..+
T Consensus         3 ~~r~mrIiliG~PGSGKtT~a~~La~~   29 (189)
T d2ak3a1           3 SARLLRAAIMGAPGSGKGTVSSRITKH   29 (189)
T ss_dssp             SSCCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCcceeEEEECCCCCCHHHHHHHHHHH
Confidence            345678999999999999999998753

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=96.09  E-value=0.0073  Score=47.75  Aligned_cols=23  Identities=39%  Similarity=0.629  Sum_probs=20.3

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +..+++.|++|+|||++++.+..
T Consensus        42 ~~giLl~GppGtGKT~la~aia~   64 (247)
T d1ixza_          42 PKGVLLVGPPGVGKTHLARAVAG   64 (247)
T ss_dssp             CSEEEEECCTTSSHHHHHHHHHH
T ss_pred             CceEEEecCCCCChhHHHHHHHH
Confidence            34699999999999999999884

>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=96.08  E-value=0.0014  Score=48.40  Aligned_cols=22  Identities=27%  Similarity=0.487  Sum_probs=19.2

Q ss_pred             cEEEEEeCCCCChHHHHHHHhc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      |+|+++|++|+||||+...+..
T Consensus         2 p~IvliG~~G~GKSTig~~La~   23 (165)
T d2iyva1           2 PKAVLVGLPGSGKSTIGRRLAK   23 (165)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHH
Confidence            5788999999999999988753

>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=96.06  E-value=0.0019  Score=50.67  Aligned_cols=28  Identities=25%  Similarity=0.375  Sum_probs=24.3

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ...++-.++++|++|||||||++.+.+-
T Consensus        27 ~i~~Ge~~~iiG~sGsGKSTLl~~i~gl   54 (230)
T d1l2ta_          27 NIKEGEFVSIMGPSGSGKSTMLNIIGCL   54 (230)
T ss_dssp             EECTTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEcCCCEEEEECCCCCCcchhhHhccCC
Confidence            4466778999999999999999998875

>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=96.06  E-value=0.002  Score=50.65  Aligned_cols=28  Identities=32%  Similarity=0.523  Sum_probs=24.3

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ...++-.++++|++|+|||||++.+.+-
T Consensus        22 ~i~~Gei~~liGpsGsGKSTLl~~i~Gl   49 (232)
T d2awna2          22 DIHEGEFVVFVGPSGCGKSTLLRMIAGL   49 (232)
T ss_dssp             EECTTCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEcCCCEEEEECCCCChHHHHHHHHhcC
Confidence            4456778999999999999999999875

>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=96.05  E-value=0.0023  Score=47.01  Aligned_cols=24  Identities=29%  Similarity=0.498  Sum_probs=20.2

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcC
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      +..|++.|++|+||||+.+.+...
T Consensus         4 g~iI~l~G~~GsGKSTia~~La~~   27 (176)
T d1zp6a1           4 GNILLLSGHPGSGKSTIAEALANL   27 (176)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            445889999999999999988654

>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=96.05  E-value=0.002  Score=52.16  Aligned_cols=28  Identities=25%  Similarity=0.440  Sum_probs=24.8

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ...++..++++|++|+|||||++.+++-
T Consensus        58 ~i~~Ge~vaivG~nGsGKSTLl~~i~Gl   85 (281)
T d1r0wa_          58 NIEKGEMLAITGSTGSGKTSLLMLILGE   85 (281)
T ss_dssp             EECTTCEEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEcCCCEEEEECCCCChHHHHHHHHhCC
Confidence            4567789999999999999999999874

>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=96.04  E-value=0.0017  Score=49.93  Aligned_cols=28  Identities=25%  Similarity=0.309  Sum_probs=24.1

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ...++..++++|+.|+|||||++.+++-
T Consensus        23 ~i~~Gei~~l~G~NGsGKSTLl~~i~gl   50 (200)
T d1sgwa_          23 TIEKGNVVNFHGPNGIGKTTLLKTISTY   50 (200)
T ss_dssp             EEETTCCEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEcCCCEEEEECCCCChHHHHHHHHhcc
Confidence            4456668999999999999999999874

>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=96.02  E-value=0.0016  Score=47.55  Aligned_cols=21  Identities=29%  Similarity=0.453  Sum_probs=19.0

Q ss_pred             EEEEEeCCCCChHHHHHHHhc
Q 025346          117 YVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .|++.|++|+||||+++.+..
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            588999999999999998874

>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=95.98  E-value=0.0053  Score=48.03  Aligned_cols=51  Identities=20%  Similarity=0.282  Sum_probs=35.3

Q ss_pred             ccCccEEEEEEeCCCCc---hhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHH
Q 025346          193 GINADCIVVLVDACKAP---ERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAK  246 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~~---~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~  246 (254)
                      ..+.|.+++|+.+.++.   ..+++.+...   ...+++.+||+||+||.+..+..+
T Consensus         8 vANiD~~~iV~s~~~P~~~~~~idR~Lv~a---~~~~i~pvIvlnK~DL~~~~~~~~   61 (231)
T d1t9ha2           8 ICNVDQAVLVFSAVQPSFSTALLDRFLVLV---EANDIQPIICITKMDLIEDQDTED   61 (231)
T ss_dssp             EECCCEEEEEEESTTTTCCHHHHHHHHHHH---HTTTCEEEEEEECGGGCCCHHHHH
T ss_pred             ccccCEEEEEEECCCCCCCHHHHHHHHHHH---HHcCCCEEEEEecccccccHHHHH
Confidence            56889999999886632   3334433322   246789999999999998765443

>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=95.96  E-value=0.0043  Score=48.38  Aligned_cols=53  Identities=26%  Similarity=0.334  Sum_probs=36.7

Q ss_pred             ccCccEEEEEEeCCCCc---hhHHHHHHHhhcccCCCCCEEEEEecCCCCChHhHHHHH
Q 025346          193 GINADCIVVLVDACKAP---ERIDEILEEGVGDHKDKLPILLVLNKKDLIKPGEIAKKL  248 (254)
Q Consensus       193 ~~~~d~iv~vid~~~~~---~~~~~~~~~~~~~~~~~~piivV~nK~Dl~~~~~~~~~~  248 (254)
                      ..+.|.+++|+.+..+.   ..+++++....   ..++|.+||+||+||.++++.....
T Consensus         8 vANiD~vliV~s~~~P~~~~~~ldR~Lv~a~---~~~i~pvIvlnK~DL~~~~~~~~~~   63 (225)
T d1u0la2           8 VANVDQVILVVTVKMPETSTYIIDKFLVLAE---KNELETVMVINKMDLYDEDDLRKVR   63 (225)
T ss_dssp             EESCCEEEEEECSSTTCCCHHHHHHHHHHHH---HTTCEEEEEECCGGGCCHHHHHHHH
T ss_pred             cccCCEEEEEEeCCCCCCCHHHHHHHHHHHH---HcCCCEEEEEeCcccCCHHHHHHHH
Confidence            56889999999886632   23344333222   3579999999999999887665443

>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=95.90  E-value=0.0026  Score=50.21  Aligned_cols=28  Identities=21%  Similarity=0.417  Sum_probs=24.4

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ...++-.++++|++|+|||||++.+.+-
T Consensus        28 ~v~~Ge~~~liGpsGaGKSTLl~~i~Gl   55 (239)
T d1v43a3          28 TIKDGEFLVLLGPSGCGKTTTLRMIAGL   55 (239)
T ss_dssp             EECTTCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             EECCCCEEEEECCCCChHHHHHHHHHcC
Confidence            4456678999999999999999999875

>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=95.87  E-value=0.0023  Score=47.64  Aligned_cols=21  Identities=29%  Similarity=0.631  Sum_probs=18.6

Q ss_pred             EEEEEeCCCCChHHHHHHHhc
Q 025346          117 YVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +|+++|+||+||||++..+..
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~   22 (182)
T d1zina1           2 NLVLMGLPGAGKGTQAEKIVA   22 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999988753

>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=95.84  E-value=0.0026  Score=46.83  Aligned_cols=21  Identities=29%  Similarity=0.438  Sum_probs=18.6

Q ss_pred             EEEEEeCCCCChHHHHHHHhc
Q 025346          117 YVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~  137 (254)
                      -+.|+|.+|+|||||+++++.
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            467999999999999998864

>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=95.84  E-value=0.0029  Score=49.96  Aligned_cols=28  Identities=25%  Similarity=0.181  Sum_probs=24.3

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ...++..++++|++|+|||||++.+.+-
T Consensus        27 ~i~~Ge~~~iiG~sGsGKSTLl~~i~Gl   54 (240)
T d3dhwc1          27 HVPAGQIYGVIGASGAGKSTLIRCVNLL   54 (240)
T ss_dssp             EECSSCEEEEEESTTSSHHHHHHHHTTS
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHcCC
Confidence            4456778999999999999999999875

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.82  E-value=0.003  Score=47.76  Aligned_cols=25  Identities=28%  Similarity=0.545  Sum_probs=21.7

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .+.+.|+++|++|+||||++..+..
T Consensus         6 ~~~~iI~i~GppGSGKsT~a~~La~   30 (196)
T d1ukza_           6 DQVSVIFVLGGPGAGKGTQCEKLVK   30 (196)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHH
Confidence            4466899999999999999998875

>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=95.71  E-value=0.0025  Score=46.97  Aligned_cols=21  Identities=38%  Similarity=0.528  Sum_probs=19.0

Q ss_pred             EEEEEeCCCCChHHHHHHHhc
Q 025346          117 YVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .|++.|++|+|||||+..+..
T Consensus         3 ~v~ItG~~GtGKTtl~~~i~~   23 (189)
T d2i3ba1           3 HVFLTGPPGVGKTTLIHKASE   23 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            489999999999999998874

>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=95.71  E-value=0.0027  Score=47.90  Aligned_cols=22  Identities=27%  Similarity=0.508  Sum_probs=19.5

Q ss_pred             EEEEEeCCCCChHHHHHHHhcC
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      .|+++|++|+||+||+++++..
T Consensus         3 pIvl~GpsG~GK~tl~~~L~~~   24 (186)
T d1gkya_           3 PIVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHh
Confidence            3899999999999999998754

>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=95.69  E-value=0.0029  Score=47.27  Aligned_cols=21  Identities=29%  Similarity=0.651  Sum_probs=18.9

Q ss_pred             EEEEEeCCCCChHHHHHHHhc
Q 025346          117 YVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +|+++|++|+||||++..+..
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~   22 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVE   22 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999988874

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.69  E-value=0.003  Score=47.61  Aligned_cols=23  Identities=35%  Similarity=0.502  Sum_probs=20.0

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ++.|+++|++|+||||.+..+..
T Consensus         1 p~iI~i~GppGSGKsT~a~~La~   23 (194)
T d1teva_           1 PLVVFVLGGPGAGKGTQCARIVE   23 (194)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999998864

>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=95.65  E-value=0.0031  Score=47.03  Aligned_cols=21  Identities=38%  Similarity=0.545  Sum_probs=19.0

Q ss_pred             EEEEEeCCCCChHHHHHHHhc
Q 025346          117 YVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +|+++|++|+||||++..+..
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~   22 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAE   22 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999998864

>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=95.62  E-value=0.009  Score=47.80  Aligned_cols=23  Identities=22%  Similarity=0.408  Sum_probs=20.1

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcC
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      .+++++|++|+|||+++..+...
T Consensus        40 ~n~lLVG~~GvGKTalv~~la~r   62 (268)
T d1r6bx2          40 NNPLLVGESGVGKTAIAEGLAWR   62 (268)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCcEEECCCCCcHHHHHHHHHHH
Confidence            46899999999999999988754

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=95.62  E-value=0.0042  Score=46.43  Aligned_cols=23  Identities=35%  Similarity=0.387  Sum_probs=19.8

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +..|+|.|++|+|||||++.+..
T Consensus        22 ~~iIgI~G~~GSGKSTla~~L~~   44 (198)
T d1rz3a_          22 RLVLGIDGLSRSGKTTLANQLSQ   44 (198)
T ss_dssp             SEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            44688999999999999998863

>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=95.61  E-value=0.0037  Score=49.29  Aligned_cols=29  Identities=21%  Similarity=0.403  Sum_probs=24.4

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCc
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      ...++-.++++|++|+|||||++.+.+-.
T Consensus        25 ~i~~Ge~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          25 EVKDGEFMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             EEETTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEcCCCEEEEECCCCChHHHHHHHHhcCC
Confidence            34556789999999999999999998753

>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=95.59  E-value=0.0036  Score=46.60  Aligned_cols=21  Identities=33%  Similarity=0.537  Sum_probs=18.8

Q ss_pred             EEEEEeCCCCChHHHHHHHhc
Q 025346          117 YVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +|+++|++|+||||.+..+..
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~   22 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIME   22 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999988863

>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=95.56  E-value=0.0026  Score=49.87  Aligned_cols=29  Identities=21%  Similarity=0.408  Sum_probs=24.9

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCc
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      ...++-.++++|++|+|||||++.+.+-.
T Consensus        22 ~i~~Ge~~~liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          22 KVESGEYFVILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             EECTTCEEEEECCCTHHHHHHHHHHHTSS
T ss_pred             EECCCCEEEEECCCCCcHHHHHHHHhcCc
Confidence            44567789999999999999999999753

>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=95.56  E-value=0.0039  Score=49.24  Aligned_cols=28  Identities=21%  Similarity=0.366  Sum_probs=24.5

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ...++..++++|++|+|||||++.+.+-
T Consensus        28 ~i~~Gei~~liGpnGaGKSTl~~~i~Gl   55 (240)
T d1ji0a_          28 KVPRGQIVTLIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             EEETTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             EECCCCEEEEECCCCCcHHHHHHHHhCC
Confidence            4456778999999999999999999975

>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=95.55  E-value=0.0041  Score=49.02  Aligned_cols=29  Identities=14%  Similarity=0.158  Sum_probs=24.6

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCc
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      ...++..++++|+.|+|||||++.+.+-.
T Consensus        24 ~v~~Gei~glvG~nGaGKSTLl~~l~G~~   52 (238)
T d1vpla_          24 EIEEGEIFGLIGPNGAGKTTTLRIISTLI   52 (238)
T ss_dssp             EECTTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34566789999999999999999999763

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=95.55  E-value=0.0038  Score=46.08  Aligned_cols=21  Identities=33%  Similarity=0.482  Sum_probs=18.6

Q ss_pred             cEEEEEeCCCCChHHHHHHHh
Q 025346          116 GYVAVLGKPNVGKSTLANQMI  136 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~  136 (254)
                      ..|++.|++|+||||+++.+.
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            358899999999999999885

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=95.55  E-value=0.0044  Score=45.32  Aligned_cols=22  Identities=18%  Similarity=0.302  Sum_probs=19.0

Q ss_pred             cEEEEEeCCCCChHHHHHHHhc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .-|++.|++|+||||+.+.+..
T Consensus         4 kiI~l~G~~GsGKsTva~~L~~   25 (178)
T d1qhxa_           4 RMIILNGGSSAGKSGIVRCLQS   25 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4577789999999999998875

>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=95.52  E-value=0.0043  Score=46.82  Aligned_cols=23  Identities=30%  Similarity=0.544  Sum_probs=20.2

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +..|+++|+||+||||++..+..
T Consensus         8 ~~iI~l~G~pGSGKsT~a~~La~   30 (194)
T d3adka_           8 SKIIFVVGGPGSGKGTQCEKIVQ   30 (194)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            45688999999999999998865

>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=95.49  E-value=0.0035  Score=49.41  Aligned_cols=23  Identities=30%  Similarity=0.564  Sum_probs=20.6

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcC
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..++++|++|+|||||++.+.+-
T Consensus        25 e~~~liGpnGaGKSTll~~i~Gl   47 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAGI   47 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEEECCCCChHHHHHHHHHcC
Confidence            36789999999999999999875

>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=95.48  E-value=0.0042  Score=48.98  Aligned_cols=23  Identities=22%  Similarity=0.408  Sum_probs=19.9

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +.-+++.|+||+||||++..+..
T Consensus        32 P~~ilL~GpPGtGKT~la~~la~   54 (273)
T d1gvnb_          32 PTAFLLGGQPGSGKTSLRSAIFE   54 (273)
T ss_dssp             CEEEEEECCTTSCTHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            34588999999999999998875

>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=95.46  E-value=0.0046  Score=46.14  Aligned_cols=23  Identities=30%  Similarity=0.432  Sum_probs=20.0

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ..+|+++|++|+||||++..+..
T Consensus         2 ~mrIvl~G~pGSGKtT~a~~La~   24 (180)
T d1akya1           2 SIRMVLIGPPGAGKGTQAPNLQE   24 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            34789999999999999998864

>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=95.37  E-value=0.0035  Score=49.16  Aligned_cols=27  Identities=30%  Similarity=0.429  Sum_probs=23.6

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..++-.++++|++|+|||||++.+.+-
T Consensus        22 I~~Gei~~iiG~nGaGKSTLl~~l~Gl   48 (231)
T d1l7vc_          22 VRAGEILHLVGPNGAGKSTLLARMAGM   48 (231)
T ss_dssp             EETTCEEECBCCTTSSHHHHHHHHHTS
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhCC
Confidence            355678999999999999999999874

>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=95.31  E-value=0.0055  Score=48.87  Aligned_cols=28  Identities=18%  Similarity=0.261  Sum_probs=24.6

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ...++-.++++|++|+|||||++.+.+-
T Consensus        24 ~i~~GEi~~iiG~sGsGKSTLl~~i~Gl   51 (258)
T d1b0ua_          24 QARAGDVISIIGSSGSGKSTFLRCINFL   51 (258)
T ss_dssp             EECTTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHHcC
Confidence            4566778999999999999999999875

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=95.31  E-value=0.0043  Score=45.51  Aligned_cols=21  Identities=33%  Similarity=0.428  Sum_probs=18.4

Q ss_pred             EEEEEeCCCCChHHHHHHHhc
Q 025346          117 YVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +|+++|++|+||||+...+..
T Consensus         2 ~I~liG~~GsGKsTi~k~La~   22 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARALAK   22 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            488999999999999988753

>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=95.23  E-value=0.003  Score=49.91  Aligned_cols=29  Identities=21%  Similarity=0.353  Sum_probs=25.0

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcCc
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQK  139 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~~  139 (254)
                      ...++-.++++|++|+|||||++.+.+-.
T Consensus        27 ~i~~Ge~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          27 NIENGERFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             EECTTCEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             EECCCCEEEEECCCCCcHHHHHHHHHcCc
Confidence            44567789999999999999999998753

>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=95.20  E-value=0.0027  Score=47.55  Aligned_cols=24  Identities=21%  Similarity=0.259  Sum_probs=20.8

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ++..|.++|.+|+||||+.+.+..
T Consensus        18 ~g~vI~L~G~pGSGKTTiAk~La~   41 (195)
T d1x6va3          18 RGCTVWLTGLSGAGKTTVSMALEE   41 (195)
T ss_dssp             CCEEEEEESSCHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            556788999999999999998864

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.20  E-value=0.0048  Score=46.61  Aligned_cols=21  Identities=33%  Similarity=0.544  Sum_probs=18.8

Q ss_pred             EEEEeCCCCChHHHHHHHhcC
Q 025346          118 VAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       118 ~~~~G~~~~gKssl~~~~~~~  138 (254)
                      |+++|++|+||||+++.++..
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~~   23 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQE   23 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            889999999999999998643

>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=95.19  E-value=0.006  Score=48.50  Aligned_cols=28  Identities=32%  Similarity=0.443  Sum_probs=24.4

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ...++-.++++|+.|+|||||++.+.+-
T Consensus        26 ~v~~Gei~~liG~nGaGKSTLl~~i~Gl   53 (254)
T d1g6ha_          26 SVNKGDVTLIIGPNGSGKSTLINVITGF   53 (254)
T ss_dssp             EEETTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             EECCCCEEEEECCCCCcHHHHHHHHHCC
Confidence            4456678999999999999999999975

>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=95.15  E-value=0.006  Score=47.42  Aligned_cols=22  Identities=36%  Similarity=0.578  Sum_probs=19.4

Q ss_pred             cEEEEEeCCCCChHHHHHHHhc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +.+++.||||+||||+++.+..
T Consensus        36 ~~~L~~GPpGtGKT~lA~~la~   57 (238)
T d1in4a2          36 DHVLLAGPPGLGKTTLAHIIAS   57 (238)
T ss_dssp             CCEEEESSTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHh
Confidence            4589999999999999998874

>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=95.09  E-value=0.0055  Score=47.70  Aligned_cols=23  Identities=30%  Similarity=0.512  Sum_probs=20.0

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .+.+++.|+||+||||+++.+..
T Consensus        35 ~~~~Ll~GPpG~GKTtla~~la~   57 (239)
T d1ixsb2          35 LEHLLLFGPPGLGKTTLAHVIAH   57 (239)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH
Confidence            34589999999999999998874

>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=95.05  E-value=0.0059  Score=45.02  Aligned_cols=20  Identities=15%  Similarity=0.373  Sum_probs=18.0

Q ss_pred             EEEEEeCCCCChHHHHHHHh
Q 025346          117 YVAVLGKPNVGKSTLANQMI  136 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~  136 (254)
                      .|+++|++|+||||+.+.+.
T Consensus         4 ~Iil~G~~GsGKSTia~~LA   23 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELA   23 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHH
Confidence            47889999999999999885

>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=94.96  E-value=0.084  Score=40.67  Aligned_cols=23  Identities=17%  Similarity=0.221  Sum_probs=19.8

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .+.+++.|++|+||||++..++.
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            34589999999999999998875

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.92  E-value=0.0077  Score=45.98  Aligned_cols=22  Identities=23%  Similarity=0.410  Sum_probs=19.1

Q ss_pred             CcEEEEEeCCCCChHHHHHHHh
Q 025346          115 SGYVAVLGKPNVGKSTLANQMI  136 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~  136 (254)
                      +..|++.|++|+||||+.+.+.
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            4568899999999999999774

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=94.84  E-value=0.0098  Score=46.53  Aligned_cols=25  Identities=24%  Similarity=0.480  Sum_probs=21.3

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .....+++.|++|+|||++++.+..
T Consensus        41 ~~~~~lll~GppGtGKT~l~~~l~~   65 (276)
T d1fnna2          41 HHYPRATLLGRPGTGKTVTLRKLWE   65 (276)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCCceEEECCCCCCHHHHHHHHHH
Confidence            3455799999999999999998874

>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=94.82  E-value=0.0084  Score=44.30  Aligned_cols=20  Identities=40%  Similarity=0.484  Sum_probs=17.5

Q ss_pred             EEEEEeCCCCChHHHHHHHh
Q 025346          117 YVAVLGKPNVGKSTLANQMI  136 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~  136 (254)
                      .+++.|.+|+||||+++.+.
T Consensus         3 iivi~G~~GsGKTT~~~~La   22 (194)
T d1nksa_           3 IGIVTGIPGVGKSTVLAKVK   22 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            46678999999999999885

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=94.82  E-value=0.0091  Score=44.82  Aligned_cols=27  Identities=22%  Similarity=0.206  Sum_probs=22.8

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ...++..|++-|..|+||||+++.+..
T Consensus         5 ~~~kp~~I~ieG~~GsGKTTl~~~L~~   31 (197)
T d2vp4a1           5 EGTQPFTVLIEGNIGSGKTTYLNHFEK   31 (197)
T ss_dssp             TTCCCEEEEEECSTTSCHHHHHHTTGG
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHHH
Confidence            445566899999999999999998874

>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=94.78  E-value=0.011  Score=46.13  Aligned_cols=26  Identities=23%  Similarity=0.326  Sum_probs=21.8

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ...+.+++.|++|+||||++..+...
T Consensus        50 ~~~~~lll~GPpG~GKTt~a~~la~~   75 (253)
T d1sxja2          50 GVFRAAMLYGPPGIGKTTAAHLVAQE   75 (253)
T ss_dssp             TSCSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHH
Confidence            34457999999999999999998753

>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=94.60  E-value=0.009  Score=48.76  Aligned_cols=23  Identities=22%  Similarity=0.482  Sum_probs=20.1

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +..++++||||+|||.|++.+..
T Consensus        49 ~~~iLl~GPpG~GKT~lAkalA~   71 (309)
T d1ofha_          49 PKNILMIGPTGVGKTEIARRLAK   71 (309)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHhh
Confidence            35688999999999999999875

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=94.46  E-value=0.012  Score=45.44  Aligned_cols=22  Identities=32%  Similarity=0.394  Sum_probs=19.5

Q ss_pred             cEEEEEeCCCCChHHHHHHHhc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +.+++.|++|+|||+++..+..
T Consensus        46 ~~lll~Gp~G~GKTtla~~iak   67 (231)
T d1iqpa2          46 PHLLFAGPPGVGKTTAALALAR   67 (231)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHH
Confidence            4589999999999999998875

>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=94.37  E-value=0.011  Score=48.62  Aligned_cols=23  Identities=26%  Similarity=0.329  Sum_probs=20.5

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcC
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..+++.|++|+||||+++.++..
T Consensus       167 ~nili~G~tgSGKTT~l~al~~~  189 (323)
T d1g6oa_         167 KNVIVCGGTGSGKTTYIKSIMEF  189 (323)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGGG
T ss_pred             CCEEEEeeccccchHHHHHHhhh
Confidence            46999999999999999999853

>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=94.31  E-value=0.015  Score=44.44  Aligned_cols=23  Identities=30%  Similarity=0.353  Sum_probs=19.8

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ...|++.|++|+||||....+..
T Consensus         3 ~i~IaIdGp~GsGKgT~ak~La~   25 (223)
T d1q3ta_           3 TIQIAIDGPASSGKSTVAKIIAK   25 (223)
T ss_dssp             CCEEEEECSSCSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            34688889999999999998874

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=94.23  E-value=0.014  Score=44.38  Aligned_cols=24  Identities=25%  Similarity=0.396  Sum_probs=20.1

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcC
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      .|.|++.|++|+||||....+..+
T Consensus         3 ~piI~I~GppGSGKgT~ak~La~~   26 (225)
T d1ckea_           3 APVITIDGPSGAGKGTLCKAMAEA   26 (225)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
Confidence            347888899999999999988743

>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=94.19  E-value=0.015  Score=45.38  Aligned_cols=22  Identities=32%  Similarity=0.351  Sum_probs=19.3

Q ss_pred             cEEEEEeCCCCChHHHHHHHhc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ..+++.|++|+|||||+..++.
T Consensus        30 ~~i~i~G~~G~GKTsLl~~~~~   51 (283)
T d2fnaa2          30 PITLVLGLRRTGKSSIIKIGIN   51 (283)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEEcCCCCcHHHHHHHHHH
Confidence            4688999999999999998864

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=94.15  E-value=0.038  Score=46.38  Aligned_cols=21  Identities=24%  Similarity=0.578  Sum_probs=17.8

Q ss_pred             EEEEEeCCCCChHHHHHHHhc
Q 025346          117 YVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +++++|++|+|||+++..+..
T Consensus        45 n~llvG~~GvGKtaiv~~la~   65 (387)
T d1qvra2          45 NPVLIGEPGVGKTAIVEGLAQ   65 (387)
T ss_dssp             CCEEEECTTSCHHHHHHHHHH
T ss_pred             CCeEECCCCCCHHHHHHHHHH
Confidence            468889999999999987664

>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=93.97  E-value=0.019  Score=43.58  Aligned_cols=23  Identities=22%  Similarity=0.556  Sum_probs=20.0

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcC
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      .+++++|++|+|||+++..+...
T Consensus        44 ~n~lLvG~pGVGKTalv~~LA~r   66 (195)
T d1jbka_          44 NNPVLIGEPGVGKTAIVEGLAQR   66 (195)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCeEEEecCCcccHHHHHHHHHH
Confidence            36899999999999999988754

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=93.69  E-value=0.018  Score=44.90  Aligned_cols=22  Identities=23%  Similarity=0.294  Sum_probs=18.8

Q ss_pred             cEEEEEeCCCCChHHHHHHHhc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ..+++.|++|+|||+++..+..
T Consensus        35 ~~~Ll~Gp~G~GKtt~a~~~~~   56 (239)
T d1njfa_          35 HAYLFSGTRGVGKTSIARLLAK   56 (239)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHH
T ss_pred             eeEEEECCCCCcHHHHHHHHHH
Confidence            3588999999999999998754

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.64  E-value=0.021  Score=43.88  Aligned_cols=22  Identities=18%  Similarity=0.344  Sum_probs=19.2

Q ss_pred             EEEEEeCCCCChHHHHHHHhcC
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      .+++.|++|+||||++..++..
T Consensus        35 ~lll~Gp~G~GKTtl~~~i~~~   56 (237)
T d1sxjd2          35 HMLFYGPPGTGKTSTILALTKE   56 (237)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCChHHHHHHHHHH
Confidence            4899999999999999988753

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=93.58  E-value=0.024  Score=43.39  Aligned_cols=26  Identities=31%  Similarity=0.316  Sum_probs=22.3

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ..++..|.+.|.+|+||||+.+.+..
T Consensus        21 ~~kg~vIwltGlsGsGKTTia~~L~~   46 (208)
T d1m7ga_          21 NQRGLTIWLTGLSASGKSTLAVELEH   46 (208)
T ss_dssp             TSSCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            45566899999999999999998864

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.49  E-value=0.023  Score=43.54  Aligned_cols=21  Identities=24%  Similarity=0.431  Sum_probs=18.4

Q ss_pred             EEEEEeCCCCChHHHHHHHhc
Q 025346          117 YVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .+++.|++|+||||++..+..
T Consensus        38 ~~ll~Gp~G~GKTt~a~~la~   58 (224)
T d1sxjb2          38 HMIISGMPGIGKTTSVHCLAH   58 (224)
T ss_dssp             CEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCchhhHHHHHH
Confidence            488999999999999987764

>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=93.39  E-value=0.031  Score=42.89  Aligned_cols=22  Identities=18%  Similarity=0.264  Sum_probs=19.1

Q ss_pred             EEEEEeCCCCChHHHHHHHhcC
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      .+.+.|++|+|||.|++.+...
T Consensus        38 ~l~l~G~~G~GKTHLl~A~~~~   59 (213)
T d1l8qa2          38 PIFIYGSVGTGKTHLLQAAGNE   59 (213)
T ss_dssp             SEEEECSSSSSHHHHHHHHHHH
T ss_pred             cEEEECCCCCcHHHHHHHHHHH
Confidence            3889999999999999988653

>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=93.35  E-value=0.013  Score=46.14  Aligned_cols=21  Identities=29%  Similarity=0.533  Sum_probs=17.8

Q ss_pred             EEEEeCCCCChHHHHHHHhcC
Q 025346          118 VAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       118 ~~~~G~~~~gKssl~~~~~~~  138 (254)
                      +++.|++|+|||++++.+...
T Consensus        49 l~l~GppGtGKT~l~~~l~~~   69 (287)
T d1w5sa2          49 YGSIGRVGIGKTTLAKFTVKR   69 (287)
T ss_dssp             EECTTCCSSSHHHHHHHHHHH
T ss_pred             EEeECCCCCCHHHHHHHHHHH
Confidence            456799999999999998754

>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=93.32  E-value=0.027  Score=41.91  Aligned_cols=24  Identities=25%  Similarity=0.275  Sum_probs=19.9

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcC
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      +..|++.|.+|+||||+++.|...
T Consensus         3 p~IIgitG~~gSGKstva~~l~~~   26 (191)
T d1uf9a_           3 PIIIGITGNIGSGKSTVAALLRSW   26 (191)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHC
Confidence            346889999999999999987543

>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=93.20  E-value=0.033  Score=45.31  Aligned_cols=25  Identities=28%  Similarity=0.325  Sum_probs=21.0

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHh
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMI  136 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~  136 (254)
                      ...+..|+|.|++|+||||+.+.+.
T Consensus        77 ~k~P~iIGIaG~sgSGKSTla~~L~  101 (308)
T d1sq5a_          77 QRIPYIISIAGSVAVGKSTTARVLQ  101 (308)
T ss_dssp             CCCCEEEEEEECTTSSHHHHHHHHH
T ss_pred             CCCCEEEEEeCCCCCCCcHHHHHHH
Confidence            3456689999999999999988775

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.19  E-value=0.027  Score=43.10  Aligned_cols=22  Identities=18%  Similarity=0.357  Sum_probs=19.3

Q ss_pred             EEEEEeCCCCChHHHHHHHhcC
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      .+++.|++|+||||++..+...
T Consensus        37 ~lLl~Gp~G~GKttl~~~la~~   58 (227)
T d1sxjc2          37 HLLFYGPPGTGKTSTIVALARE   58 (227)
T ss_dssp             CEEEECSSSSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCChhHHHHHHHHH
Confidence            4889999999999999988753

>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=93.07  E-value=0.035  Score=47.54  Aligned_cols=23  Identities=22%  Similarity=0.482  Sum_probs=20.3

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +.+|+++||+|+|||-|++++..
T Consensus        49 ksNILliGPTGvGKTlLAr~LAk   71 (443)
T d1g41a_          49 PKNILMIGPTGVGKTEIARRLAK   71 (443)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHH
T ss_pred             cccEEEECCCCCCHHHHHHHHHH
Confidence            34799999999999999999874

>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=92.97  E-value=0.019  Score=46.24  Aligned_cols=23  Identities=26%  Similarity=0.384  Sum_probs=17.0

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHh
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMI  136 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~  136 (254)
                      +.+.|+|.|.+|+||||+.+.+.
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            45579999999999999998764

>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=92.75  E-value=0.036  Score=42.18  Aligned_cols=23  Identities=13%  Similarity=0.235  Sum_probs=19.7

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +..+++.|++|+|||+++..+..
T Consensus        24 ~h~lLl~Gp~G~GKtt~a~~~a~   46 (207)
T d1a5ta2          24 HHALLIQALPGMGDDALIYALSR   46 (207)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHH
Confidence            44599999999999999997764

>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=92.53  E-value=0.039  Score=45.88  Aligned_cols=27  Identities=30%  Similarity=0.354  Sum_probs=22.6

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ..++...+++.||||+|||++++.++.
T Consensus       150 ~~~~~~~~~~~g~~~~gk~~~~~~~~~  176 (362)
T d1svma_         150 NIPKKRYWLFKGPIDSGKTTLAAALLE  176 (362)
T ss_dssp             CCTTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCcCeEEEECCCCCCHHHHHHHHHH
Confidence            345566899999999999999998764

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.47  E-value=0.048  Score=43.80  Aligned_cols=25  Identities=24%  Similarity=0.230  Sum_probs=20.2

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHH
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQM  135 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~  135 (254)
                      ....+..|++.|++|+|||||...+
T Consensus        23 ~~~~P~iIGi~G~qGSGKSTl~~~l   47 (286)
T d1odfa_          23 GNKCPLFIFFSGPQGSGKSFTSIQI   47 (286)
T ss_dssp             TCCSCEEEEEECCTTSSHHHHHHHH
T ss_pred             CCCCCEEEEeECCCCCCHHHHHHHH
Confidence            3444568899999999999998765

>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=92.39  E-value=0.037  Score=41.16  Aligned_cols=28  Identities=11%  Similarity=0.223  Sum_probs=23.3

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..+++..+.+.|++|+|||+|+..++..
T Consensus        19 Gi~~G~v~~i~G~~GsGKT~l~l~la~~   46 (242)
T d1n0wa_          19 GIETGSITEMFGEFRTGKTQICHTLAVT   46 (242)
T ss_dssp             SEETTSEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCcCCEEEEEEeCCCCCHHHHHHHHHHH
Confidence            3456678999999999999999988753

>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=92.26  E-value=0.04  Score=40.99  Aligned_cols=27  Identities=26%  Similarity=0.313  Sum_probs=22.6

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLS  141 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~  141 (254)
                      +.-+++.|++|+|||+++..+......
T Consensus        15 g~gvli~G~sG~GKS~lal~l~~~G~~   41 (177)
T d1knxa2          15 GVGVLLTGRSGIGKSECALDLINKNHL   41 (177)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHTTTCE
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHcCCc
Confidence            456999999999999999998876443

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.19  E-value=0.044  Score=41.84  Aligned_cols=28  Identities=18%  Similarity=0.255  Sum_probs=23.7

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..+++..+.+.|++|+|||+|+..++..
T Consensus        30 Gi~~G~~~li~G~pGsGKT~l~lq~~~~   57 (251)
T d1szpa2          30 GVETGSITELFGEFRTGKSQLCHTLAVT   57 (251)
T ss_dssp             SEESSSEEEEEESTTSSHHHHHHHHTTT
T ss_pred             CCcCCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            3556778999999999999999998754

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=92.17  E-value=0.049  Score=41.16  Aligned_cols=23  Identities=30%  Similarity=0.510  Sum_probs=19.4

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +.-|++-|..|+||||+++.+..
T Consensus         2 gkfIviEG~dGsGKsT~~~~L~~   24 (210)
T d4tmka_           2 SKYIVIEGLEGAGKTTARNVVVE   24 (210)
T ss_dssp             CCEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            45688889999999999998763

>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=91.90  E-value=0.063  Score=43.62  Aligned_cols=24  Identities=25%  Similarity=0.346  Sum_probs=20.2

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +...++++|++|+|||.|+..+..
T Consensus        51 p~~~~lf~Gp~GvGKT~lak~la~   74 (315)
T d1r6bx3          51 PVGSFLFAGPTGVGKTEVTVQLSK   74 (315)
T ss_dssp             CSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CceEEEEECCCcchhHHHHHHHHh
Confidence            344689999999999999998764

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.89  E-value=0.034  Score=42.74  Aligned_cols=23  Identities=26%  Similarity=0.325  Sum_probs=20.3

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ...|++-|+.|+||||+++.+..
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~   24 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQ   24 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGG
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999998775

>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=91.79  E-value=0.053  Score=45.11  Aligned_cols=25  Identities=16%  Similarity=0.376  Sum_probs=21.0

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHh
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMI  136 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~  136 (254)
                      ..+...++++||+|||||-+++++.
T Consensus        65 ~~p~~niLfiGPTGvGKTElAk~LA   89 (364)
T d1um8a_          65 ELSKSNILLIGPTGSGKTLMAQTLA   89 (364)
T ss_dssp             TCCCCCEEEECCTTSSHHHHHHHHH
T ss_pred             cCCCcceeeeCCCCccHHHHHHHHH
Confidence            3445579999999999999999875

>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=91.75  E-value=0.059  Score=42.87  Aligned_cols=24  Identities=29%  Similarity=0.477  Sum_probs=20.6

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ....|++.|++|.|||||+..++.
T Consensus        43 ~~~~v~I~GmgGiGKTtLA~~v~~   66 (277)
T d2a5yb3          43 DSFFLFLHGRAGSGKSVIASQALS   66 (277)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHH
Confidence            345789999999999999998864

>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=91.66  E-value=0.043  Score=40.80  Aligned_cols=26  Identities=27%  Similarity=0.289  Sum_probs=22.0

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCcc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKL  140 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~  140 (254)
                      +.-+++.|++|+||||++..+.....
T Consensus        14 g~gvl~~G~sG~GKStlal~l~~~g~   39 (176)
T d1kkma_          14 GLGVLITGDSGVGKSETALELVQRGH   39 (176)
T ss_dssp             TEEEEEECCTTSCHHHHHHHHHHTTC
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHcCC
Confidence            45699999999999999999886544

>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=91.54  E-value=0.052  Score=41.80  Aligned_cols=28  Identities=21%  Similarity=0.258  Sum_probs=23.5

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..+.+..+++.|++|+|||+|...++..
T Consensus        32 Glp~G~~~li~G~pGsGKT~~~lq~~~~   59 (254)
T d1pzna2          32 GIETQAITEVFGEFGSGKTQLAHTLAVM   59 (254)
T ss_dssp             SEESSEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CccCCEEEEEEcCCCCCHHHHHHHHHHH
Confidence            3566778999999999999999988743

>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=91.35  E-value=0.07  Score=40.55  Aligned_cols=22  Identities=23%  Similarity=0.447  Sum_probs=18.2

Q ss_pred             CcEEEEEeCCCCChHHHHHHHh
Q 025346          115 SGYVAVLGKPNVGKSTLANQMI  136 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~  136 (254)
                      +.-|++-|..|+||||++..+.
T Consensus         3 G~lI~ieG~dGsGKsT~~~~L~   24 (209)
T d1nn5a_           3 GALIVLEGVDRAGKSTQSRKLV   24 (209)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHH
T ss_pred             eeEEEEECCCCCCHHHHHHHHH
Confidence            4568888999999999888764

>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=91.34  E-value=0.055  Score=40.58  Aligned_cols=21  Identities=33%  Similarity=0.583  Sum_probs=18.2

Q ss_pred             EEEEEeCCCCChHHHHHHHhc
Q 025346          117 YVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~  137 (254)
                      .|+|-|..|+||||++..+..
T Consensus         2 lI~ieG~dGsGKST~~~~L~~   22 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSG   22 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            488999999999999997763

>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=91.30  E-value=0.064  Score=39.53  Aligned_cols=31  Identities=26%  Similarity=0.354  Sum_probs=24.0

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcCccccccC
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQKLSIVTN  145 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~~~~~~~~  145 (254)
                      +.-+++.|++|+||||+.-.+.......+++
T Consensus        15 g~gvli~G~sg~GKS~la~~l~~~g~~li~D   45 (169)
T d1ko7a2          15 GVGVLITGDSGIGKSETALELIKRGHRLVAD   45 (169)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHTTCEEEES
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHcCCeEEeC
Confidence            4569999999999999998888665433333

>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=90.27  E-value=0.094  Score=40.15  Aligned_cols=28  Identities=14%  Similarity=0.186  Sum_probs=23.9

Q ss_pred             CCCCCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          110 HPNHKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       110 ~~~~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      +..+++..+++.|++|+|||+|...++.
T Consensus        32 GGip~G~~~~i~G~~GsGKT~lalq~~~   59 (258)
T d1v5wa_          32 GGIESMAITEAFGEFRTGKTQLSHTLCV   59 (258)
T ss_dssp             SSBCSSEEEEEECCTTCTHHHHHHHHHH
T ss_pred             CCCcCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3456677899999999999999999874

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=90.18  E-value=0.086  Score=40.37  Aligned_cols=28  Identities=18%  Similarity=0.324  Sum_probs=23.5

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..+++..+++.|++|+|||+|+..++..
T Consensus        22 Gi~~gsl~li~G~pGsGKT~l~~qia~~   49 (242)
T d1tf7a2          22 GFFKDSIILATGATGTGKTLLVSRFVEN   49 (242)
T ss_dssp             SEESSCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCcCCeEEEEEeCCCCCHHHHHHHHHHH
Confidence            3456678999999999999999988754

>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=90.14  E-value=0.097  Score=39.56  Aligned_cols=23  Identities=39%  Similarity=0.371  Sum_probs=19.6

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcC
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..|++.|..|+||||+++.|...
T Consensus         4 ~iIgitG~igSGKStv~~~l~~~   26 (208)
T d1vhta_           4 YIVALTGGIGSGKSTVANAFADL   26 (208)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHT
T ss_pred             EEEEEECCCcCCHHHHHHHHHHC
Confidence            35889999999999999987644

>d1qhla_ c.37.1.12 (A:) Cell division protein MukB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cell division protein MukB
species: Escherichia coli [TaxId: 562]

Probab=89.98  E-value=0.016  Score=42.89  Aligned_cols=20  Identities=25%  Similarity=0.351  Sum_probs=17.3

Q ss_pred             EEEEEeCCCCChHHHHHHHh
Q 025346          117 YVAVLGKPNVGKSTLANQMI  136 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~  136 (254)
                      ..+++|+.|+||||++.++.
T Consensus        26 ~tvi~G~NGsGKStil~Ai~   45 (222)
T d1qhla_          26 VTTLSGGNGAGKSTTMAAFV   45 (222)
T ss_dssp             HHHHHSCCSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHH
Confidence            46678999999999999875

>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=89.64  E-value=0.11  Score=39.17  Aligned_cols=23  Identities=30%  Similarity=0.330  Sum_probs=19.4

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcC
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..|++.|..|+||||+++.|...
T Consensus         3 ~iIgITG~igSGKStv~~~l~~~   25 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFTDL   25 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHC
Confidence            45889999999999999987643

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.32  E-value=0.12  Score=39.67  Aligned_cols=22  Identities=27%  Similarity=0.383  Sum_probs=19.4

Q ss_pred             cEEEEEeCCCCChHHHHHHHhc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ..|++=|.-|+||||+++.+..
T Consensus         3 k~IviEG~~GsGKST~~~~L~~   24 (241)
T d2ocpa1           3 RRLSIEGNIAVGKSTFVKLLTK   24 (241)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHHH
Confidence            4688999999999999998864

>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=89.30  E-value=0.12  Score=43.45  Aligned_cols=26  Identities=27%  Similarity=0.330  Sum_probs=22.3

Q ss_pred             CCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          113 HKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       113 ~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      .+...+++.|++|+||||++..++..
T Consensus       156 ~~~GliLvtGpTGSGKSTTl~~~l~~  181 (401)
T d1p9ra_         156 RPHGIILVTGPTGSGKSTTLYAGLQE  181 (401)
T ss_dssp             SSSEEEEEECSTTSCHHHHHHHHHHH
T ss_pred             hhhceEEEEcCCCCCccHHHHHHhhh
Confidence            34567999999999999999998863

>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=89.27  E-value=0.15  Score=36.94  Aligned_cols=24  Identities=29%  Similarity=0.342  Sum_probs=20.3

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhcC
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      +-.|++.|+-|+|||||+..++..
T Consensus        33 g~ii~L~G~LGaGKTtfvr~~~~~   56 (158)
T d1htwa_          33 AIMVYLNGDLGAGKTTLTRGMLQG   56 (158)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEEecCCCccHHHHHHHHHhh
Confidence            446888999999999999988743

>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=89.21  E-value=0.11  Score=39.45  Aligned_cols=27  Identities=15%  Similarity=0.108  Sum_probs=22.8

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      .+.+..+++.|++|+|||+|+..++..
T Consensus        31 l~~G~l~~i~G~~G~GKT~~~l~~a~~   57 (258)
T d2i1qa2          31 LESQSVTEFAGVFGSGKTQIMHQSCVN   57 (258)
T ss_dssp             EETTEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             ccCCeEEEEEeCCCCCHHHHHHHHHHH
Confidence            455668999999999999999988743

>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=89.15  E-value=0.14  Score=38.90  Aligned_cols=23  Identities=22%  Similarity=0.364  Sum_probs=19.8

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHh
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMI  136 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~  136 (254)
                      ++.-|++-|..|+||||+++.+.
T Consensus         2 kGk~I~iEG~DGsGKST~~~~L~   24 (214)
T d1tmka_           2 RGKLILIEGLDRTGKTTQCNILY   24 (214)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHH
T ss_pred             CeEEEEEECCCCCcHHHHHHHHH
Confidence            45679999999999999998775

>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=89.09  E-value=0.077  Score=42.25  Aligned_cols=19  Identities=26%  Similarity=0.522  Sum_probs=16.8

Q ss_pred             EEEEEeCCCCChHHHHHHH
Q 025346          117 YVAVLGKPNVGKSTLANQM  135 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~  135 (254)
                      .-+++|+.|+||||++.++
T Consensus        26 lnvlvG~NgsGKS~iL~Ai   44 (308)
T d1e69a_          26 VTAIVGPNGSGKSNIIDAI   44 (308)
T ss_dssp             EEEEECCTTTCSTHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHH
Confidence            4678899999999999877

>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=89.06  E-value=0.25  Score=41.20  Aligned_cols=23  Identities=26%  Similarity=0.281  Sum_probs=19.5

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcC
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      ..++++|.+|+|||+++..++..
T Consensus        51 ~H~~I~G~tGsGKT~~l~~li~~   73 (433)
T d1e9ra_          51 RHLLVNGATGTGKSVLLRELAYT   73 (433)
T ss_dssp             GCEEEEECTTSSHHHHHHHHHHH
T ss_pred             ceEEEEeCCCCcHHHHHHHHHHH
Confidence            45899999999999999877644

>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=88.76  E-value=0.097  Score=42.63  Aligned_cols=22  Identities=36%  Similarity=0.445  Sum_probs=18.6

Q ss_pred             EEEEEeCCCCChHHHHHHHhcC
Q 025346          117 YVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      .+++.|+||+|||.+++.+.+.
T Consensus       125 ~~l~~G~pG~GKT~la~ala~~  146 (321)
T d1w44a_         125 MVIVTGKGNSGKTPLVHALGEA  146 (321)
T ss_dssp             EEEEECSSSSCHHHHHHHHHHH
T ss_pred             eEEEECCCCccHHHHHHHHHHH
Confidence            4566799999999999998854

>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=88.65  E-value=0.13  Score=38.68  Aligned_cols=27  Identities=19%  Similarity=0.134  Sum_probs=22.0

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ..+++..+.+.|++|+|||+|+..++.
T Consensus        22 Gi~~G~~~~I~G~~G~GKT~la~~~~~   48 (242)
T d1tf7a1          22 GLPIGRSTLVSGTSGTGKTLFSIQFLY   48 (242)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCcCCeEEEEEeCCCCCHHHHHHHHHH
Confidence            345677899999999999999877653

>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=88.63  E-value=0.069  Score=43.44  Aligned_cols=21  Identities=38%  Similarity=0.514  Sum_probs=18.8

Q ss_pred             cEEEEEeCCCCChHHHHHHHh
Q 025346          116 GYVAVLGKPNVGKSTLANQMI  136 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~  136 (254)
                      ..+++.|++|+|||+++.++.
T Consensus        29 h~vLl~G~pG~GKT~lar~~~   49 (333)
T d1g8pa_          29 GGVLVFGDRGTGKSTAVRALA   49 (333)
T ss_dssp             CCEEEECCGGGCTTHHHHHHH
T ss_pred             CeEEEECCCCccHHHHHHHHH
Confidence            359999999999999999885

>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=88.02  E-value=0.78  Score=36.02  Aligned_cols=27  Identities=19%  Similarity=0.322  Sum_probs=22.6

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ..+.+....+.|++++|||+|+-.+..
T Consensus        56 G~~~g~i~e~~G~~~~GKT~l~l~~~~   82 (269)
T d1mo6a1          56 GLPRGRVIEIYGPESSGKTTVALHAVA   82 (269)
T ss_dssp             SBCSSSEEEEECSSSSSHHHHHHHHHH
T ss_pred             CcccceeEEEecCCCcHHHHHHHHHHH
Confidence            456677899999999999999877664

>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=87.92  E-value=0.15  Score=38.60  Aligned_cols=27  Identities=26%  Similarity=0.327  Sum_probs=22.4

Q ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          111 PNHKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       111 ~~~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ..++...+++.|++++|||.+++.++.
T Consensus        49 ~~PKkn~i~~~GP~~TGKS~f~~sl~~   75 (205)
T d1tuea_          49 GTPKKNCLVFCGPANTGKSYFGMSFIH   75 (205)
T ss_dssp             TCTTCSEEEEESCGGGCHHHHHHHHHH
T ss_pred             CCCCceEEEEECCCCccHHHHHHHHHH
Confidence            345667899999999999999987764

>d1g3qa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=87.65  E-value=0.42  Score=35.95  Aligned_cols=67  Identities=19%  Similarity=0.209  Sum_probs=40.9

Q ss_pred             CeeEEEEecCCCcccchhhhhHHHHHHHHHHccCccEEEEEEeCCC-CchhHHHHHHHhhcccCCCCCEE-EEEecCCCC
Q 025346          162 EYQMILYDTPGIIEKKIHMLDSMMMKNVRSAGINADCIVVLVDACK-APERIDEILEEGVGDHKDKLPIL-LVLNKKDLI  239 (254)
Q Consensus       162 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~iv~vid~~~-~~~~~~~~~~~~~~~~~~~~pii-vV~nK~Dl~  239 (254)
                      ...+.++|+|+-...           .....+..+|.+++++..+. +.....+....+ +  ..+.|++ +|+||.|..
T Consensus       111 ~~d~IiiD~~~~~~~-----------~~~~~l~~aD~viiv~~~~~~s~~~~~~~~~~~-~--~~~~~~~giv~N~~~~~  176 (237)
T d1g3qa_         111 KFDFILIDCPAGLQL-----------DAMSAMLSGEEALLVTNPEISCLTDTMKVGIVL-K--KAGLAILGFVLNRYGRS  176 (237)
T ss_dssp             GCSEEEEECCSSSSH-----------HHHHHHTTCSEEEEEECSCHHHHHHHHHHHHHH-H--HTTCEEEEEEEEEETSC
T ss_pred             cCCEEEEcccccccc-----------cchhhhhhhhcccccccccceecchhhHHHHHH-h--hhhhhhhhhhhcccccc
Confidence            357899999984321           12233667999999998764 223333333222 2  2456755 899999876


Q ss_pred             ChH
Q 025346          240 KPG  242 (254)
Q Consensus       240 ~~~  242 (254)
                      ..+
T Consensus       177 ~~~  179 (237)
T d1g3qa_         177 DRD  179 (237)
T ss_dssp             TTC
T ss_pred             cch
Confidence            543

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

Probab=87.30  E-value=0.21  Score=39.07  Aligned_cols=26  Identities=23%  Similarity=0.224  Sum_probs=21.1

Q ss_pred             CCCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          112 NHKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       112 ~~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ..++..+++.|.+|+|||+|+..+..
T Consensus        32 ~~~G~l~vi~G~~G~GKT~~~~~la~   57 (277)
T d1cr2a_          32 ARGGEVIMVTSGSGMGKSTFVRQQAL   57 (277)
T ss_dssp             BCTTCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCeEEEEEeCCCCCHHHHHHHHHH
Confidence            34456789999999999999887763

>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=86.89  E-value=0.15  Score=42.13  Aligned_cols=20  Identities=20%  Similarity=0.566  Sum_probs=17.0

Q ss_pred             EEEEEeCCCCChHHHHHHHh
Q 025346          117 YVAVLGKPNVGKSTLANQMI  136 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~~~~  136 (254)
                      --+++|+.|+|||+++.++.
T Consensus        27 l~~i~G~NGsGKS~ileAi~   46 (427)
T d1w1wa_          27 FTSIIGPNGSGKSNMMDAIS   46 (427)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            35678999999999999873

>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=86.86  E-value=0.22  Score=40.28  Aligned_cols=22  Identities=36%  Similarity=0.584  Sum_probs=18.9

Q ss_pred             cEEEEEeCCCCChHHHHHHHhc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ..++++|++|+|||.+++.+..
T Consensus        54 ~~~lf~Gp~G~GKt~lak~la~   75 (315)
T d1qvra3          54 GSFLFLGPTGVGKTELAKTLAA   75 (315)
T ss_dssp             EEEEEBSCSSSSHHHHHHHHHH
T ss_pred             eEEEEECCCcchHHHHHHHHHH
Confidence            3678999999999999997764

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

Probab=86.41  E-value=0.26  Score=39.37  Aligned_cols=29  Identities=17%  Similarity=0.324  Sum_probs=25.1

Q ss_pred             CCCCCCcEEEEEeCCCCChHHHHHHHhcC
Q 025346          110 HPNHKSGYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       110 ~~~~~~~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      .+..++.+++++|++|+|||+|+..+...
T Consensus        38 ~PigrGQr~~I~g~~g~GKT~l~~~i~~~   66 (289)
T d1xpua3          38 SPIGRGQRGLIVAPPKAGKTMLLQNIAQS   66 (289)
T ss_dssp             SCCBTTCEEEEEECSSSSHHHHHHHHHHH
T ss_pred             ccccCCCeeeEeCCCCCCHHHHHHHHHHH
Confidence            36678889999999999999999888754

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=86.10  E-value=0.62  Score=34.72  Aligned_cols=24  Identities=4%  Similarity=-0.047  Sum_probs=21.1

Q ss_pred             CCcEEEEEeCCCCChHHHHHHHhc
Q 025346          114 KSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       114 ~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ..+.+++.|++|+|||+++..+..
T Consensus        14 ~~~~~l~~G~~g~gk~~~a~~l~~   37 (198)
T d2gnoa2          14 EGISILINGEDLSYPREVSLELPE   37 (198)
T ss_dssp             SSEEEEEECSSSSHHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHH
Confidence            466899999999999999998774

>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=85.37  E-value=0.19  Score=39.57  Aligned_cols=16  Identities=25%  Similarity=0.299  Sum_probs=13.7

Q ss_pred             EEEEEeCCCCChHHHH
Q 025346          117 YVAVLGKPNVGKSTLA  132 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~  132 (254)
                      .++|.|++|+||||.+
T Consensus        16 ~~lI~g~aGTGKTt~l   31 (306)
T d1uaaa1          16 PCLVLAGAGSGKTRVI   31 (306)
T ss_dssp             EEEECCCTTSCHHHHH
T ss_pred             CEEEEeeCCccHHHHH
Confidence            4788899999999864

>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=85.28  E-value=0.3  Score=37.93  Aligned_cols=22  Identities=32%  Similarity=0.291  Sum_probs=18.9

Q ss_pred             CcEEEEEeCCCCChHHHHHHHh
Q 025346          115 SGYVAVLGKPNVGKSTLANQMI  136 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~  136 (254)
                      +...++.|++|+|||+|+..+.
T Consensus        29 g~~~~i~G~~G~GKS~l~l~la   50 (274)
T d1nlfa_          29 GTVGALVSPGGAGKSMLALQLA   50 (274)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHH
Confidence            4568899999999999998765

>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=84.89  E-value=0.27  Score=37.49  Aligned_cols=22  Identities=23%  Similarity=0.333  Sum_probs=19.3

Q ss_pred             cEEEEEeCCCCChHHHHHHHhc
Q 025346          116 GYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ..|++.|..|+||||.++.|..
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e   23 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            3589999999999999998854

>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=84.00  E-value=0.27  Score=39.07  Aligned_cols=17  Identities=12%  Similarity=0.290  Sum_probs=14.1

Q ss_pred             EEEEEeCCCCChHHHHH
Q 025346          117 YVAVLGKPNVGKSTLAN  133 (254)
Q Consensus       117 ~~~~~G~~~~gKssl~~  133 (254)
                      .++|.|++|+||||.+-
T Consensus        26 ~~lV~g~aGSGKTt~l~   42 (318)
T d1pjra1          26 PLLIMAGAGSGKTRVLT   42 (318)
T ss_dssp             CEEEEECTTSCHHHHHH
T ss_pred             CEEEEecCCccHHHHHH
Confidence            37888999999997653

>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=82.26  E-value=0.42  Score=39.28  Aligned_cols=21  Identities=24%  Similarity=0.450  Sum_probs=17.4

Q ss_pred             CcEEEEEeCCCCChHHHHHHH
Q 025346          115 SGYVAVLGKPNVGKSTLANQM  135 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~  135 (254)
                      .+..++.|++|+|||+++..+
T Consensus       163 ~~~~vI~G~pGTGKTt~i~~~  183 (359)
T d1w36d1         163 RRISVISGGPGTGKTTTVAKL  183 (359)
T ss_dssp             BSEEEEECCTTSTHHHHHHHH
T ss_pred             CCeEEEEcCCCCCceehHHHH
Confidence            457889999999999987543

>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=82.25  E-value=0.58  Score=36.72  Aligned_cols=28  Identities=18%  Similarity=0.300  Sum_probs=22.7

Q ss_pred             CCCCCCcEEEEEeCCCCChHHHHHHHhc
Q 025346          110 HPNHKSGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       110 ~~~~~~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ...++...+.+.|++++|||+|++.+..
T Consensus        99 ~~~~k~n~~~l~G~~~tGKS~f~~~i~~  126 (267)
T d1u0ja_          99 KKFGKRNTIWLFGPATTGKTNIAEAIAH  126 (267)
T ss_dssp             TCSTTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCccEEEEEEcCCCCCHHHHHHHHHH
Confidence            3445666889999999999999998764

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Clostridium pasteurianum [TaxId: 1501]

Probab=81.52  E-value=0.47  Score=36.75  Aligned_cols=21  Identities=38%  Similarity=0.561  Sum_probs=17.7

Q ss_pred             cEEEEEeCCCCChHHHHHHHh
Q 025346          116 GYVAVLGKPNVGKSTLANQMI  136 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~  136 (254)
                      ++|+|.|..|+||||+.-.+.
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA   22 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLT   22 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHH
T ss_pred             CEEEEECCCcCCHHHHHHHHH
Confidence            478899999999999986553

>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=80.79  E-value=0.5  Score=38.40  Aligned_cols=23  Identities=26%  Similarity=0.221  Sum_probs=20.3

Q ss_pred             cEEEEEeCCCCChHHHHHHHhcC
Q 025346          116 GYVAVLGKPNVGKSTLANQMIGQ  138 (254)
Q Consensus       116 ~~~~~~G~~~~gKssl~~~~~~~  138 (254)
                      .+|.|=|.-|+||||+++.+...
T Consensus         7 ~rI~iEG~iGsGKSTl~~~L~~~   29 (333)
T d1p6xa_           7 VRIYLDGVYGIGKSTTGRVMASA   29 (333)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHSG
T ss_pred             EEEEEECCccCCHHHHHHHHHHH
Confidence            47999999999999999988753

>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=80.62  E-value=0.44  Score=38.72  Aligned_cols=23  Identities=22%  Similarity=0.273  Sum_probs=20.3

Q ss_pred             CcEEEEEeCCCCChHHHHHHHhc
Q 025346          115 SGYVAVLGKPNVGKSTLANQMIG  137 (254)
Q Consensus       115 ~~~~~~~G~~~~gKssl~~~~~~  137 (254)
                      ..+|.|=|.-|+||||+++.+..
T Consensus         5 ~lrI~IEG~iGsGKSTl~~~L~~   27 (331)
T d1osna_           5 VLRIYLDGAYGIGKTTAAEEFLH   27 (331)
T ss_dssp             EEEEEEEESSSSCTTHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            34799999999999999999874