Psyllid ID: psy12736

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------
Protein Sequence
MSGHIADSVKRNFPQDVNVVMRDPLLFGDFRNALKETEPRYYEDLLDYSAVGHLFTEIVQLCQMLQASLDEANLGSMSPEELEAVFIQSVYASLGASLVAEAQTVFDAHVKNLTGFLNVVDSDDRLANYTQIPTAESSWYHYTLDRSKNAWVPWRHLVRSYVHDGDKSFGDILVPTTDSTKLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLSPDKYLVIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNEFTRTICDRLNTDELVIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNEFTRTICDRLNTDEDLSLMSGHIADSVKRNFPQDVNVVMRDPLLFGDFRNALKETEPRYYEDLLDYSAVGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEE
Secondary Structure (PSIPRED)
cccHHHHHHHccccHHHHHHHHccccHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHccccccccccccccccccccccccEEEEEEEccccEEEccccccccccccccccccEEEccccHHHHHHHHHHHHHHccccEEEcccccccccHHHHHHHHHHccccccEEccccccccccEEEEEcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHHccHHHHHHHHHHHcccccccccHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHcccccccccccccEEEEccccccccccccccccccHHHHHHHHHHHHHHHHcccccccccccccHHHHHHHHHHHHHHHccccccEEEEccccccHHHHHHHHHHHHcccEEEEEEEcccccccHHHHHHHHHHHHccccccEEEEEEcccccccHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHcccccHHHHHcc
Secondary Structure Prediction (SSPRO)
cccHHHHHHHHHccHHHHHHHccccHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHcccHccHHHHHHHHHHHccccccccccccccccccccccccEEEEEEEccccccEccHHHccccccccccccHcEEEEcccccHHHHHHHHHHHHccccEEEEcccccccEHHHHHHHHHccHccEEEEEEcccccccEEEEEEcccccHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHcccccccEEEEEcHHHHHHHHHHHHHccHHHcccHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcccHHHHHHccccEEEcHHcccccccccEEcccccHHHHHHHHHHHHHHHHHHccccccccEEEHHHHHHHHHHHHHHHccccccEEEEEEccccHHHHHHHHHHHHcccEEEEEEEccccHHHHHHHHHHHHHHHccccccEEEEEEcHHHHHHHHHHHHHHHHcccccccccHcHHHHHHHHHHHHHHcccccccHHHHcc
Coil and Loop (DISEMBL)
msghiadsvkrnfpqdvnvvmrdpllfgdFRNAlketepryyedlldysavGHLFTEIVQLCQMLQASldeanlgsmspeELEAVFIQSVYASLGASLVAEAQTVFDAHVKNLTGFlnvvdsddrlanytqiptaesswyhytldrsknawvpwRHLVRSYVhdgdksfgdilvpttdsTKLTWILSLMNEikrpcivvgdtgtskTATMMNFLRSLSPDKYLviaelpptpakfhyIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNEFTRTICDrlntdelviaelpptpakfhyIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNEFTRTICDrlntdedlslmsghiadsvkrnfpqdvnvvmrdpllfgdFRNAlketepryyedlldysaVGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLSrghcmvvgvegggkRSLVRLASFAAGYQVFTIQLsrgyneasFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEGYQVFTIQLsrgyneasFKEDLKSLYNLLGVKNQATVFLFTAAEIVEE
Flexible Loop (DISEMBL)
msghiadsvkrnfpqdvnvvmrdpLLFGDFRNALKETEPRYYEDLLDYSAVGHLFTEIVQLCQMLQASLDEANLGSMSPEELEAVFIQSVYASLGASLVAEAQTVFDAHVKNLTGFlnvvdsddRLANYTQIptaesswyhYTLDRSKNAWVPWRHLVRSYVHdgdksfgdilvpttDSTKLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLSPDKYLVIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNEFTRTICDRLNTDELVIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNEFTRTICDRLNTDEDLSLMSGHIADSVKRNFPQDVNVVMRDPLLFGDFRNALKETEPRYYEDLLDYSAVGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRalrlsrghcmvVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEE
Low Complexity Region (SEG)
MSGHIADSVKRNFPQDVNVVMRDPLLFGDFRNALKETEPRYYEDLLDYSAVGHLFTEIVQLCQMLQASLDEANLGSMSPEELEAVFIQSVYASLGASLVAEAQTVFDAHVKNLTGFLNVVDSDDRLANYTQIPTAESSWYHYTLDRSKNAWVPWRHLVRSYVHDGDKSFGDILVPTTDSTKLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLSPDKYLVIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNEFTRTICDRLNTDELVIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNEFTRTICDRLNTDEDLSLMSGHIADSVKRNFPQDVNVVMRDPLLFGDFRNALKETEPRYYEDLLDYSAVGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEE
Disordered region (IsUnstruct)
**************QDVNVVMRDPLLFGDFRNALKETEPRYYEDLLDYSAVGHLFTEIVQLCQMLQASLDEANL******ELEAVFIQSVYASLGASLVAEAQTVFDAHVKNLTGFLNVVDSDDRLANYTQIPTAESSWYHYTLDRSKNAWVPWRHLVRSYVHDGDKSFGDILVPTTDSTKLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLSPDKYLVIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNEFTRTICDRLNTDELVIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNEFTRTICDRLNTDEDLSLMSGHIADSVKRNFPQDVNVVMRDPLLFGDFRNALKETEPRYYEDLLDYSAVGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEI***
Disordered Region (DISOPRED)
*SGHIADSVKRNFPQDVNVVMRDPLLFGDFRNALKETEPRYYEDLLDYSAVGHLFTEIVQLCQMLQASLDEANLGSMSPEELEAVFIQSVYASLGASLVAEAQTVFDAHVKNLTGFLNVVDSDDRLANYTQIPTAESSWYHYTLDRSKNAWVPWRHLVRSYVHDGDKSFGDILVPTTDSTKLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLSPDKYLVIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNEFTRTICDRLNTDELVIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNEFTRTICDRLNTDEDLSLMSGHIADSVKRNFPQDVNVVMRDPLLFGDFRNALKETEPRYYEDLLDYSAVGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEGYQVFTIQLSRGYNEASFKEDLKSLYNLLG**N***************
Disordered Region (DISEMBL)
********VKRNFPQDVNVVMRDPLLFGDFRNALKETEPRYYEDLLDYSAVGHLFTEIVQLCQMLQASLDEANLGSMSPEELEAVFIQSVYASLGASLVAEAQTVFDAHVKNLTGFLNVVDSDDRLANYTQIPTAESSWYHYTLDRSKNAWVPWRHLVRSYVHDGDKSFGDILVPTTDSTKLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLSPDKYLVIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNEFTRTICDRLNTDELVIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNEFTRTICDRLNTDEDLSLMSGHIADSVKRNFPQDVNVVMRDPLLFGDFRNALKETEPRYYEDLLDYSAVGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEE
Disordered Region (DISPRO)
*SGHIADSVKRNFPQDVNVVMRDPLLFGDFRNALKETEPRYYEDLLDYSAVGHLFTEIVQLCQMLQASLDEANLGSMSPEELEAVFIQSVYASLGASLVAEAQTVFDAHVKNLTGFLNVVDSDDRLANYTQIPTAESSWYHYTLDRSKNAWVPWRHLVRSYVHDGDKSFGDILVPTTDSTKLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLSPDKYLVIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNEFTRTICDRLNTDELVIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNEFTRTICDRLNTDEDLSLMSGHIADSVKRNFPQDVNVVMRDPLLFGDFRNALKETEPRYYEDLLDYSAVGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATV*LFTA******
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MSGHIADSVKRNFPQDVNVVMRDPLLFGDFRNALKETEPRYYEDLLDYSAVGHLFTEIVQLCQMLQASLDEANLGSMSPEELEAVFIQSVYASLGASLVAEAQTVFDAHVKNLTGFLNVVDSDDRLANYTQIPTAESSWYHYTLDRSKNAWVPWRHLVRSYVHDGDKSFGDILVPTTDSTKLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLSPDKYLVIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNEFTRTICDRLNTDELVIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNEFTRTICDRLNTDEDLSLMSGHIADSVKRNFPQDVNVVMRDPLLFGDFRNALKETEPRYYEDLLDYSAVGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEE
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	567	2.2.26 [Sep-21-2011]
Q8IVF4	4471	Dynein heavy chain 10, ax	yes	N/A	0.516	0.065	0.487	3e-74
Q9SMH3	4625	Dynein-1-alpha heavy chai	N/A	N/A	0.410	0.050	0.477	2e-61
Q9MBF8	4513	Dynein-1-beta heavy chain	N/A	N/A	0.395	0.049	0.392	3e-41
Q9C0G6	4158	Dynein heavy chain 6, axo	no	N/A	0.405	0.055	0.380	3e-40
Q8VHE6	4621	Dynein heavy chain 5, axo	no	N/A	0.400	0.049	0.390	7e-39
P0C6F1	4456	Dynein heavy chain 2, axo	no	N/A	0.435	0.055	0.372	1e-38
Q8TE73	4624	Dynein heavy chain 5, axo	no	N/A	0.462	0.056	0.333	3e-38
Q96JB1	4490	Dynein heavy chain 8, axo	no	N/A	0.402	0.050	0.370	4e-38
Q9P225	4427	Dynein heavy chain 2, axo	no	N/A	0.435	0.055	0.364	2e-37
Q91XQ0	4731	Dynein heavy chain 8, axo	no	N/A	0.402	0.048	0.362	3e-36

>sp|Q8IVF4|DYH10_HUMAN Dynein heavy chain 10, axonemal OS=Homo sapiens GN=DNAH10 PE=1 SV=4

 Score =  280 bits (715), Expect = 3e-74,   Method: Compositional matrix adjust.
 Identities = 154/316 (48%), Positives = 200/316 (63%), Gaps = 23/316 (7%)

Query: 230  PTPAKFHYIFNLRDLSRIIQGLTAT--EKIIFNTKEMFVRAWRNEFTRTICDRLNTDELV 287
            P+    H I+     S I++G T+T  E I+  + ++           T C  L   + +
Sbjct: 2597 PSEESLHLIY-----SSILKGHTSTFHESIVAVSGKL-----------TFCT-LALYKNI 2639

Query: 288  IAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNEFTRTICDRLNTD 347
            + +LPPTP+KFHYIFNLRDLSR+  GL  T    F T    VR WRNE  R   DRL ++
Sbjct: 2640 VQDLPPTPSKFHYIFNLRDLSRVFNGLVLTNPERFQTVAQMVRVWRNECLRVFHDRLISE 2699

Query: 348  EDLSLMSGHIADSVKRNFPQDVNVVMRDPLLFGDFRNALKETEPRYYEDLLDYSAVGHLF 407
             D  L+  HI   V  +F  DV VVMRDP+LFGDF+ AL E EPR YED+ DY A   LF
Sbjct: 2700 TDKQLVQQHIGSLVVEHFKDDVEVVMRDPILFGDFQMALHEGEPRIYEDIQDYEAAKALF 2759

Query: 408  TEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVRLA 467
             EILEEYNES     +++LVLF+DA EHLTR+HR +R+ RGH ++VGV G GK+SL RLA
Sbjct: 2760 QEILEEYNES---NTKMNLVLFDDALEHLTRVHRIIRMDRGHALLVGVGGSGKQSLSRLA 2816

Query: 468  SFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEGY-QVFTI 526
            +F A  +VF I LSRGY+E SF+EDLKSLY  LG++N+A +FLFT A + EEG+ ++   
Sbjct: 2817 AFTASCEVFEILLSRGYSENSFREDLKSLYLKLGIENKAMIFLFTDAHVAEEGFLELINN 2876

Query: 527  QLSRGYNEASFKEDLK 542
             L+ G   A F E+ K
Sbjct: 2877 MLTSGIVPALFSEEEK 2892

Force generating protein of respiratory cilia. Produces force towards the minus ends of microtubules. Dynein has ATPase activity; the force-producing power stroke is thought to occur on release of ADP. Involved in sperm motility; implicated in sperm flagellar assembly (By similarity). Probable inner arm dynein heavy chain.
Homo sapiens (taxid: 9606)

>sp|Q9SMH3|DYH1A_CHLRE Dynein-1-alpha heavy chain, flagellar inner arm I1 complex OS=Chlamydomonas reinhardtii GN=DHC1 PE=1 SV=1

 Score =  237 bits (604), Expect = 2e-61,   Method: Compositional matrix adjust.
 Identities = 116/243 (47%), Positives = 164/243 (67%), Gaps = 10/243 (4%)

Query: 286  LVIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNEFTRTICDRLN 345
             +I +LPPTP++FHYIFNLRDLSRI +GL  T   +F T E F+R WRNE  R + DRL 
Sbjct: 2773 FIIDKLPPTPSRFHYIFNLRDLSRIYEGLLLTVGDVFKTPEQFLRLWRNECLRVLHDRLI 2832

Query: 346  TDEDLSLMSGHIADSVKRNFPQDVNVVMRDPLLFGDFRNALKETE------PRYYEDLLD 399
            + +D  +M+  +   V++ FP      +  P+LFGDF+N + E +      PR Y+DL D
Sbjct: 2833 STDDKRVMTERLEALVQQKFPNLAAHTLASPVLFGDFKNVINELQGEGEVAPRMYDDLGD 2892

Query: 400  YSAVGHLFTEILEE-YNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGVEGG 458
            Y+++  LF +++   YN     +  ++LV FEDA EHLTRIHR LRL +G+C++VGV G 
Sbjct: 2893 YNSIKPLFEDVMTNFYNRK---RKPMNLVFFEDALEHLTRIHRTLRLPQGNCLLVGVGGS 2949

Query: 459  GKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVE 518
            GK+SL +LA+F AG +VF I L+RGY+E +F+EDLK LY +LG  N+  +FLFT A + +
Sbjct: 2950 GKQSLSKLAAFTAGCEVFEITLTRGYDELAFREDLKRLYAMLGSDNKRVMFLFTDAHVAD 3009

Query: 519  EGY 521
            EG+
Sbjct: 3010 EGF 3012

Force generating protein of eukaryotic cilia and flagella. Produces force towards the minus ends of microtubules. Dynein has ATPase activity; the force-producing power stroke is thought to occur on release of ADP. Required for assembly of the I1 inner arm complex and its targeting to the appropriate axoneme location. Also required for phototaxis.

Chlamydomonas reinhardtii (taxid: 3055)

>sp|Q9MBF8|DYH1B_CHLRE Dynein-1-beta heavy chain, flagellar inner arm I1 complex OS=Chlamydomonas reinhardtii GN=DHC10 PE=1 SV=1

 Score =  170 bits (430), Expect = 3e-41,   Method: Compositional matrix adjust.
 Identities = 97/247 (39%), Positives = 134/247 (54%), Gaps = 23/247 (9%)

Query: 287  VIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNEFTRTICDRLNT 346
            V  EL PTP+K HY+FN RDL++IIQG+    K  +N+KE  ++ W +E  R I DR+  
Sbjct: 2680 VSKELLPTPSKSHYLFNTRDLAKIIQGMMQATKAFYNSKEEVLQLWCHECMRIIADRMWD 2739

Query: 347  DEDLSLMSGHIADSVKRNFPQDVNVVMRDPLLFGDFRNALKETEPRY------------Y 394
              D   +   + + +   F             FG    A  ET P +            Y
Sbjct: 2740 HADKEWLVRQLDEKLGTTFSTS----------FGTLFEAYNETVPPFVTFMRQNVDVPVY 2789

Query: 395  EDLLDYSAVGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVG 454
            E + D  A+  L TE LE+Y    G  A +DLVLF DA  H+ RIHR L   RG+ ++VG
Sbjct: 2790 EAVRDMVALKDLLTERLEDYALEPGHSA-MDLVLFRDALSHVCRIHRILGQPRGNALLVG 2848

Query: 455  VEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAA 514
            V G G++SL RLA+F A  + FTI++++ Y +  F+EDLK LY   GV N+ TVFLF   
Sbjct: 2849 VGGSGRKSLARLAAFVAELKCFTIEITKNYRQTEFREDLKGLYRQAGVANKPTVFLFDET 2908

Query: 515  EIVEEGY 521
            +IV E +
Sbjct: 2909 QIVYETF 2915

Force generating protein of eukaryotic cilia and flagella. Produces force towards the minus ends of microtubules. Dynein has ATPase activity; the force-producing power stroke is thought to occur on release of ADP. Required for assembly of the I1 inner arm complex and its targeting to the appropriate axoneme location. Also required for phototaxis.

Chlamydomonas reinhardtii (taxid: 3055)

>sp|Q9C0G6|DYH6_HUMAN Dynein heavy chain 6, axonemal OS=Homo sapiens GN=DNAH6 PE=1 SV=3

 Score =  166 bits (421), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 89/234 (38%), Positives = 136/234 (58%), Gaps = 4/234 (1%)

Query: 290  ELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNEFTRTICDRLNTDED 349
            +L PTPAK HY+FNLRDLS+ +QG+   +      +    R + +E  R   DRL  +ED
Sbjct: 2283 DLLPTPAKSHYVFNLRDLSKCVQGILQCDPGTIREEIQIFRLFCHECQRVFHDRLINNED 2342

Query: 350  LSLMSGHIADSVKRNF--PQDVNVVMRDPLLFGDFRNALKETEPRYYEDLLDYSAVGHLF 407
                   + +   ++F    D+   +  P++FGDF     +   R Y+D+ D     ++ 
Sbjct: 2343 KHYFHVILTEMANKHFGIAIDLEYFLNKPIIFGDFIKFGADKADRIYDDMPDIEKTANVL 2402

Query: 408  TEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVRLA 467
             + L++YN +   + +L  V F+DA EH++RI R +R  RG+ ++VGV G GK+SL RLA
Sbjct: 2403 QDYLDDYNLTNPKEVKL--VFFQDAIEHVSRIARMIRQERGNALLVGVGGTGKQSLTRLA 2460

Query: 468  SFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEGY 521
            +   GY+   I+LSRGYN  SF EDL+ LY + GV+++  VFLFT  +IV E +
Sbjct: 2461 AHICGYKCLQIELSRGYNYDSFHEDLRKLYKMAGVEDKNMVFLFTDTQIVVEEF 2514

Force generating protein of respiratory cilia. Produces force towards the minus ends of microtubules. Dynein has ATPase activity; the force-producing power stroke is thought to occur on release of ADP.

Homo sapiens (taxid: 9606)

>sp|Q8VHE6|DYH5_MOUSE Dynein heavy chain 5, axonemal OS=Mus musculus GN=Dnah5 PE=1 SV=2

 Score =  162 bits (410), Expect = 7e-39,   Method: Compositional matrix adjust.
 Identities = 95/243 (39%), Positives = 133/243 (54%), Gaps = 16/243 (6%)

Query: 293  PTPAKFHYIFNLRDLSRIIQG-LTATEKIIFNTKEMFVRAWRNEFTRTICDRLNTDEDLS 351
            PTPAKFHY+FNLRDLSRI QG L  T ++I +T E+ +R W++E  R I DR +   D++
Sbjct: 2780 PTPAKFHYVFNLRDLSRIWQGMLNITSEVIKDTDEL-LRLWKHECKRVIADRFSMSSDVT 2838

Query: 352  LMSGHIADSVKRNFPQDVNVV------------MRD-PLLFGDFRNALKETEPRYYEDLL 398
                 +   V+  F ++   V            +RD P   G+         P+ YE + 
Sbjct: 2839 WFDKAVVSLVEEEFGEEKAPVVDCGVDAYFVDFLRDAPEATGETPEEADAEMPKLYEPIA 2898

Query: 399  DYSAVGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGVEGG 458
              + +    +  L+ YNES      +D+V F DA  HL +I R +R  RG+ ++VGV G 
Sbjct: 2899 SLNHLRERLSVFLQLYNESIRGTG-MDMVFFIDAMVHLVKISRVIRTPRGNALLVGVGGS 2957

Query: 459  GKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVE 518
            GK+SL RLASF AGY  F I L+R YN ++  EDLK LY   G + +   F+FT  EI E
Sbjct: 2958 GKQSLTRLASFIAGYTSFQITLTRSYNTSNLMEDLKVLYRTAGQQGKGITFIFTDNEIKE 3017

Query: 519  EGY 521
            E +
Sbjct: 3018 ESF 3020

Force generating protein of respiratory cilia. Produces force towards the minus ends of microtubules. Dynein has ATPase activity; the force-producing power stroke is thought to occur on release of ADP. Required for structural and functional integrity of the cilia of ependymal cells lining the brain ventricles.

Mus musculus (taxid: 10090)

>sp|P0C6F1|DYH2_MOUSE Dynein heavy chain 2, axonemal OS=Mus musculus GN=Dnah2 PE=2 SV=1

 Score =  161 bits (408), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 96/258 (37%), Positives = 139/258 (53%), Gaps = 11/258 (4%)

Query: 266  VRAWRNEFTRTICDRLNTDELVIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTK 325
            V+   N  T    D  NT   V+    PTPAK HY+FNLRD+S++ QG+    K   +TK
Sbjct: 2610 VKPIGNVVTEATLDVYNT---VVQRFLPTPAKIHYLFNLRDISKVFQGMLRANKDFHDTK 2666

Query: 326  EMFVRAWRNEFTRTICDRLNTDEDLSLMSGHIADSVKRNFPQDVNVVM--RDPLLFGDFR 383
                R W +E  R   DRL    D+    G ++D +   F    + +   + P +FGDF 
Sbjct: 2667 ASITRLWIHECFRVFSDRLVDTADMEAFMGILSDKLGTFFDLTFHHLCPNKRPPIFGDF- 2725

Query: 384  NALKETEPRYYEDLLDYSAVGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRAL 443
              LKE  P+ YEDL+D + +       L EYN S      + LVLF +A EH+TRI R +
Sbjct: 2726 --LKE--PKVYEDLVDLTVLKTAMETALNEYNLSPSV-VPMQLVLFREAIEHITRIVRVI 2780

Query: 444  RLSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVK 503
               RG+ ++VG+ G G++SL RLAS    Y  F I++++ Y +  F++D+K LY   GV+
Sbjct: 2781 GQPRGNMLLVGIGGSGRQSLARLASSICDYNTFQIEVTKHYRKQEFRDDIKRLYRQAGVE 2840

Query: 504  NQATVFLFTAAEIVEEGY 521
             Q T FLF   +I +E +
Sbjct: 2841 LQTTSFLFVDTQIADESF 2858

Force generating protein of respiratory cilia. Produces force towards the minus ends of microtubules. Dynein has ATPase activity; the force-producing power stroke is thought to occur on release of ADP. Involved in sperm motility; implicated in sperm flagellar assembly.

Mus musculus (taxid: 10090)

>sp|Q8TE73|DYH5_HUMAN Dynein heavy chain 5, axonemal OS=Homo sapiens GN=DNAH5 PE=1 SV=3

 Score =  160 bits (405), Expect = 3e-38,   Method: Compositional matrix adjust.
 Identities = 92/276 (33%), Positives = 141/276 (51%), Gaps = 14/276 (5%)

Query: 259  FNTKEMFVRAWRNEFTRTICDRLNTDELVIAELPPTPAKFHYIFNLRDLSRIIQGLTATE 318
            + T+  F    R+  T+ +       ++   ++ PTPAKFHY+FNLRDLSR+ QG+  T 
Sbjct: 2749 YCTQRGFSEEVRDSVTKLVPLTRRLWQMTKIKMLPTPAKFHYVFNLRDLSRVWQGMLNTT 2808

Query: 319  KIIFNTKEMFVRAWRNEFTRTICDRLNTDEDLSLMSGHIADSVKRNFPQDVNVV------ 372
              +       ++ W++E  R I DR     D++     +   V+  F ++  ++      
Sbjct: 2809 SEVIKEPNDLLKLWKHECKRVIADRFTVSSDVTWFDKALVSLVEEEFGEEKKLLVDCGID 2868

Query: 373  ------MRD-PLLFGDFRNALKETEPRYYEDLLDYSAVGHLFTEILEEYNESAGAKARLD 425
                  +RD P   G+         P+ YE +  +S +       L+ YNES    A +D
Sbjct: 2869 TYFVDFLRDAPEAAGETSEEADAETPKIYEPIESFSHLKERLNMFLQLYNESIRG-AGMD 2927

Query: 426  LVLFEDAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYN 485
            +V F DA  HL +I R +R  +G+ ++VGV G GK+SL RLASF AGY  F I L+R YN
Sbjct: 2928 MVFFADAMVHLVKISRVIRTPQGNALLVGVGGSGKQSLTRLASFIAGYVSFQITLTRSYN 2987

Query: 486  EASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEGY 521
             ++  EDLK LY   G + +   F+FT  EI +E +
Sbjct: 2988 TSNLMEDLKVLYRTAGQQGKGITFIFTDNEIKDESF 3023

Force generating protein of respiratory cilia. Produces force towards the minus ends of microtubules. Dynein has ATPase activity; the force-producing power stroke is thought to occur on release of ADP. Required for structural and functional integrity of the cilia of ependymal cells lining the brain ventricles.

Homo sapiens (taxid: 9606)

>sp|Q96JB1|DYH8_HUMAN Dynein heavy chain 8, axonemal OS=Homo sapiens GN=DNAH8 PE=1 SV=2

 Score =  159 bits (403), Expect = 4e-38,   Method: Compositional matrix adjust.
 Identities = 89/240 (37%), Positives = 129/240 (53%), Gaps = 12/240 (5%)

Query: 293  PTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNEFTRTICDRLNTDEDLSL 352
            PTP+KFHYIFNLRDLSRI QG+   +     +    +  +++E +R I DR  T ED   
Sbjct: 2649 PTPSKFHYIFNLRDLSRIWQGMLTIKAEECASIPTLLSLFKHECSRVIADRFITPEDEQW 2708

Query: 353  MSGHIADSVKRNFPQDVNVVMRDPLLFGDFRNALKETE-----------PRYYEDLLDYS 401
             + H+  +V+ N   D    +     F DF   + E             P+ YE +  + 
Sbjct: 2709 FNAHLTRAVEENIGSDAASCILPEPYFVDFLREMPEPTGDEPEDSVFEVPKIYELMPSFD 2768

Query: 402  AVGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGVEGGGKR 461
             +         ++NE     + LDLV F+DA  HL +I R +R S G+ ++VGV G GK+
Sbjct: 2769 FLAEKLQFYQRQFNEIIRGTS-LDLVFFKDAMTHLIKISRIIRTSCGNALLVGVGGSGKQ 2827

Query: 462  SLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEGY 521
            SL RLASF AGYQ+F I L+R YN  +  +DLK+LY + G   +   F+FT +EI +E +
Sbjct: 2828 SLSRLASFIAGYQIFQITLTRSYNVTNLTDDLKALYKVAGADGKGITFIFTDSEIKDEAF 2887

Force generating protein of respiratory cilia. Produces force towards the minus ends of microtubules. Dynein has ATPase activity; the force-producing power stroke is thought to occur on release of ADP. Involved in sperm motility; implicated in sperm flagellar assembly.

Homo sapiens (taxid: 9606)

>sp|Q9P225|DYH2_HUMAN Dynein heavy chain 2, axonemal OS=Homo sapiens GN=DNAH2 PE=2 SV=3

 Score =  157 bits (397), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 94/258 (36%), Positives = 137/258 (53%), Gaps = 11/258 (4%)

Query: 266  VRAWRNEFTRTICDRLNTDELVIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTK 325
            V+   N  T    D  NT   V+    PTP K HY+FNLRD+S++ QG+    K   +TK
Sbjct: 2581 VKPIGNVVTEATLDMYNT---VVQRFLPTPTKMHYLFNLRDISKVFQGMLRANKDFHDTK 2637

Query: 326  EMFVRAWRNEFTRTICDRLNTDEDLSLMSGHIADSVKRNFPQDVNVVM--RDPLLFGDFR 383
                R W +E  R   DRL    D     G I+D +   F    + +   + P +FGDF 
Sbjct: 2638 SSITRLWIHECFRVFSDRLVDAADTEAFMGIISDKLGSFFDLTFHHLCPSKRPPIFGDF- 2696

Query: 384  NALKETEPRYYEDLLDYSAVGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRAL 443
              LKE  P+ YEDL D + +  +    L EYN S      + LVLF +A EH+TRI R +
Sbjct: 2697 --LKE--PKVYEDLTDLTVLKTVMETALNEYNLSPSV-VPMQLVLFREAIEHITRIVRVI 2751

Query: 444  RLSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVK 503
               RG+ ++VG+ G G++SL RLAS    Y  F I++++ Y +  F++D+K LY   GV+
Sbjct: 2752 GQPRGNMLLVGIGGSGRQSLARLASSICDYTTFQIEVTKHYRKQEFRDDIKRLYRQAGVE 2811

Query: 504  NQATVFLFTAAEIVEEGY 521
             + T F+F   +I +E +
Sbjct: 2812 LKTTSFIFVDTQIADESF 2829

Force generating protein of respiratory cilia. Produces force towards the minus ends of microtubules. Dynein has ATPase activity; the force-producing power stroke is thought to occur on release of ADP. Involved in sperm motility; implicated in sperm flagellar assembly.

Homo sapiens (taxid: 9606)

>sp|Q91XQ0|DYH8_MOUSE Dynein heavy chain 8, axonemal OS=Mus musculus GN=Dnahc8 PE=2 SV=2

 Score =  153 bits (387), Expect = 3e-36,   Method: Compositional matrix adjust.
 Identities = 87/240 (36%), Positives = 131/240 (54%), Gaps = 12/240 (5%)

Query: 293  PTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNEFTRTICDRLNTDEDLSL 352
            PTP+KFHYIFNLRDLSRI QG+   +    ++  + +  +++E  R I DR  T +D   
Sbjct: 2890 PTPSKFHYIFNLRDLSRIWQGMLTVKAEECSSIPILLSLFKHECNRVIADRFITPDDEQW 2949

Query: 353  MSGHIADSVKRNFPQDVNVVMRDPLLFGDFRNALKETE-----------PRYYEDLLDYS 401
             +  +  +V+ N   +V   +     F DF   + E             P+ YE +  + 
Sbjct: 2950 FNSQLIRAVEENISPEVAANILPEPYFVDFLRDMPEPTGDEPEDTMFEVPKIYELVPSFE 3009

Query: 402  AVGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGVEGGGKR 461
             +         ++NE     + LDLV F+DA  HL +I R +R S G+ ++VGV G GK+
Sbjct: 3010 FLSEKLQFYQRQFNEIIRGTS-LDLVFFKDAMTHLVKISRIIRTSCGNALLVGVGGSGKQ 3068

Query: 462  SLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEGY 521
            SL +LASF AGYQ+F I L+R YN ++  EDLK+LY + G + +   F+FT  EI +E +
Sbjct: 3069 SLSKLASFIAGYQIFQITLTRSYNVSNLIEDLKNLYKVAGAEGKGITFIFTDNEIKDEAF 3128

Force generating protein of respiratory cilia. Produces force towards the minus ends of microtubules. Dynein has ATPase activity; the force-producing power stroke is thought to occur on release of ADP. Involved in sperm motility; implicated in sperm flagellar assembly.

Mus musculus (taxid: 10090)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	567
426374639	4223	PREDICTED: dynein heavy chain 10, axonem	0.830	0.111	0.376	7e-81
242015590	4870	ciliary dynein heavy chain, putative [Pe	0.453	0.052	0.554	5e-76
380012717	4856	PREDICTED: LOW QUALITY PROTEIN: dynein h	0.439	0.051	0.533	1e-74
355564811	4472	hypothetical protein EGK_04332 [Macaca m	0.516	0.065	0.490	2e-74
355786643	4472	hypothetical protein EGM_03883 [Macaca f	0.516	0.065	0.490	2e-74
292613807	4559	PREDICTED: dynein heavy chain 10, axonem	0.470	0.058	0.534	3e-74
410923098	4484	PREDICTED: dynein heavy chain 10, axonem	0.472	0.059	0.541	9e-74
322788571	2327	hypothetical protein SINV_09493 [Solenop	0.449	0.109	0.532	1e-73
328788110	4882	PREDICTED: dynein heavy chain 10, axonem	0.414	0.048	0.55	2e-73
307174812	4794	Dynein heavy chain 10, axonemal [Campono	0.414	0.049	0.554	2e-73

>gi|426374639|ref|XP_004054177.1| PREDICTED: dynein heavy chain 10, axonemal-like [Gorilla gorilla gorilla]

 Score =  308 bits (788), Expect = 7e-81,   Method: Compositional matrix adjust.
 Identities = 203/539 (37%), Positives = 290/539 (53%), Gaps = 68/539 (12%)

Query: 58   IVQLCQMLQASLDEANLGSMSPEELEAVFIQSVYASLGASLVAEAQTVFDAHVKNLTGFL 117
            + QL +ML A L E  +  +  + LE  F++++Y SLGASL+ + +  FD ++K L   L
Sbjct: 2115 VTQLAKMLDALL-EGEIEDL--DLLECYFLEALYCSLGASLLEDGRMKFDEYIKRLAS-L 2170

Query: 118  NVVDSDDRLANYTQIPTAESSWYHYTLDRSKNAWVPWRHLVRSYVHDGDKSFGDILVPTT 177
            + VD++   AN  ++P    + Y +  D  +N WVPW  LV  Y+H  ++ F +ILV T 
Sbjct: 2171 STVDTEGVWANPGELPGQLPTLYDFHFDNKRNQWVPWSKLVPEYIHAPERKFINILVHTV 2230

Query: 178  DSTKLTWILSLMNEIKRPCIVV---GDTGTSKT----------------------ATMMN 212
            D+T+ TWIL  M +IK+P I V   G + T+ T                       T M+
Sbjct: 2231 DTTRTTWILEQMVKIKQPVIFVGESGTSKTATTQNFVKNLSEETNIVLMVNFSSRTTSMD 2290

Query: 213  FLRSLSP--DKYLVIAELPPTPAKFHYIFNLRDLSRI----IQGLTATEKIIFNT----- 261
              R+L    +K       PP   +     +  ++ R+     Q   A  K++        
Sbjct: 2291 IQRNLEANVEKRTKDTYGPPMGKRLLVFMDDMNMPRVDEYGTQQPIALLKLLLEKGYLYD 2350

Query: 262  --KEMFVRAWRN-----EFTRTICDRLNTDELVIA-----ELP-PTPAKFHYIFNLRDLS 308
              KE+  ++ R+        +    R   D   I+      +P P+    H I+     S
Sbjct: 2351 RGKELNCKSIRDLGFIAAMGKAGGGRNEVDPRFISLFSVFNVPFPSEESLHLIY-----S 2405

Query: 309  RIIQGLTAT----EKIIFNTKEMFVRAWRNEFTRTICDRLNTDEDLSLMSGHIADSVKRN 364
             I++G T+     EK  F T    VR WRNE  R   DRL ++ D  L+  HI   V  +
Sbjct: 2406 SILKGHTSDVCLYEK--FQTVAQMVRVWRNECLRVFHDRLISETDKQLVQQHIGSLVAEH 2463

Query: 365  FPQDVNVVMRDPLLFGDFRNALKETEPRYYEDLLDYSAVGHLFTEILEEYNESAGAKARL 424
            F  D+ VVMRDP+LFGDF+ AL E EPR YED+ DY A   LF EILEEY+ES     ++
Sbjct: 2464 FNDDLEVVMRDPILFGDFQMALHEGEPRIYEDIQDYEAAKALFQEILEEYSES---NTKM 2520

Query: 425  DLVLFEDAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGY 484
            +LVLF+DA EHLTR+HR +R+ RGH ++VGV G GK+SL RLA+F AG +VF I LSRGY
Sbjct: 2521 NLVLFDDALEHLTRVHRIIRMDRGHALLVGVGGSGKQSLSRLAAFTAGCEVFEILLSRGY 2580

Query: 485  NEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEGY-QVFTIQLSRGYNEASFKEDLK 542
            +E  F+EDLKSLY  LG++N+A +FLFT A + EEG+ ++    L+ G   A F E+ K
Sbjct: 2581 SENDFREDLKSLYLKLGIENKAMIFLFTDAHVAEEGFLELINNMLTSGIVPALFPEEEK 2639

Source: Gorilla gorilla gorilla

Species: Gorilla gorilla

Genus: Gorilla

Family: Hominidae

Order: Primates

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|242015590|ref|XP_002428436.1| ciliary dynein heavy chain, putative [Pediculus humanus corporis] gi|212513048|gb|EEB15698.1| ciliary dynein heavy chain, putative [Pediculus humanus corporis]

 Score =  291 bits (746), Expect = 5e-76,   Method: Compositional matrix adjust.
 Identities = 147/265 (55%), Positives = 190/265 (71%), Gaps = 8/265 (3%)

Query: 281  LNTDELVIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNEFTRTI 340
            LN  + +I ELPPTP+KFHYIFNLRDLSRII G+   + + F T+   VR WRNEF+R I
Sbjct: 3032 LNLYKAIIIELPPTPSKFHYIFNLRDLSRIIAGVCQIQNVFFQTQVHVVRVWRNEFSRVI 3091

Query: 341  CDRLNTDEDLSLMSGHIADSVKRNF---PQDVNVVMRDPLLFGDFRNALKE-TEPRYYED 396
            CDRL    D  L+ G I + ++++F   P+ + +VMR+PLLFGD+RNA     E RYYED
Sbjct: 3092 CDRLINTTDQELVKGKILNEIEKHFEDNPELIELVMREPLLFGDYRNACAGGDEERYYED 3151

Query: 397  LLDYSAVGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGVE 456
            LLDY AV  LF EIL E+ E  G   +++LVLF+DA EHLTRIHR LR++RGH M++GV 
Sbjct: 3152 LLDYDAVYFLFQEILAEFCEKYG---KVELVLFDDALEHLTRIHRVLRMNRGHMMIIGVG 3208

Query: 457  GGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEI 516
            G GK+SL RLASFAAG  VF I LSRGYNE +FKEDLK L+N +GV+ + TVFLF+A++I
Sbjct: 3209 GSGKQSLTRLASFAAGCVVFEITLSRGYNENNFKEDLKKLFNQIGVERKPTVFLFSASQI 3268

Query: 517  VEEGY-QVFTIQLSRGYNEASFKED 540
             EEG+ ++    L+ G   A F ++
Sbjct: 3269 AEEGFLEIINNILAVGMTPALFTDE 3293

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380012717|ref|XP_003690424.1| PREDICTED: LOW QUALITY PROTEIN: dynein heavy chain 10, axonemal-like [Apis florea]

 Score =  287 bits (734), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 136/255 (53%), Positives = 186/255 (72%), Gaps = 6/255 (2%)

Query: 271  NEFTRTICD-RLNTDELVIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFV 329
             E  +T+ +  L   ++V+AEL PTP +FHYIFN+RDLSRI+ GL  +     +T +  V
Sbjct: 3006 QEIAKTLVEITLQLYKIVLAELLPTPNRFHYIFNMRDLSRIMAGLLQSHPDYLSTVKQIV 3065

Query: 330  RAWRNEFTRTICDRLNTDEDLSLMSGHIADSVKRNFPQDVNV---VMRDPLLFGDFRNAL 386
            R WRNEFTR ICDRL  + D  +++ H+   ++ ++ +D  V   VMRDPLLFGDFRNA+
Sbjct: 3066 RLWRNEFTRIICDRLINETDTKIVTDHMKKKIEESWEEDRKVIEYVMRDPLLFGDFRNAI 3125

Query: 387  KETEPRYYEDLLDYSAVGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLS 446
             E EPR+YEDLLDY AV  LF EI E+YNE   +K  L +VLF DA EHLTRIHRALR+ 
Sbjct: 3126 NEDEPRFYEDLLDYEAVYSLFLEIYEDYNERNVSK--LHMVLFNDALEHLTRIHRALRMH 3183

Query: 447  RGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQA 506
            +GH +V+G+ G GK+S+++LA +AAG+Q F I L+RGYNE +F+ED+K+LYN++GV N+ 
Sbjct: 3184 KGHVLVIGIGGSGKKSVIKLAGYAAGFQTFQISLARGYNEPAFREDMKNLYNMVGVDNKK 3243

Query: 507  TVFLFTAAEIVEEGY 521
             VFLFT+A I++E +
Sbjct: 3244 IVFLFTSAHIIDESF 3258

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|355564811|gb|EHH21311.1| hypothetical protein EGK_04332 [Macaca mulatta]

 Score =  286 bits (731), Expect = 2e-74,   Method: Compositional matrix adjust.
 Identities = 155/316 (49%), Positives = 203/316 (64%), Gaps = 23/316 (7%)

Query: 230  PTPAKFHYIFNLRDLSRIIQGLTAT--EKIIFNTKEMFVRAWRNEFTRTICDRLNTDELV 287
            P+    H I+     S I++G T+T  E I+  + ++           T C  L   +++
Sbjct: 2598 PSEESLHLIY-----SSILKGHTSTFHESIVAVSGKL-----------TFCT-LALYKII 2640

Query: 288  IAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNEFTRTICDRLNTD 347
            + +LPPTP+KFHYIFNLRDLSR+  GL  T    F T    VR WRNE  R   DRL ++
Sbjct: 2641 VQDLPPTPSKFHYIFNLRDLSRVFNGLVLTNPERFQTVAQMVRVWRNECLRVFHDRLISE 2700

Query: 348  EDLSLMSGHIADSVKRNFPQDVNVVMRDPLLFGDFRNALKETEPRYYEDLLDYSAVGHLF 407
             D  L+  H+ D V  +F  DV VVMRDP+LFGDFR AL E EPR YED+ DY A   LF
Sbjct: 2701 TDKQLVQQHLGDLVTEHFNDDVEVVMRDPILFGDFRMALHEGEPRIYEDIQDYEAAKALF 2760

Query: 408  TEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVRLA 467
             EILEEYNES     +++LVLF+DA EHLTR+HR +R+ RGH ++VGV G GK+SL RLA
Sbjct: 2761 QEILEEYNES---NTKMNLVLFDDALEHLTRVHRIIRMDRGHALLVGVGGSGKQSLSRLA 2817

Query: 468  SFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEGY-QVFTI 526
            +F AG +VF I LSRGY+E +F+EDLKSLY  LG++N+A +FLFT A + EEG+ ++   
Sbjct: 2818 AFTAGCEVFEILLSRGYSENNFREDLKSLYLKLGIENKAMIFLFTDAHVAEEGFLELINN 2877

Query: 527  QLSRGYNEASFKEDLK 542
             L+ G   A F E+ K
Sbjct: 2878 MLTSGIVPALFPEEEK 2893

Source: Macaca mulatta

Species: Macaca mulatta

Genus: Macaca

Family: Cercopithecidae

Order: Primates

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|355786643|gb|EHH66826.1| hypothetical protein EGM_03883 [Macaca fascicularis]

 Score =  286 bits (731), Expect = 2e-74,   Method: Compositional matrix adjust.
 Identities = 155/316 (49%), Positives = 203/316 (64%), Gaps = 23/316 (7%)

Query: 230  PTPAKFHYIFNLRDLSRIIQGLTAT--EKIIFNTKEMFVRAWRNEFTRTICDRLNTDELV 287
            P+    H I+     S I++G T+T  E I+  + ++           T C  L   +++
Sbjct: 2598 PSEESLHLIY-----SSILKGHTSTFHESIVAVSGKL-----------TFCT-LALYKII 2640

Query: 288  IAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNEFTRTICDRLNTD 347
            + +LPPTP+KFHYIFNLRDLSR+  GL  T    F T    VR WRNE  R   DRL ++
Sbjct: 2641 VQDLPPTPSKFHYIFNLRDLSRVFNGLVLTNPERFQTVAQMVRVWRNECLRVFHDRLISE 2700

Query: 348  EDLSLMSGHIADSVKRNFPQDVNVVMRDPLLFGDFRNALKETEPRYYEDLLDYSAVGHLF 407
             D  L+  H+ D V  +F  DV VVMRDP+LFGDFR AL E EPR YED+ DY A   LF
Sbjct: 2701 TDKQLVQQHLGDLVTEHFNDDVEVVMRDPILFGDFRMALHEGEPRIYEDIQDYEAAKALF 2760

Query: 408  TEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVRLA 467
             EILEEYNES     +++LVLF+DA EHLTR+HR +R+ RGH ++VGV G GK+SL RLA
Sbjct: 2761 QEILEEYNES---NTKMNLVLFDDALEHLTRVHRIIRMDRGHALLVGVGGSGKQSLSRLA 2817

Query: 468  SFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEGY-QVFTI 526
            +F AG +VF I LSRGY+E +F+EDLKSLY  LG++N+A +FLFT A + EEG+ ++   
Sbjct: 2818 AFTAGCEVFEILLSRGYSENNFREDLKSLYLKLGIENKAMIFLFTDAHVAEEGFLELINN 2877

Query: 527  QLSRGYNEASFKEDLK 542
             L+ G   A F E+ K
Sbjct: 2878 MLTSGIVPALFPEEEK 2893

Source: Macaca fascicularis

Species: Macaca fascicularis

Genus: Macaca

Family: Cercopithecidae

Order: Primates

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|292613807|ref|XP_698507.4| PREDICTED: dynein heavy chain 10, axonemal [Danio rerio]

 Score =  286 bits (731), Expect = 3e-74,   Method: Compositional matrix adjust.
 Identities = 148/277 (53%), Positives = 193/277 (69%), Gaps = 10/277 (3%)

Query: 272  EFTRTICDRLN--TDEL---VIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKE 326
            E  R ICD+L   T EL   +I +LPPTP+KFHYIFNLRDLSR+  GLT T    F T  
Sbjct: 2708 ECIRNICDKLTFCTLELYKTIIKDLPPTPSKFHYIFNLRDLSRVYHGLTLTNPERFCTVT 2767

Query: 327  MFVRAWRNEFTRTICDRLNTDEDLSLMSGHIADSVKRNFPQDVNVVMRDPLLFGDFRNAL 386
             FVR WRNE  R   DRL  + D  ++ GH+ + V+ +F  D++  MRDP+LFGD+R AL
Sbjct: 2768 QFVRVWRNECLRVFHDRLINETDKIMVQGHVKNLVEEHFKSDLDSAMRDPILFGDYRTAL 2827

Query: 387  KETEPRYYEDLLDYSAVGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLS 446
            K +EPR YED+LDY A   LF EILEEYNE+   K +++LVLF+DA EHLT IHR +R+ 
Sbjct: 2828 K-SEPRVYEDILDYDASKALFQEILEEYNEN---KTKMNLVLFDDALEHLTVIHRIIRMD 2883

Query: 447  RGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQA 506
            RGH ++VGV G GK+SL +LA+F AGY+VF I LSRGY+E +F++DLK+LY  LG++N+ 
Sbjct: 2884 RGHALLVGVGGSGKQSLTKLAAFTAGYEVFEIVLSRGYSETNFRDDLKTLYLKLGIENKK 2943

Query: 507  TVFLFTAAEIVEEGY-QVFTIQLSRGYNEASFKEDLK 542
             VFLFT A + EEG+ ++    L+ G   A F +D K
Sbjct: 2944 MVFLFTDAHVAEEGFLELINNMLTSGMVPALFADDEK 2980

Source: Danio rerio

Species: Danio rerio

Genus: Danio

Family: Cyprinidae

Order: Cypriniformes

Class: Actinopterygii

Phylum: Chordata

Superkingdom: Eukaryota

>gi|410923098|ref|XP_003975019.1| PREDICTED: dynein heavy chain 10, axonemal-like [Takifugu rubripes]

 Score =  284 bits (727), Expect = 9e-74,   Method: Compositional matrix adjust.
 Identities = 150/277 (54%), Positives = 192/277 (69%), Gaps = 9/277 (3%)

Query: 272  EFTRTICDRLN--TDEL---VIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKE 326
            E  + ICD++   T EL   +IA+L PTP+KFHYIFNLRDLSR+  GLT T    F+T  
Sbjct: 2635 ESIQNICDKVTFCTLELYKSIIADLRPTPSKFHYIFNLRDLSRVYNGLTLTGPDRFSTVS 2694

Query: 327  MFVRAWRNEFTRTICDRLNTDEDLSLMSGHIADSVKRNFPQDVNVVMRDPLLFGDFRNAL 386
             FVR WRNE  R   DRL  + D +L+ G I   V  +F  D+  VM DP+LFGD+ NAL
Sbjct: 2695 QFVRVWRNECLRIFHDRLIDETDKNLVQGLIKKLVDEHFNSDMEAVMTDPILFGDYSNAL 2754

Query: 387  KETEPRYYEDLLDYSAVGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLS 446
             ETEPR YED+LDY A   LF EILEEYNE+   K R++LVLF+DA EHLTR+HR LR+ 
Sbjct: 2755 SETEPRVYEDVLDYEASKILFQEILEEYNEN---KPRMNLVLFDDALEHLTRVHRLLRID 2811

Query: 447  RGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQA 506
              H ++VGVEG GK+SL +LA+F AG +VF I LSRGYNE++F++DLK+LY  LG++N+ 
Sbjct: 2812 GAHALLVGVEGSGKQSLTKLAAFTAGCEVFEITLSRGYNESNFRDDLKALYLKLGIENKK 2871

Query: 507  TVFLFTAAEIVEEGY-QVFTIQLSRGYNEASFKEDLK 542
            TVFLFT A + EEG+ ++    L+ G   A F +D K
Sbjct: 2872 TVFLFTDAHVAEEGFLELINNMLTSGMVPALFPDDEK 2908

Source: Takifugu rubripes

Species: Takifugu rubripes

Genus: Takifugu

Family: Tetraodontidae

Order: Tetraodontiformes

Class: Actinopterygii

Phylum: Chordata

Superkingdom: Eukaryota

>gi|322788571|gb|EFZ14199.1| hypothetical protein SINV_09493 [Solenopsis invicta]

 Score =  283 bits (725), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 140/263 (53%), Positives = 188/263 (71%), Gaps = 8/263 (3%)

Query: 285 ELVIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNEFTRTICDRL 344
           E V  EL PTP+KFHYIFN+RDLSRI+ GL  +    F   + FVR WRNE TR ICDRL
Sbjct: 529 ETVRKELLPTPSKFHYIFNMRDLSRIMAGLLQSHPDFFPGVKQFVRLWRNEITRIICDRL 588

Query: 345 NTDEDLSLMSGHIADSVKRNF----PQDVNVVMRDPLLFGDFRNALKETEPRYYEDLLDY 400
            + +D +L+   + + + RN+    P+ +   +RDP+L+GDFRNA  E EPR+YED+LDY
Sbjct: 589 ISVQDENLVIKQLNEKI-RNYWDLDPEVIQYSLRDPILYGDFRNACNEDEPRFYEDMLDY 647

Query: 401 SAVGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGVEGGGK 460
            AV +LF EI EEYNE    + +L +VLF DA EHLTR+HRALR+ RGH +V+G  G GK
Sbjct: 648 EAVYNLFLEIFEEYNERN--RTKLHMVLFNDALEHLTRVHRALRMHRGHVLVIGTGGSGK 705

Query: 461 RSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEG 520
           +S++RLASFAAGYQ+F I LSRGYNEA F+ED+K LYN++G++N+  VF+FT+A I +E 
Sbjct: 706 KSVIRLASFAAGYQLFQIVLSRGYNEAYFREDMKYLYNMVGLENKKVVFMFTSAHIKDES 765

Query: 521 Y-QVFTIQLSRGYNEASFKEDLK 542
           + ++    L+ G+  A F E+ K
Sbjct: 766 FLELVNSMLTTGFVPALFNEEEK 788

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328788110|ref|XP_003251067.1| PREDICTED: dynein heavy chain 10, axonemal-like [Apis mellifera]

 Score =  283 bits (724), Expect = 2e-73,   Method: Compositional matrix adjust.
 Identities = 132/240 (55%), Positives = 178/240 (74%), Gaps = 5/240 (2%)

Query: 285  ELVIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNEFTRTICDRL 344
            ++V+AEL PTP +FHYIFN+RDLSRI+ GL  +      T +  VR WRNEF R ICDRL
Sbjct: 3047 KIVLAELLPTPNRFHYIFNMRDLSRIMAGLLQSHPDYLPTVKQIVRLWRNEFIRIICDRL 3106

Query: 345  NTDEDLSLMSGHIADSVKRNFPQDVNVV---MRDPLLFGDFRNALKETEPRYYEDLLDYS 401
              + D  +++ HI   ++  + +D  V+   MRDPLLFGDFRNA+ E EPR+YEDLLDY 
Sbjct: 3107 INENDTKIVTDHIQKKIEEYWEEDRKVIEYAMRDPLLFGDFRNAINEDEPRFYEDLLDYE 3166

Query: 402  AVGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGVEGGGKR 461
            AV  LF EI E+YNE   +K  L +VLF DA EHLTRIHRALR+ +GH +V+G+ G GK+
Sbjct: 3167 AVYSLFLEIYEDYNERNVSK--LHMVLFNDALEHLTRIHRALRMHKGHVLVIGIGGSGKK 3224

Query: 462  SLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEGY 521
            S+++LA++AAG++ F I LSRGYNE +F+ED+K+LYN++GV N+  VFLFT+A I++E +
Sbjct: 3225 SVIKLAAYAAGFRTFQISLSRGYNEPAFREDMKNLYNMVGVDNKKIVFLFTSAHIIDESF 3284

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307174812|gb|EFN65120.1| Dynein heavy chain 10, axonemal [Camponotus floridanus]

 Score =  283 bits (724), Expect = 2e-73,   Method: Compositional matrix adjust.
 Identities = 133/240 (55%), Positives = 177/240 (73%), Gaps = 5/240 (2%)

Query: 285  ELVIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNEFTRTICDRL 344
            E V  EL PTP+KFHYIFN+RDLSRI+ GL  +    + + + FVR WRNE TR +CDRL
Sbjct: 2961 ETVRKELLPTPSKFHYIFNMRDLSRIMAGLLQSHSNFYPSVKQFVRLWRNEITRVMCDRL 3020

Query: 345  NTDEDLSLMSGHIADSVKRNF---PQDVNVVMRDPLLFGDFRNALKETEPRYYEDLLDYS 401
             + +D SL+   + + ++  +   P+ +   +RDP+L+GDFRNA  E EPR+YEDLLDY 
Sbjct: 3021 ISVQDESLIIDQLKEKIQNYWELEPEVIQYSLRDPMLYGDFRNACNEDEPRFYEDLLDYE 3080

Query: 402  AVGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGVEGGGKR 461
            AV  LF EI +EYNE    +A+L +VLF DA EHLTR+HRALR+ RGH ++VG  G GK+
Sbjct: 3081 AVYSLFLEIFDEYNERT--RAKLHMVLFNDALEHLTRVHRALRMHRGHVLIVGTGGSGKK 3138

Query: 462  SLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEGY 521
            S+++LASFAAGYQ+F I LSRGYNE  F+ED+KSLYN++GV+N+  VF+FT A I +EG+
Sbjct: 3139 SVIKLASFAAGYQLFQIVLSRGYNEMFFREDMKSLYNMVGVENKRVVFMFTCAHIKDEGF 3198

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	567
UNIPROTKB|Q8IVF4	4471	DNAH10 "Dynein heavy chain 10,	0.458	0.058	0.539	1.8e-99
UNIPROTKB|F1LR86	3322	Dnah10 "Protein Dnah10" [Rattu	0.470	0.080	0.518	9.9e-99
ZFIN|ZDB-GENE-060531-163	3330	si:dkeyp-86b9.1 "si:dkeyp-86b9	0.481	0.081	0.518	2.5e-98
UNIPROTKB|F1NQP3	4033	F1NQP3 "Uncharacterized protei	0.479	0.067	0.485	1.4e-96
UNIPROTKB|F1RFM8	4479	DNAH10 "Uncharacterized protei	0.458	0.058	0.528	1.6e-96
UNIPROTKB|J9JHE6	4028	DNAH10 "Uncharacterized protei	0.463	0.065	0.526	1.7e-96
UNIPROTKB|F1PMG2	4291	DNAH10 "Uncharacterized protei	0.463	0.061	0.526	2.2e-96
UNIPROTKB|E2RMJ8	4436	DNAH10 "Uncharacterized protei	0.463	0.059	0.526	2.5e-96
UNIPROTKB|F1MSP8	4470	Bt.11479 "Uncharacterized prot	0.458	0.058	0.528	4.6e-95
FB|FBgn0013813	5080	Dhc98D "Dynein heavy chain at	0.544	0.060	0.447	1.1e-91

UNIPROTKB|Q8IVF4 DNAH10 "Dynein heavy chain 10, axonemal" [Homo sapiens (taxid:9606)]

 Score = 705 (253.2 bits), Expect = 1.8e-99, Sum P(3) = 1.8e-99
 Identities = 143/265 (53%), Positives = 182/265 (68%)

Query:   287 VIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNEFTRTICDRLNT 346
             ++ +LPPTP+KFHYIFNLRDLSR+  GL  T    F T    VR WRNE  R   DRL +
Sbjct:  2639 IVQDLPPTPSKFHYIFNLRDLSRVFNGLVLTNPERFQTVAQMVRVWRNECLRVFHDRLIS 2698

Query:   347 DEDLSLMSGHIADSVKRNFPQDVNVVMRDPLLFGDFRNALKETEPRYYEDLLDYSAVGHL 406
             + D  L+  HI   V  +F  DV VVMRDP+LFGDF+ AL E EPR YED+ DY A   L
Sbjct:  2699 ETDKQLVQQHIGSLVVEHFKDDVEVVMRDPILFGDFQMALHEGEPRIYEDIQDYEAAKAL 2758

Query:   407 FTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVRL 466
             F EILEEYNES     +++LVLF+DA EHLTR+HR +R+ RGH ++VGV G GK+SL RL
Sbjct:  2759 FQEILEEYNES---NTKMNLVLFDDALEHLTRVHRIIRMDRGHALLVGVGGSGKQSLSRL 2815

Query:   467 ASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEGY-QVFT 525
             A+F A  +VF I LSRGY+E SF+EDLKSLY  LG++N+A +FLFT A + EEG+ ++  
Sbjct:  2816 AAFTASCEVFEILLSRGYSENSFREDLKSLYLKLGIENKAMIFLFTDAHVAEEGFLELIN 2875

Query:   526 IQLSRGYNEASFKEDLK-SLYNLLG 549
               L+ G   A F E+ K S+ + +G
Sbjct:  2876 NMLTSGIVPALFSEEEKESILSQIG 2900

GO:0003777 "microtubule motor activity" evidence=IEA

GO:0007018 "microtubule-based movement" evidence=IEA

GO:0016887 "ATPase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005874 "microtubule" evidence=IEA

GO:0030286 "dynein complex" evidence=IEA

GO:0035085 "cilium axoneme" evidence=IEA

UNIPROTKB|F1LR86 Dnah10 "Protein Dnah10" [Rattus norvegicus (taxid:10116)]

 Score = 704 (252.9 bits), Expect = 9.9e-99, Sum P(3) = 9.9e-99
 Identities = 142/274 (51%), Positives = 185/274 (67%)

Query:   276 TICDRLNTDELVIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNE 335
             T C  L   + ++ +LPPTP+KFHYIFNLRDLSR+  GL  T    F T    VR WRNE
Sbjct:  1477 TFCT-LTLYKNIVQDLPPTPSKFHYIFNLRDLSRVFNGLVLTNPDRFQTVSQMVRVWRNE 1535

Query:   336 FTRTICDRLNTDEDLSLMSGHIADSVKRNFPQDVNVVMRDPLLFGDFRNALKETEPRYYE 395
               R   DRL  + D  L+  +I + VK +F  D  +VMRDP+LFGDFR AL+E EPR YE
Sbjct:  1536 CLRVFHDRLINEVDKQLVQDYIGNLVKEHFNDDYEMVMRDPILFGDFRTALQEEEPRIYE 1595

Query:   396 DLLDYSAVGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGV 455
             D+ DY A   LF EILEEYNE      +++LVLF+DA EHLTR+HR +R+ RGH ++VGV
Sbjct:  1596 DIQDYEAAKALFEEILEEYNE---VNTKMNLVLFDDALEHLTRVHRIIRMDRGHALLVGV 1652

Query:   456 EGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAE 515
              G GK+SL RLA+F AGY+VF I LSRGY+E +F++DLK+LY  LG++N+  +FLFT A 
Sbjct:  1653 GGSGKQSLARLAAFTAGYEVFEILLSRGYSENNFRDDLKNLYMKLGLENKLMIFLFTDAH 1712

Query:   516 IVEEGY-QVFTIQLSRGYNEASFKEDLKSLYNLL 548
             + EEG+ ++    L+ G   A F E+ K   N+L
Sbjct:  1713 VAEEGFLELINNMLTSGMVPALFTEEEKD--NIL 1744

GO:0003777 "microtubule motor activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0007018 "microtubule-based movement" evidence=IEA

GO:0016887 "ATPase activity" evidence=IEA

GO:0030286 "dynein complex" evidence=IEA

ZFIN|ZDB-GENE-060531-163 si:dkeyp-86b9.1 "si:dkeyp-86b9.1" [Danio rerio (taxid:7955)]

 Score = 704 (252.9 bits), Expect = 2.5e-98, Sum P(2) = 2.5e-98
 Identities = 151/291 (51%), Positives = 197/291 (67%)

Query:   272 EFTRTICDRLN--TDEL---VIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKE 326
             E  R ICD+L   T EL   +I +LPPTP+KFHYIFNLRDLSR+  GLT T    F T  
Sbjct:  1472 ECIRNICDKLTFCTLELYKTIIKDLPPTPSKFHYIFNLRDLSRVYHGLTLTNPERFCTVT 1531

Query:   327 MFVRAWRNEFTRTICDRLNTDEDLSL-------MSGHIADSVKRNFPQDVNVVMRDPLLF 379
              FVR WRNE  R   DRL  + D  +       + GH+ + V+ +F  D++  MRDP+LF
Sbjct:  1532 QFVRVWRNECLRVFHDRLINETDKIMVCLLPVNLQGHVKNLVEEHFKSDLDSAMRDPILF 1591

Query:   380 GDFRNALKETEPRYYEDLLDYSAVGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRI 439
             GD+R ALK +EPR YED+LDY A   LF EILEEYNE+   K +++LVLF+DA EHLT I
Sbjct:  1592 GDYRTALK-SEPRVYEDILDYDASKALFQEILEEYNEN---KTKMNLVLFDDALEHLTVI 1647

Query:   440 HRALRLSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNL 499
             HR +R+ RGH ++VGV G GK+SL +LA+F AGY+VF I LSRGY+E +F++DLK+LY  
Sbjct:  1648 HRIIRMDRGHALLVGVGGSGKQSLTKLAAFTAGYEVFEIVLSRGYSETNFRDDLKTLYLK 1707

Query:   500 LGVKNQATVFLFTAAEIVEEGY-QVFTIQLSRGYNEASFKEDLK-SLYNLL 548
             LG++N+  VFLFT A + EEG+ ++    L+ G   A F +D K S+ N L
Sbjct:  1708 LGIENKKMVFLFTDAHVAEEGFLELINNMLTSGMVPALFADDEKESVLNQL 1758

GO:0016887 "ATPase activity" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0003777 "microtubule motor activity" evidence=IEA

GO:0007018 "microtubule-based movement" evidence=IEA

GO:0030286 "dynein complex" evidence=IEA

UNIPROTKB|F1NQP3 F1NQP3 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 672 (241.6 bits), Expect = 1.4e-96, Sum P(3) = 1.4e-96
 Identities = 135/278 (48%), Positives = 183/278 (65%)

Query:   274 TRTICDRLNTDELVIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWR 333
             T T+C  L   + ++ +LPPTP+KFHYIFNLRDLSR+  GL  T    F T    VR WR
Sbjct:  2470 TITVCT-LELYKRIVCDLPPTPSKFHYIFNLRDLSRVYNGLILTTPERFQTVTQMVRVWR 2528

Query:   334 NEFTRTICDRLNTDEDLSLMSGHIADSVKRNFPQDVNVVMRDPLLFGDFRNALKETEPRY 393
             NE  R   DRL  + D +L+ GHI + ++ NF  ++   MRDP+LFGDFR AL E EPR 
Sbjct:  2529 NECLRVFHDRLINEADKALVQGHIKNLIEENFNDELEQAMRDPILFGDFRMALNEGEPRI 2588

Query:   394 YEDLLDYSAVGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVV 453
             YED+  Y    +LF EILEEYNE      +++LVLF+DA EHL  ++R +R+ RGH +++
Sbjct:  2589 YEDIQAYDVAKNLFQEILEEYNE---VNLKMNLVLFDDALEHLIHVYRIIRMDRGHALLI 2645

Query:   454 GVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTA 513
             GV G GK+SL RLA+F AG +VF I L+RGY E +F+EDLKSLY  LG++N++ VFLFT 
Sbjct:  2646 GVGGSGKQSLTRLAAFTAGCEVFEIILTRGYRENNFREDLKSLYQKLGIENKSIVFLFTD 2705

Query:   514 AEIVEEGY-QVFTIQLSRGYNEASFKEDLK-SLYNLLG 549
               + EE + ++    L+ G   A F +D K S+ + +G
Sbjct:  2706 GHVAEESFLELINNMLTSGMVPALFADDEKDSILSQIG 2743

GO:0003777 "microtubule motor activity" evidence=IEA

GO:0007018 "microtubule-based movement" evidence=IEA

GO:0016887 "ATPase activity" evidence=IEA

GO:0030286 "dynein complex" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

UNIPROTKB|F1RFM8 DNAH10 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 690 (248.0 bits), Expect = 1.6e-96, Sum P(3) = 1.6e-96
 Identities = 140/265 (52%), Positives = 181/265 (68%)

Query:   287 VIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNEFTRTICDRLNT 346
             ++ +LPPTP+KFHYIFNLRDLSR+  GL  T    F T    VR WRNE  R   DRL +
Sbjct:  2644 IVQDLPPTPSKFHYIFNLRDLSRVFNGLILTNPGRFQTVTQMVRVWRNECLRVFHDRLIS 2703

Query:   347 DEDLSLMSGHIADSVKRNFPQDVNVVMRDPLLFGDFRNALKETEPRYYEDLLDYSAVGHL 406
             + D  L+  HI + V  +F  DV  VMRDP+LFGDFR AL E E R YED+ DY A   L
Sbjct:  2704 ETDKQLVQEHIGNLVVEHFNDDVEAVMRDPILFGDFRMALHEEEMRIYEDIQDYEAAKAL 2763

Query:   407 FTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVRL 466
             F EILEEYNES     +++LVLF+DA EHLTR+HR +R+ RGH ++VGV G GK+SL RL
Sbjct:  2764 FQEILEEYNES---NTKMNLVLFDDALEHLTRVHRIIRMDRGHALLVGVGGSGKQSLARL 2820

Query:   467 ASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEGY-QVFT 525
             A+F AG +VF I LSRGY+E +F+EDLK+LY  LG++N+  +FLFT A + EEG+ ++  
Sbjct:  2821 AAFTAGCEVFEILLSRGYSENNFREDLKNLYLKLGIENKMMIFLFTDAHVAEEGFLELIN 2880

Query:   526 IQLSRGYNEASFKEDLK-SLYNLLG 549
               L+ G   A F E+ K S+ + +G
Sbjct:  2881 NMLTSGIVPALFPEEEKESVLSQIG 2905

GO:0005524 "ATP binding" evidence=IEA

GO:0030286 "dynein complex" evidence=IEA

GO:0016887 "ATPase activity" evidence=IEA

GO:0007018 "microtubule-based movement" evidence=IEA

GO:0003777 "microtubule motor activity" evidence=IEA

UNIPROTKB|J9JHE6 DNAH10 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 693 (249.0 bits), Expect = 1.7e-96, Sum P(3) = 1.7e-96
 Identities = 141/268 (52%), Positives = 178/268 (66%)

Query:   276 TICDRLNTDELVIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNE 335
             T C  L   + ++ +L PTP+KFHYIFNLRDLSR+  GL  T    F T    VR WRNE
Sbjct:  2186 TFCT-LALYKTIVQDLHPTPSKFHYIFNLRDLSRVFNGLVLTNPERFQTVTQMVRVWRNE 2244

Query:   336 FTRTICDRLNTDEDLSLMSGHIADSVKRNFPQDVNVVMRDPLLFGDFRNALKETEPRYYE 395
               R   DRL  + D  L+  HI D V  +F  D  VVMRDP+LFGDFR AL+E E R YE
Sbjct:  2245 CLRVFHDRLINETDKQLVQDHIRDLVMEHFNDDAEVVMRDPILFGDFRMALQEEETRIYE 2304

Query:   396 DLLDYSAVGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGV 455
             D+ DY A   LF EILEEYNES     +++LVLF+DA EHLTR+HR +R+ RGH ++VGV
Sbjct:  2305 DIQDYEAAKALFQEILEEYNES---NTKMNLVLFDDALEHLTRVHRIIRMDRGHALLVGV 2361

Query:   456 EGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAE 515
              G GK+SL RLA+F AGY+VF I LSRGY+E +F+EDLK+LY  LG +N+  +FLFT   
Sbjct:  2362 GGSGKQSLARLAAFTAGYEVFEILLSRGYSENNFREDLKNLYLKLGTENKMMIFLFTDTH 2421

Query:   516 IVEEGY-QVFTIQLSRGYNEASFKEDLK 542
             + EEG+ ++    L+ G   A F E+ K
Sbjct:  2422 VAEEGFLELINNMLTSGIVPALFPEEEK 2449

GO:0005524 "ATP binding" evidence=IEA

GO:0030286 "dynein complex" evidence=IEA

GO:0016887 "ATPase activity" evidence=IEA

GO:0007018 "microtubule-based movement" evidence=IEA

GO:0003777 "microtubule motor activity" evidence=IEA

UNIPROTKB|F1PMG2 DNAH10 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 693 (249.0 bits), Expect = 2.2e-96, Sum P(3) = 2.2e-96
 Identities = 141/268 (52%), Positives = 178/268 (66%)

Query:   276 TICDRLNTDELVIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNE 335
             T C  L   + ++ +L PTP+KFHYIFNLRDLSR+  GL  T    F T    VR WRNE
Sbjct:  2449 TFCT-LALYKTIVQDLHPTPSKFHYIFNLRDLSRVFNGLVLTNPERFQTVTQMVRVWRNE 2507

Query:   336 FTRTICDRLNTDEDLSLMSGHIADSVKRNFPQDVNVVMRDPLLFGDFRNALKETEPRYYE 395
               R   DRL  + D  L+  HI D V  +F  D  VVMRDP+LFGDFR AL+E E R YE
Sbjct:  2508 CLRVFHDRLINETDKQLVQDHIRDLVMEHFNDDAEVVMRDPILFGDFRMALQEEETRIYE 2567

Query:   396 DLLDYSAVGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGV 455
             D+ DY A   LF EILEEYNES     +++LVLF+DA EHLTR+HR +R+ RGH ++VGV
Sbjct:  2568 DIQDYEAAKALFQEILEEYNES---NTKMNLVLFDDALEHLTRVHRIIRMDRGHALLVGV 2624

Query:   456 EGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAE 515
              G GK+SL RLA+F AGY+VF I LSRGY+E +F+EDLK+LY  LG +N+  +FLFT   
Sbjct:  2625 GGSGKQSLARLAAFTAGYEVFEILLSRGYSENNFREDLKNLYLKLGTENKMMIFLFTDTH 2684

Query:   516 IVEEGY-QVFTIQLSRGYNEASFKEDLK 542
             + EEG+ ++    L+ G   A F E+ K
Sbjct:  2685 VAEEGFLELINNMLTSGIVPALFPEEEK 2712

GO:0005524 "ATP binding" evidence=IEA

GO:0030286 "dynein complex" evidence=IEA

GO:0016887 "ATPase activity" evidence=IEA

GO:0007018 "microtubule-based movement" evidence=IEA

GO:0003777 "microtubule motor activity" evidence=IEA

UNIPROTKB|E2RMJ8 DNAH10 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 693 (249.0 bits), Expect = 2.5e-96, Sum P(3) = 2.5e-96
 Identities = 141/268 (52%), Positives = 178/268 (66%)

Query:   276 TICDRLNTDELVIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNE 335
             T C  L   + ++ +L PTP+KFHYIFNLRDLSR+  GL  T    F T    VR WRNE
Sbjct:  2594 TFCT-LALYKTIVQDLHPTPSKFHYIFNLRDLSRVFNGLVLTNPERFQTVTQMVRVWRNE 2652

Query:   336 FTRTICDRLNTDEDLSLMSGHIADSVKRNFPQDVNVVMRDPLLFGDFRNALKETEPRYYE 395
               R   DRL  + D  L+  HI D V  +F  D  VVMRDP+LFGDFR AL+E E R YE
Sbjct:  2653 CLRVFHDRLINETDKQLVQDHIRDLVMEHFNDDAEVVMRDPILFGDFRMALQEEETRIYE 2712

Query:   396 DLLDYSAVGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGV 455
             D+ DY A   LF EILEEYNES     +++LVLF+DA EHLTR+HR +R+ RGH ++VGV
Sbjct:  2713 DIQDYEAAKALFQEILEEYNES---NTKMNLVLFDDALEHLTRVHRIIRMDRGHALLVGV 2769

Query:   456 EGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAE 515
              G GK+SL RLA+F AGY+VF I LSRGY+E +F+EDLK+LY  LG +N+  +FLFT   
Sbjct:  2770 GGSGKQSLARLAAFTAGYEVFEILLSRGYSENNFREDLKNLYLKLGTENKMMIFLFTDTH 2829

Query:   516 IVEEGY-QVFTIQLSRGYNEASFKEDLK 542
             + EEG+ ++    L+ G   A F E+ K
Sbjct:  2830 VAEEGFLELINNMLTSGIVPALFPEEEK 2857

GO:0005524 "ATP binding" evidence=IEA

GO:0030286 "dynein complex" evidence=IEA

GO:0016887 "ATPase activity" evidence=IEA

GO:0007018 "microtubule-based movement" evidence=IEA

GO:0003777 "microtubule motor activity" evidence=IEA

UNIPROTKB|F1MSP8 Bt.11479 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 695 (249.7 bits), Expect = 4.6e-95, Sum P(3) = 4.6e-95
 Identities = 140/265 (52%), Positives = 181/265 (68%)

Query:   287 VIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNEFTRTICDRLNT 346
             ++ +LPPTP+KFHYIFNLRDLSR+  GL  T    F T    VR WRNE  R   DRL  
Sbjct:  2638 IVQDLPPTPSKFHYIFNLRDLSRVYNGLVLTNPERFQTVTQMVRVWRNECLRVFHDRLIN 2697

Query:   347 DEDLSLMSGHIADSVKRNFPQDVNVVMRDPLLFGDFRNALKETEPRYYEDLLDYSAVGHL 406
             + D  L+  HI   V  +F  DV VVMRDP+LFGDFR AL E E R YED+ DY A   L
Sbjct:  2698 ETDKELVQEHIRILVTAHFNDDVEVVMRDPILFGDFRTALHEEEARIYEDIQDYEAAKAL 2757

Query:   407 FTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVRL 466
             F EILEEYNES     +++LVLF+DA EHLTR+HR +R+ RGH ++VGV G GK+SL RL
Sbjct:  2758 FQEILEEYNES---NTKMNLVLFDDALEHLTRVHRIIRMDRGHALLVGVGGSGKQSLARL 2814

Query:   467 ASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEGY-QVFT 525
             A+F AGY+VF I LSRGY+E +F++DLK+LY  LG++N+  +FLFT A + EEG+ ++  
Sbjct:  2815 AAFTAGYEVFEILLSRGYSENNFRDDLKNLYLKLGIENKMMIFLFTDAHVAEEGFLELVN 2874

Query:   526 IQLSRGYNEASFKEDLK-SLYNLLG 549
               L+ G   A F ++ K S+ + +G
Sbjct:  2875 NMLTSGIVPALFPDEEKESILSQIG 2899

GO:0005524 "ATP binding" evidence=IEA

GO:0030286 "dynein complex" evidence=IEA

GO:0016887 "ATPase activity" evidence=IEA

GO:0007018 "microtubule-based movement" evidence=IEA

GO:0003777 "microtubule motor activity" evidence=IEA

FB|FBgn0013813 Dhc98D "Dynein heavy chain at 89D" [Drosophila melanogaster (taxid:7227)]

 Score = 637 (229.3 bits), Expect = 1.1e-91, Sum P(2) = 1.1e-91
 Identities = 154/344 (44%), Positives = 202/344 (58%)

Query:   223 LVIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNEFTRTICDRLN 282
             +VI +LPPTP+KFHYIFNL+DLSRI  G+   E   F      +R WRNE+TR ICDRL 
Sbjct:  3197 MVIVDLPPTPSKFHYIFNLKDLSRIFAGMLLIEPTCFKGLRDLIRVWRNEYTRIICDRLI 3256

Query:   283 TDELVIAELPPTPAKFHYIFNLRDLS-RIIQGLTATEKIIFNTKEMFVRAWRNEF---TR 338
             TD   IA +             R+L+  + +    T    F  +  F+ A   E     R
Sbjct:  3257 TDN-DIANVR------------RNLAVEVAERFPPT----FEEEHGFIDAAAAEAEAQAR 3299

Query:   339 TICDRLNTDEDLSLMSGHIADSVKRNFPQDV----NVVMRDPLLFGDFRNALKETEPRYY 394
              + +    D D     G   +      PQ +    + V+RDPLLFGDFRN   E+EPR Y
Sbjct:  3300 LLYEPSKADIDGGEEEGE-EEEEGEEAPQVILSLKDYVLRDPLLFGDFRNFTNESEPRLY 3358

Query:   395 EDLLDYSAVGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVG 454
             EDLLDY++V  LFTEILEEY E    K ++ LVLFED  EHLTR+HR LR++RGH +++G
Sbjct:  3359 EDLLDYNSVYFLFTEILEEYCER---KQKMTLVLFEDCLEHLTRVHRTLRMNRGHVLLIG 3415

Query:   455 VEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAA 514
             V G GK+ + RLA+FAA   VF I +SRGYNEA+F+EDLK LY + GVK +  VFLFT A
Sbjct:  3416 VGGSGKKCITRLAAFAAECDVFEITISRGYNEAAFREDLKVLYTIAGVKRKKVVFLFTGA 3475

Query:   515 EIVEEGY-QVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVF 557
             ++ EEG+ ++    L+ G   A F ++ K      G+ NQ   F
Sbjct:  3476 QVAEEGFLELINNILTVGQVPALFPDEDKD-----GIVNQVRKF 3514

GO:0005875 "microtubule associated complex" evidence=ISS;NAS

GO:0003774 "motor activity" evidence=ISS

GO:0005858 "axonemal dynein complex" evidence=ISS

GO:0007018 "microtubule-based movement" evidence=IEA;ISS

GO:0042623 "ATPase activity, coupled" evidence=ISS

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003777 "microtubule motor activity" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	567
pfam12780	268	pfam12780, AAA_8, P-loop containing dynein motor r	2e-24
COG5245	3164	COG5245, DYN1, Dynein, heavy chain [Cytoskeleton]	7e-12
pfam12775	272	pfam12775, AAA_7, P-loop containing dynein motor r	7e-06
pfam12775	272	pfam12775, AAA_7, P-loop containing dynein motor r	7e-06
pfam12775	272	pfam12775, AAA_7, P-loop containing dynein motor r	8e-05

>gnl|CDD|193256 pfam12780, AAA_8, P-loop containing dynein motor region D4

 Score =  102 bits (256), Expect = 2e-24
 Identities = 50/111 (45%), Positives = 67/111 (60%), Gaps = 3/111 (2%)

Query: 414 YNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVRLASFAAGY 473
           YNE     A ++LVLFEDA  H+ RI+R L   RG+ ++VGV G GK+SL RLA++ +  
Sbjct: 1   YNE---VNAVMNLVLFEDAMAHVCRINRILESPRGNALLVGVGGSGKQSLSRLAAYISSL 57

Query: 474 QVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEGYQVF 524
            VF I L +GY     K DL +     GVKN  TVFL T A++ +E + V 
Sbjct: 58  DVFQITLRKGYGIPDLKIDLAAQCIKAGVKNVPTVFLMTDAQVADEQFLVL 108

The 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases. The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules, of which four correspond to the ATP binding sites with P-loop signatures described previously, and two are modules in which the P loop has been lost in evolution. This particular family is the D4 ATP-binding region of the motor. Length = 268

>gnl|CDD|227570 COG5245, DYN1, Dynein, heavy chain [Cytoskeleton]

 Score = 68.5 bits (167), Expect = 7e-12
 Identities = 38/226 (16%), Positives = 71/226 (31%), Gaps = 15/226 (6%)

Query: 299  HYIFNLRDLSRIIQGL-TATEKIIFNTKEMFVRAWRNEFTRTICDRLNTDEDLSLMSGHI 357
            +Y +  R+L+R ++ +    E  I       +  W  E  R   DRL   ++ S     +
Sbjct: 1697 NYGYKPRELTRSLRAIFGYAETRIDTPDVSLIIDWYCEAIREKIDRLVQQKESSTSRQDL 1756

Query: 358  ADSVKRNFP-QDVNVVMRDPLLFGD-FRNALKETEPRYYEDLLDYSAVGHLFTEILEEYN 415
             D   R         +    + F       +        +DL  +         + E   
Sbjct: 1757 YDFGLRAIREMIAGHIGEAEITFSMILFFGMACLL---KKDLAVF---------VEEVRK 1804

Query: 416  ESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVRLASFAAGYQV 475
                +   ++ V ++DA  H+ R  R L +  GH ++ GV   G         +     +
Sbjct: 1805 IFGSSHLDVEAVAYKDALLHILRSRRGLLVVGGHGVLKGVLIRGACDAREFVCWLNPRNM 1864

Query: 476  FTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEGY 521
              I   R      F++ LK       +           +  VE  +
Sbjct: 1865 REIFGHRDELTGDFRDSLKVQDLRRNIHGGRECLFIFESIPVESSF 1910

Length = 3164

>gnl|CDD|193251 pfam12775, AAA_7, P-loop containing dynein motor region D3

 Score = 47.6 bits (113), Expect = 7e-06
 Identities = 20/49 (40%), Positives = 26/49 (53%)

Query: 224 VIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNE 272
           +     PT  KFHY+FNLRDLS I QGL  +      +    +R W +E
Sbjct: 224 IATTFLPTAIKFHYVFNLRDLSNIFQGLLFSSVECLKSPWDLIRLWLHE 272

the 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases. The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules, of which four correspond to the ATP binding sites with P-loop signatures described previously, and two are modules in which the P loop has been lost in evolution. This particular family is the D3 and is an ATP binding site. Length = 272

>gnl|CDD|193251 pfam12775, AAA_7, P-loop containing dynein motor region D3

 Score = 47.6 bits (113), Expect = 7e-06
 Identities = 20/49 (40%), Positives = 26/49 (53%)

Query: 287 VIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNE 335
           +     PT  KFHY+FNLRDLS I QGL  +      +    +R W +E
Sbjct: 224 IATTFLPTAIKFHYVFNLRDLSNIFQGLLFSSVECLKSPWDLIRLWLHE 272

the 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases. The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules, of which four correspond to the ATP binding sites with P-loop signatures described previously, and two are modules in which the P loop has been lost in evolution. This particular family is the D3 and is an ATP binding site. Length = 272

>gnl|CDD|193251 pfam12775, AAA_7, P-loop containing dynein motor region D3

 Score = 44.2 bits (104), Expect = 8e-05
 Identities = 26/88 (29%), Positives = 46/88 (52%), Gaps = 10/88 (11%)

Query: 164 DGDKSFGDILVPTTDSTKLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLSPDKYL 223
           D +      LV T+++ ++ + + L+ E +RP ++VG+ GT K+  + + L SL PD YL
Sbjct: 4   DPEMPLQACLVHTSETIRVRYFMDLLMERQRPVMLVGNAGTGKSVLVGDKLASLDPDAYL 63

Query: 224 VIAELPPTPAKFHYIFNLRDLSRIIQGL 251
           V   +P         FN    S ++Q +
Sbjct: 64  V-KNVP---------FNYYTTSAMLQAV 81

the 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases. The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules, of which four correspond to the ATP binding sites with P-loop signatures described previously, and two are modules in which the P loop has been lost in evolution. This particular family is the D3 and is an ATP binding site. Length = 272

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	567
KOG3595|consensus	1395		100.0
COG5245	3164	DYN1 Dynein, heavy chain [Cytoskeleton]	100.0
PF12780	268	AAA_8: P-loop containing dynein motor region D4; I	100.0
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	100.0
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	99.04
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	98.85
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	98.81
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	98.79
KOG0733|consensus	802		98.61
KOG0736|consensus	953		98.48
KOG0735|consensus	952		98.34
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	98.3
CHL00095	821	clpC Clp protease ATP binding subunit	98.15
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	98.13
PF12774	231	AAA_6: Hydrolytic ATP binding site of dynein motor	98.09
KOG0730|consensus	693		98.0
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.92
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.84
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	97.62
PF00004	132	AAA: ATPase family associated with various cellula	97.58
KOG0741|consensus	744		97.33
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	97.2
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	97.2
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	97.12
PRK04195	482	replication factor C large subunit; Provisional	97.11
KOG1969|consensus	877		97.1
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	97.09
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	96.97
COG2256	436	MGS1 ATPase related to the helicase subunit of the	96.95
PHA02544	316	44 clamp loader, small subunit; Provisional	96.92
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	96.86
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	96.82
PRK10865	857	protein disaggregation chaperone; Provisional	96.77
PRK13851	344	type IV secretion system protein VirB11; Provision	96.7
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	96.68
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	96.66
PRK13900	332	type IV secretion system ATPase VirB11; Provisiona	96.64
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	96.62
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	96.61
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	96.61
smart00382	148	AAA ATPases associated with a variety of cellular	96.6
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	96.54
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	96.53
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	96.53
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	96.52
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	96.51
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	96.47
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	96.45
PRK13342	413	recombination factor protein RarA; Reviewed	96.43
PF00437	270	T2SE: Type II/IV secretion system protein; InterPr	96.42
PLN03025	319	replication factor C subunit; Provisional	96.36
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	96.35
PRK13833	323	conjugal transfer protein TrbB; Provisional	96.31
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	96.3
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	96.29
PF00004	132	AAA: ATPase family associated with various cellula	96.29
KOG0738|consensus	491		96.28
PHA02244	383	ATPase-like protein	96.25
PRK13342	413	recombination factor protein RarA; Reviewed	96.23
KOG0744|consensus	423		96.2
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	96.16
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	96.14
TIGR02782	299	TrbB_P P-type conjugative transfer ATPase TrbB. Th	96.13
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	96.12
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	96.09
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	96.09
PRK13341	725	recombination factor protein RarA/unknown domain f	96.09
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	96.06
PRK12402	337	replication factor C small subunit 2; Reviewed	96.06
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	96.04
TIGR02788	308	VirB11 P-type DNA transfer ATPase VirB11. The VirB	96.03
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	96.03
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	96.02
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	96.0
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	95.96
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	95.95
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	95.94
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	95.91
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	95.91
CHL00176	638	ftsH cell division protein; Validated	95.9
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	95.88
PF13173	128	AAA_14: AAA domain	95.87
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	95.84
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	95.81
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	95.79
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	95.77
PF13245	76	AAA_19: Part of AAA domain	95.73
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	95.71
PRK13894	319	conjugal transfer ATPase TrbB; Provisional	95.68
PRK13341	725	recombination factor protein RarA/unknown domain f	95.63
smart00382	148	AAA ATPases associated with a variety of cellular	95.62
CHL00195	489	ycf46 Ycf46; Provisional	95.61
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	95.6
TIGR02524	358	dot_icm_DotB Dot/Icm secretion system ATPase DotB.	95.59
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	95.57
CHL00095	821	clpC Clp protease ATP binding subunit	95.56
PLN03025	319	replication factor C subunit; Provisional	95.55
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	95.54
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	95.53
KOG2028|consensus	554		95.52
PRK00440	319	rfc replication factor C small subunit; Reviewed	95.48
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	95.47
PRK06526	254	transposase; Provisional	95.47
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	95.43
PRK08181	269	transposase; Validated	95.42
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	95.41
PRK12402	337	replication factor C small subunit 2; Reviewed	95.4
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	95.37
PRK04195	482	replication factor C large subunit; Provisional	95.36
PRK13764	602	ATPase; Provisional	95.34
COG0630	312	VirB11 Type IV secretory pathway, VirB11 component	95.33
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	95.32
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	95.27
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	95.26
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	95.25
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	95.23
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	95.22
COG1219	408	ClpX ATP-dependent protease Clp, ATPase subunit [P	95.21
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	95.19
PRK03992	389	proteasome-activating nucleotidase; Provisional	95.18
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	95.18
PRK08084	235	DNA replication initiation factor; Provisional	95.17
PRK14737	186	gmk guanylate kinase; Provisional	95.14
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	95.13
KOG0743|consensus	457		95.11
COG0606	490	Predicted ATPase with chaperone activity [Posttran	95.1
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	95.1
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	95.09
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	95.09
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	95.06
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	95.05
TIGR03819	340	heli_sec_ATPase helicase/secretion neighborhood AT	95.03
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	95.02
TIGR02525	372	plasmid_TraJ plasmid transfer ATPase TraJ. Members	95.02
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	95.01
COG2805	353	PilT Tfp pilus assembly protein, pilus retraction	95.01
COG2256	436	MGS1 ATPase related to the helicase subunit of the	95.01
COG0714	329	MoxR-like ATPases [General function prediction onl	94.99
PRK00411	394	cdc6 cell division control protein 6; Reviewed	94.99
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	94.97
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	94.95
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	94.93
PRK07940	394	DNA polymerase III subunit delta'; Validated	94.92
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	94.91
PRK08903	227	DnaA regulatory inactivator Hda; Validated	94.9
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	94.9
PF07726	131	AAA_3: ATPase family associated with various cellu	94.9
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	94.88
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	94.87
PHA02244	383	ATPase-like protein	94.84
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	94.84
PF12774	231	AAA_6: Hydrolytic ATP binding site of dynein motor	94.83
COG0714	329	MoxR-like ATPases [General function prediction onl	94.83
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	94.81
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	94.81
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	94.78
smart00072	184	GuKc Guanylate kinase homologues. Active enzymes c	94.78
KOG2004|consensus	906		94.77
PF13555	62	AAA_29: P-loop containing region of AAA domain	94.76
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	94.72
PRK00440	319	rfc replication factor C small subunit; Reviewed	94.7
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	94.7
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	94.68
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	94.66
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	94.66
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	94.65
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	94.63
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	94.59
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	94.59
PRK06893	229	DNA replication initiation factor; Validated	94.58
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	94.56
PF05729	166	NACHT: NACHT domain	94.53
PRK00300	205	gmk guanylate kinase; Provisional	94.51
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	94.49
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	94.48
CHL00181	287	cbbX CbbX; Provisional	94.48
PRK09183	259	transposase/IS protein; Provisional	94.46
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	94.43
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	94.43
KOG0989|consensus	346		94.41
COG2804	500	PulE Type II secretory pathway, ATPase PulE/Tfp pi	94.36
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	94.35
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	94.32
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	94.29
KOG0731|consensus	774		94.29
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	94.29
PRK13531	498	regulatory ATPase RavA; Provisional	94.28
TIGR02533	486	type_II_gspE general secretory pathway protein E.	94.26
PRK09087	226	hypothetical protein; Validated	94.22
PRK00131	175	aroK shikimate kinase; Reviewed	94.22
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	94.21
PF02367	123	UPF0079: Uncharacterised P-loop hydrolase UPF0079;	94.21
PRK11608	326	pspF phage shock protein operon transcriptional ac	94.2
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	94.18
PF00270	169	DEAD: DEAD/DEAH box helicase; InterPro: IPR011545	94.15
PRK08118	167	topology modulation protein; Reviewed	94.14
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	94.13
PRK03992	389	proteasome-activating nucleotidase; Provisional	94.11
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	94.1
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	94.1
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	94.09
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	94.09
PRK08727	233	hypothetical protein; Validated	94.08
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	94.05
PRK07261	171	topology modulation protein; Provisional	94.03
PRK10865	857	protein disaggregation chaperone; Provisional	94.0
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	94.0
PRK00411	394	cdc6 cell division control protein 6; Reviewed	93.99
PRK12377	248	putative replication protein; Provisional	93.99
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	93.97
PRK08084	235	DNA replication initiation factor; Provisional	93.97
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	93.94
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	93.94
KOG0727|consensus	408		93.93
PRK08116	268	hypothetical protein; Validated	93.93
PF12846	304	AAA_10: AAA-like domain	93.91
KOG0743|consensus	457		93.9
CHL00195	489	ycf46 Ycf46; Provisional	93.9
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	93.89
PRK06620	214	hypothetical protein; Validated	93.89
KOG0733|consensus	802		93.88
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	93.87
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	93.86
TIGR02688	449	conserved hypothetical protein TIGR02688. Members	93.84
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	93.83
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	93.8
PRK10436	462	hypothetical protein; Provisional	93.79
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	93.79
PF04851	184	ResIII: Type III restriction enzyme, res subunit;	93.78
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	93.76
PRK06835	329	DNA replication protein DnaC; Validated	93.76
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	93.75
KOG0060|consensus	659		93.71
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	93.7
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	93.69
PRK14738	206	gmk guanylate kinase; Provisional	93.69
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	93.64
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	93.64
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	93.62
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	93.62
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	93.62
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	93.61
PTZ00112	1164	origin recognition complex 1 protein; Provisional	93.59
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	93.58
TIGR02538	564	type_IV_pilB type IV-A pilus assembly ATPase PilB.	93.57
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	93.54
COG4962	355	CpaF Flp pilus assembly protein, ATPase CpaF [Intr	93.54
PRK07952	244	DNA replication protein DnaC; Validated	93.52
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	93.51
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	93.5
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	93.46
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	93.43
PRK08939	306	primosomal protein DnaI; Reviewed	93.43
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	93.43
PRK13948	182	shikimate kinase; Provisional	93.42
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	93.38
PRK14530	215	adenylate kinase; Provisional	93.38
cd00046	144	DEXDc DEAD-like helicases superfamily. A diverse f	93.35
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	93.33
PF00005	137	ABC_tran: ABC transporter This structure is on hol	93.33
KOG2228|consensus	408		93.31
PHA00729	226	NTP-binding motif containing protein	93.31
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	93.28
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	93.28
PRK05541	176	adenylylsulfate kinase; Provisional	93.27
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	93.27
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	93.24
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	93.23
PRK06762	166	hypothetical protein; Provisional	93.21
KOG0742|consensus	630		93.21
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	93.21
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	93.2
PRK13949	169	shikimate kinase; Provisional	93.2
KOG0991|consensus	333		93.2
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	93.18
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	93.18
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	93.18
PRK13947	171	shikimate kinase; Provisional	93.15
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	93.14
PF06414	199	Zeta_toxin: Zeta toxin; InterPro: IPR010488 This e	93.14
PF07726	131	AAA_3: ATPase family associated with various cellu	93.13
COG1219	408	ClpX ATP-dependent protease Clp, ATPase subunit [P	93.11
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	93.1
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	93.1
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	93.09
PRK07952	244	DNA replication protein DnaC; Validated	93.05
PF09439	181	SRPRB: Signal recognition particle receptor beta s	93.04
PRK06921	266	hypothetical protein; Provisional	93.03
KOG0734|consensus	752		93.03
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	93.02
KOG2028|consensus	554		93.0
PRK05564	313	DNA polymerase III subunit delta'; Validated	93.0
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	92.97
PRK14088	440	dnaA chromosomal replication initiation protein; P	92.97
PRK14532	188	adenylate kinase; Provisional	92.97
PRK10536	262	hypothetical protein; Provisional	92.97
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	92.95
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	92.94
PRK05057	172	aroK shikimate kinase I; Reviewed	92.94
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	92.89
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	92.88
PRK14531	183	adenylate kinase; Provisional	92.87
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	92.86
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	92.85
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	92.85
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	92.83
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	92.81
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	92.8
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	92.8
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	92.79
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	92.79
cd01918	149	HprK_C HprK/P, the bifunctional histidine-containi	92.76
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	92.76
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	92.76
PRK00149	450	dnaA chromosomal replication initiation protein; R	92.74
COG5008	375	PilU Tfp pilus assembly protein, ATPase PilU [Cell	92.74
PRK12377	248	putative replication protein; Provisional	92.73
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	92.7
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	92.69
PF01580	205	FtsK_SpoIIIE: FtsK/SpoIIIE family; InterPro: IPR00	92.68
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	92.67
PRK10646	153	ADP-binding protein; Provisional	92.66
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	92.65
COG4619	223	ABC-type uncharacterized transport system, ATPase	92.63
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	92.63
PRK08233	182	hypothetical protein; Provisional	92.63
PF13173	128	AAA_14: AAA domain	92.63
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	92.63
PRK06835	329	DNA replication protein DnaC; Validated	92.62
PRK04328	249	hypothetical protein; Provisional	92.59
PRK04040	188	adenylate kinase; Provisional	92.56
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	92.55
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	92.54
KOG0731|consensus	774		92.53
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	92.49
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	92.47
PRK03839	180	putative kinase; Provisional	92.46
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	92.46
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	92.42
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	92.41
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	92.4
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	92.4
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	92.4
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	92.4
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	92.39
PRK09087	226	hypothetical protein; Validated	92.36
KOG0729|consensus	435		92.36
PRK05480	209	uridine/cytidine kinase; Provisional	92.35
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	92.27
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	92.24
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	92.24
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	92.22
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	92.22
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	92.21
PRK11608	326	pspF phage shock protein operon transcriptional ac	92.2
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	92.19
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	92.18
PRK05642	234	DNA replication initiation factor; Validated	92.18
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	92.18
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	92.17
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	92.17
PRK13947	171	shikimate kinase; Provisional	92.16
PRK15424	538	propionate catabolism operon regulatory protein Pr	92.16
PLN02772	398	guanylate kinase	92.15
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	92.15
COG4525	259	TauB ABC-type taurine transport system, ATPase com	92.14
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	92.14
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	92.13
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	92.13
PRK00625	173	shikimate kinase; Provisional	92.13
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	92.13
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	92.12
PRK05707	328	DNA polymerase III subunit delta'; Validated	92.12
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	92.12
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	92.12
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	92.1
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	92.1
PLN02199	303	shikimate kinase	92.1
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	92.08
CHL00176	638	ftsH cell division protein; Validated	92.08
PF13245	76	AAA_19: Part of AAA domain	92.07
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	92.07
PRK14088	440	dnaA chromosomal replication initiation protein; P	92.06
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	92.03
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	92.02
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	92.01
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	91.98
KOG1970|consensus	634		91.95
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	91.95
TIGR00376	637	DNA helicase, putative. The gene product may repre	91.94
TIGR02329	526	propionate_PrpR propionate catabolism operon regul	91.94
KOG0739|consensus	439		91.93
PRK08154	309	anaerobic benzoate catabolism transcriptional regu	91.93
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	91.92
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	91.9
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	91.89
PRK13531	498	regulatory ATPase RavA; Provisional	91.89
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	91.88
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	91.86
PRK12608	380	transcription termination factor Rho; Provisional	91.84
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	91.83
PRK06547	172	hypothetical protein; Provisional	91.83
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	91.8
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	91.78
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	91.73
PRK13949	169	shikimate kinase; Provisional	91.71
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	91.7
COG5019	373	CDC3 Septin family protein [Cell division and chro	91.67
KOG1803|consensus	649		91.67
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	91.66
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	91.65
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	91.65
PRK05057	172	aroK shikimate kinase I; Reviewed	91.63
PRK08116	268	hypothetical protein; Validated	91.59
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	91.58
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	91.57
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	91.55
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	91.55
cd01128	249	rho_factor Transcription termination factor rho is	91.55
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	91.54
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	91.52
PHA02530	300	pseT polynucleotide kinase; Provisional	91.51
PRK09825	176	idnK D-gluconate kinase; Provisional	91.51
cd03269	210	ABC_putative_ATPase This subfamily is involved in	91.51
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	91.51
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	91.5
PRK13765	637	ATP-dependent protease Lon; Provisional	91.5
PRK14527	191	adenylate kinase; Provisional	91.49
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	91.49
PRK06217	183	hypothetical protein; Validated	91.49
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	91.49
PHA02544	316	44 clamp loader, small subunit; Provisional	91.48
cd01394	218	radB RadB. The archaeal protein radB shares simila	91.48
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	91.47
KOG0745|consensus	564		91.47
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	91.46
KOG0734|consensus	752		91.46
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	91.46
COG1484	254	DnaC DNA replication protein [DNA replication, rec	91.45
KOG0738|consensus	491		91.45
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	91.45
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	91.44
PLN02674	244	adenylate kinase	91.43
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	91.41
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	91.41
TIGR00235	207	udk uridine kinase. Model contains a number of lon	91.39
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	91.38
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	91.36
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	91.36
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	91.35
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	91.33
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	91.31
TIGR00368	499	Mg chelatase-related protein. The N-terminal end m	91.3
PHA02624	647	large T antigen; Provisional	91.29
COG3638	258	ABC-type phosphate/phosphonate transport system, A	91.29
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	91.28
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	91.27
PLN02165	334	adenylate isopentenyltransferase	91.27
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	91.24
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	91.22
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	91.2
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	91.19
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	91.19
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	91.19
PRK08118	167	topology modulation protein; Reviewed	91.18
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	91.17
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	91.17
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	91.16
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	91.15
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	91.14
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	91.13
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	91.12
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	91.11
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	91.11
PRK15177	213	Vi polysaccharide export ATP-binding protein VexC;	91.11
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	91.1
PRK13540	200	cytochrome c biogenesis protein CcmA; Provisional	91.09
smart00487	201	DEXDc DEAD-like helicases superfamily.	91.08
KOG3347|consensus	176		91.07
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	91.05
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	91.04
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	91.03
cd03268	208	ABC_BcrA_bacitracin_resist The BcrA subfamily repr	91.03
cd03246	173	ABCC_Protease_Secretion This family represents the	91.03
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	91.01
PF01935	229	DUF87: Domain of unknown function DUF87; InterPro:	91.01
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	90.99
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	90.98
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	90.97
TIGR03410	230	urea_trans_UrtE urea ABC transporter, ATP-binding	90.96
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	90.96
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	90.94
PRK01184	184	hypothetical protein; Provisional	90.94
KOG0737|consensus	386		90.93
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	90.92
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	90.91
PRK07261	171	topology modulation protein; Provisional	90.87
PTZ00133	182	ADP-ribosylation factor; Provisional	90.85
PRK02496	184	adk adenylate kinase; Provisional	90.84
KOG1942|consensus	456		90.84

>KOG3595|consensus

Probab=100.00  E-value=1.7e-66  Score=621.43  Aligned_cols=442  Identities=33%  Similarity=0.563  Sum_probs=399.2

Q ss_pred             hhHHHHHHHHHHhccCcccCCCCCHHHHHHHHHHHHHHHhcCcCChhhHHHHHHHHHHHhCCCCCCCCcccccccCcCCC
Q psy12736         55 FTEIVQLCQMLQASLDEANLGSMSPEELEAVFIQSVYASLGASLVAEAQTVFDAHVKNLTGFLNVVDSDDRLANYTQIPT  134 (567)
Q Consensus        55 ~~lv~s~~~ll~~ll~~~~~~~~~~~~~e~~FifsliWs~Gg~l~~~~R~~Fd~~lr~~~~~~~~~d~~~~~~~~~~~P~  134 (567)
                      .+.+. .|.+.+            ..+++..|.||++|++||+++.++|.+|..|+++...                   
T Consensus        27 ~~~~~-~~~l~~------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------------------   74 (1395)
T KOG3595|consen   27 STMIQ-VCELLD------------KSHLERLFLFALIWALGGDLDADSREKFREFLRRLIN-------------------   74 (1395)
T ss_pred             hhHHH-HHHHHH------------HHHHHHHHHHHHHHHhhcccchhHHHHHHHHHHHHHh-------------------
Confidence            55566 666655            3579999999999999999999999999999998652                   


Q ss_pred             CCCCeeEEEEECCCCceeeCcccccceeecCCCCCccccccCcchhhHHHHHHHHHhcCCCeEEeccCCCCchhhHHHHH
Q psy12736        135 AESSWYHYTLDRSKNAWVPWRHLVRSYVHDGDKSFGDILVPTTDSTKLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFL  214 (567)
Q Consensus       135 ~~~~vfDy~~d~~~~~w~~W~~~v~~~~~~~~~~~~~i~VpT~dtvR~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l  214 (567)
                         ++++||.+...+.|.+|.+.++ +...++..  +++|||.||+|+.++++.++..++|+++|||+|||||+++...+
T Consensus        75 ---~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~--~~~v~t~dt~r~~~~~~~~~~~~k~~~~~g~~g~gk~~~~~~~~  148 (1395)
T KOG3595|consen   75 ---IIDLYYIDEEIGDWEPWIDKVP-FELLEDHE--DILVPTIDTVRYDRLLKLLLAHGKPVLLVGPTGTGKTVLVLSEL  148 (1395)
T ss_pred             ---hhhheeeeeccccccchhhhCc-cccccccc--ceecCccceeeHHHHHHHHHHhCCeEEEEcCCCCCeeeehHHHH
Confidence               5678888888999999999999 76666655  99999999999999999999999999999999999999999999


Q ss_pred             hccCCCcceeee------------------c-------CCCCCceEEEEe----ec------------------------
Q psy12736        215 RSLSPDKYLVIA------------------E-------LPPTPAKFHYIF----NL------------------------  241 (567)
Q Consensus       215 ~~l~~~~~~~~~------------------e-------gPp~gkk~v~iF----Nl------------------------  241 (567)
                      .+..+..+..+|                  +       |||.+++++ +|    |+                        
T Consensus       149 ~~~~~~~~~~~~fs~~ts~~~~q~~~~~~~~k~~~~~~~~~~~~~~~-~f~ddinmp~~~~yg~q~~~~~lrq~~e~~g~  227 (1395)
T KOG3595|consen  149 RSLQDREVYLLNFSSVTSSELLQEIIESKLDKRRSGNYGPPLGKKLV-LFVDDINMPALDKYGDQPPIELLRQMLEHGGF  227 (1395)
T ss_pred             HhcccchheEEeeeeeccHHHHHHHHHHHHHHhcccCCCCCCCceeE-EEEeccCCchhhhcCCccHHHHHHHHHHhcee
Confidence            987654422133                  1       899999999 77    41                        


Q ss_pred             -----------cch----------------h-hhhhccccccccccCCHHHHHHHHHHhhhhhhc--------------C
Q psy12736        242 -----------RDL----------------S-RIIQGLTATEKIIFNTKEMFVRAWRNEFTRTIC--------------D  279 (567)
Q Consensus       242 -----------~D~----------------~-R~~rg~f~~~~~~~~s~~sl~~I~~~il~~~~~--------------~  279 (567)
                                 .|+                . ||.| ||.+++++.|+.+++.+||.+++...+.              .
T Consensus       228 ~~~~~~~~~~i~~i~~~~a~~~~~~gr~~i~~r~~r-~f~~~~~~~~~~~sl~~if~~~~~~~~~~~~~~~~~~~~i~~~  306 (1395)
T KOG3595|consen  228 YDRKKSEWVEIENVQLVGAMNPPGGGRNDITERFLR-HFLIVSLNYPSQESLTQIFNTILTGHLRFAPAFRTSIEPIVNA  306 (1395)
T ss_pred             ecccccceeEEeeeEEEeecCCCCCccCcccHHHHH-HeeeEeeCCCChhhHHHHHHHHHhcccCccHHHHHhHHHHHHH
Confidence                       111                1 9999 9999999999999999999999885421              2


Q ss_pred             hHHHHHHHHHhCCCCCCccccccChhhHHHHHhhhhcccccccCCHHHHHHHHhhhhchhhccccCChhhHHHHHHHHHH
Q psy12736        280 RLNTDELVIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNEFTRTICDRLNTDEDLSLMSGHIAD  359 (567)
Q Consensus       280 ~i~~y~~i~~~llptp~k~HY~FnlRDlsrv~qGi~~~~~~~~~~~~~l~rLw~hE~~RVF~DRLi~~eDr~~f~~~l~~  359 (567)
                      ++.+|...+.+++|||.++||+|||||++||++|++.+.+....+...++++|.||+.|||.|||++++|++||++.+.+
T Consensus       307 ~~~~~~~~~~~~~~t~~~~hyv~~lrd~~r~~~~i~~~~~~~~~~~~~l~~~~~~e~~rv~~drlv~~~~~~~~~~~~~~  386 (1395)
T KOG3595|consen  307 SVDFYPKVQENFLPTPSKSHYVFNLRDLSRVVQGILLAVSEALLTLEDLIRLWVHEAIRVFADRLVDDEDRQWFDKKLQE  386 (1395)
T ss_pred             HHHHHHHHHHhcCCCCCcceeeechhhhhhheeehcccCcHhhccHHHHHHHHHHHHHHhhhhhcccHHHHHHHHHHHHH
Confidence            38999999999999999999999999999999999998877888999999999999999999999999999999999999


Q ss_pred             HHHhhCCcchhhhccCCceeccccccccCCCCcccccccChHHHHHHHHHHHHHHh-hhhcccCcceEEecHHHHHHHHH
Q psy12736        360 SVKRNFPQDVNVVMRDPLLFGDFRNALKETEPRYYEDLLDYSAVGHLFTEILEEYN-ESAGAKARLDLVLFEDAREHLTR  438 (567)
Q Consensus       360 ~~~~~f~~~~~~~~~~~llf~d~~~~~~~~~~~~Y~~v~d~~~l~~~~~~~l~~yn-~~~~~~~~~~lvlf~dai~hi~r  438 (567)
                      .+...|+...   ...|++||++....   . +.|.++.+++.+...+...+..|| ..   ...|++|+|.++++|++|
T Consensus       387 ~~~~~~~~~~---~~~~~~~~~~~~~~---~-~~y~~~~~~~~l~~~~~~~l~~~~~~~---~~~~~lvlf~~~~~h~~r  456 (1395)
T KOG3595|consen  387 VLLKLFEADS---LQMPLLYGDFRSES---H-KIYEEVLSVELLRGVLEAYLKQFNIEE---IRPMHLVLFRDAIEHVLR  456 (1395)
T ss_pred             HHHHHhhhhh---hcCCceeeeccccc---c-cccCchHhHHHHHHHHHHHHHHHhhhc---cCCCceeeeHHHhhhhhh
Confidence            9999987654   45689999998642   2 899999999999999999999999 43   789999999999999999


Q ss_pred             HHHHHhcCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCChhhHHHHHHHHHHHhccCCCcEEEEEecCcccc
Q psy12736        439 IHRALRLSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVE  518 (567)
Q Consensus       439 i~RvL~~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~qi~~  518 (567)
                      |+|++++|+||++|+|++|+||+|++|+++|++++.+||++++++|+..+|++|||.+++.||.+|++++|+++|+++.+
T Consensus       457 i~ril~~~~g~~llvgv~g~gkqsl~r~~~~~~~~~~fq~~~~~~y~~~~~~~dl~~~~r~~g~~~~~~~f~~~~~~i~~  536 (1395)
T KOG3595|consen  457 IDRILRQPRGHALLVGVGGSGKQSLTRLAAFINGLSVFQIEITRSYNIEDFREDLKAILRKAGLKNKETVFILTDSQIKD  536 (1395)
T ss_pred             hHHHhcCCCccEEEeecCCCCcccHHHHHHhhccccceeeeccccCcHHHHHHHHHHHHHHhccCCCceEEeechHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhhHHhh-hccCCccccCcchhHHHHHH
Q psy12736        519 EGYQVFTI-QLSRGYNEASFKEDLKSLYN  546 (567)
Q Consensus       519 e~fle~in-lL~~Gevp~Lf~~eE~~~i~  546 (567)
                      |+|+|+|| ||++||+|+||++||++.+.
T Consensus       537 e~fle~ln~ll~~gevp~lf~~de~~~~~  565 (1395)
T KOG3595|consen  537 ESFLEDLNNLLASGEVPNLFTGDELDEIK  565 (1395)
T ss_pred             HHHHHHHHHHHhCCCCCCccchHHHHHHH
Confidence            99999999 99999999999999999954

>COG5245 DYN1 Dynein, heavy chain [Cytoskeleton]

Probab=100.00  E-value=2.6e-44  Score=399.35  Aligned_cols=440  Identities=14%  Similarity=0.105  Sum_probs=351.7

Q ss_pred             HHHHHHHHHHHHHHhcCcCChhhHHHHHHHHHHHhCCCCCCCCcccccccCcCCC----CCCCeeEEEEECCCCceeeCc
Q psy12736         80 EELEAVFIQSVYASLGASLVAEAQTVFDAHVKNLTGFLNVVDSDDRLANYTQIPT----AESSWYHYTLDRSKNAWVPWR  155 (567)
Q Consensus        80 ~~~e~~FifsliWs~Gg~l~~~~R~~Fd~~lr~~~~~~~~~d~~~~~~~~~~~P~----~~~~vfDy~~d~~~~~w~~W~  155 (567)
                      ..+....-.++.|.+.|.-+.++|++|-.|+..-+...              +|.    +.-.+.++-++.....|   .
T Consensus      1393 ~~mk~~I~~vL~~~~~gD~~~es~~rf~~~~~~~~~~d--------------l~e~sdye~~~i~~f~is~~~~~~---~ 1455 (3164)
T COG5245        1393 VEMKRGINDVLKLRIFGDKCRESTPRFYLISDGDLIKD--------------LNERSDYEEMLIMMFNISAVITNN---G 1455 (3164)
T ss_pred             HHHHHHHHHHHHHHHhcCcccccchhHHHhhhhhhhhc--------------cchhhhhHHHHHhhcccceEeecc---c
Confidence            45777778888999999999999999999988765421              221    01233344444433333   3


Q ss_pred             ccccceeec-CCCC-CccccccCcchhhHHHHHHHHHhcCCCeEEeccCCCCchhhHHHHHhccCCCcceeee-------
Q psy12736        156 HLVRSYVHD-GDKS-FGDILVPTTDSTKLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLSPDKYLVIA-------  226 (567)
Q Consensus       156 ~~v~~~~~~-~~~~-~~~i~VpT~dtvR~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~~~~~~~~~-------  226 (567)
                      + ++.++.. .... -.++++||.||+++.-+..-+++.++.+++|||||+|||+++...|++-...++..+|       
T Consensus      1456 ~-Iag~~l~~~~vm~~~~vVipt~dt~~~~~f~n~~lnt~R~~i~cGppGSgK~mlM~~sLrs~~~~ev~~~Nfs~~t~T 1534 (3164)
T COG5245        1456 S-IAGFELRGERVMLRKEVVIPTSDTGFVDSFSNEALNTLRSYIYCGPPGSGKEMLMCPSLRSELITEVKYFNFSTCTMT 1534 (3164)
T ss_pred             c-cCCceechhhhcccCCeecccccchhHHHHHHHHHhccceEEEECCCCCccchhcchhhhhhhheeeeEEeeccccCC
Confidence            2 2334332 2233 3489999999999999999999999999999999999999999998876555555554       


Q ss_pred             -------c--------------CCCCC-ceEEEEe----ec---------------------------------------
Q psy12736        227 -------E--------------LPPTP-AKFHYIF----NL---------------------------------------  241 (567)
Q Consensus       227 -------e--------------gPp~g-kk~v~iF----Nl---------------------------------------  241 (567)
                             |              .|.+- |.+| +|    |+                                       
T Consensus      1535 ~s~ls~Ler~t~yy~~tg~~~l~PK~~vK~lV-LFcDeInLp~~~~y~~~~vI~FlR~l~e~QGfw~s~~~~wvTI~~i~ 1613 (3164)
T COG5245        1535 PSKLSVLERETEYYPNTGVVRLYPKPVVKDLV-LFCDEINLPYGFEYYPPTVIVFLRPLVERQGFWSSIAVSWVTICGII 1613 (3164)
T ss_pred             HHHHHHHHhhceeeccCCeEEEccCcchhheE-EEeeccCCccccccCCCceEEeeHHHHHhcccccchhhhHhhhcceE
Confidence                   1              24333 3444 66    41                                       


Q ss_pred             --------cchh------hhhhccccccccccCCHHHHHHHHHHhhhhh--------------hcChHHHHHHHHHhCCC
Q psy12736        242 --------RDLS------RIIQGLTATEKIIFNTKEMFVRAWRNEFTRT--------------ICDRLNTDELVIAELPP  293 (567)
Q Consensus       242 --------~D~~------R~~rg~f~~~~~~~~s~~sl~~I~~~il~~~--------------~~~~i~~y~~i~~~llp  293 (567)
                              .|.+      ||+| |-.++++.+|+-.||.+||..++...              +.+++++|+..+.++. 
T Consensus      1614 l~Gacnp~td~gRv~~~eRf~r-~~v~vf~~ype~~SL~~Iyea~l~~s~l~~~ef~~~se~~~~aSv~ly~~~k~~~k- 1691 (3164)
T COG5245        1614 LYGACNPGTDEGRVKYYERFIR-KPVFVFCCYPELASLRNIYEAVLMGSYLCFDEFNRLSEETMSASVELYLSSKDKTK- 1691 (3164)
T ss_pred             EEccCCCCCCcccCccHHHHhc-CceEEEecCcchhhHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHhhh-
Confidence                    1222      9999 99999999999999999999888732              2344899999888764 


Q ss_pred             CCCccccccChhhHHHHHhhhhccccccc-CCHHHHHHHHhhhhchhhccccCChhhHHHHHHHHHHHHHhhCCc-chhh
Q psy12736        294 TPAKFHYIFNLRDLSRIIQGLTATEKIIF-NTKEMFVRAWRNEFTRTICDRLNTDEDLSLMSGHIADSVKRNFPQ-DVNV  371 (567)
Q Consensus       294 tp~k~HY~FnlRDlsrv~qGi~~~~~~~~-~~~~~l~rLw~hE~~RVF~DRLi~~eDr~~f~~~l~~~~~~~f~~-~~~~  371 (567)
                      +-.+.||.|++|||+||+.|+..+..... ++...++++|+||++|++.|||+.+.+..|+.+.+.+...+.++. ...+
T Consensus      1692 ~~lq~~y~y~pReLtR~lr~i~~yaeT~~~t~~~slI~~wy~ea~r~~~dRLV~qkE~st~~q~ly~~~~~~~~e~~~g~ 1771 (3164)
T COG5245        1692 FFLQMNYGYKPRELTRSLRAIFGYAETRIDTPDVSLIIDWYCEAIREKIDRLVQQKESSTSRQDLYDFGLRAIREMIAGH 1771 (3164)
T ss_pred             hhcccccccChHHHHHHHHHHHhHHhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHhhhhhhhcc
Confidence            33578999999999999999987544333 355689999999999999999999999999999999999999884 3334


Q ss_pred             hccCCceeccccccccCCCCcccccccChHHHHHHHHHHHHHHhhhhcccCcceEEecHHHHHHHHHHHHHHhcCCCceE
Q psy12736        372 VMRDPLLFGDFRNALKETEPRYYEDLLDYSAVGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCM  451 (567)
Q Consensus       372 ~~~~~llf~d~~~~~~~~~~~~Y~~v~d~~~l~~~~~~~l~~yn~~~~~~~~~~lvlf~dai~hi~ri~RvL~~p~Gh~L  451 (567)
                      +....++|++...-       ... ..+...+...+++.-+.|..+   +....+|.+++|+.|+.|+.|+|.+.+||++
T Consensus      1772 i~e~~I~fS~Il~~-------g~~-~l~k~dl~~fvEe~~K~F~ss---hl~v~~V~~~~~l~HiLr~~R~l~~vggh~~ 1840 (3164)
T COG5245        1772 IGEAEITFSMILFF-------GMA-CLLKKDLAVFVEEVRKIFGSS---HLDVEAVAYKDALLHILRSRRGLLVVGGHGV 1840 (3164)
T ss_pred             cchhhhhHHHHHhc-------cHH-HHhhhhHHHHHHHHHHHhccc---CCCCceeeeHHHHHHHHHHHHHHHHhccchh
Confidence            44445666654321       011 235556777788888888876   7888999999999999999999999999999


Q ss_pred             EeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCChhhHHHHHHHHHHHhccCCCcEEEEEecCcccchhhhHHhh-hccC
Q psy12736        452 VVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEGYQVFTI-QLSR  530 (567)
Q Consensus       452 LvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~qi~~e~fle~in-lL~~  530 (567)
                      |.|+.|.|++.+++++||+++.+++||..++.|...||++-||.+...||+.|-..|+++.|+.+..++|||+.| ||++
T Consensus      1841 l~g~~~~g~~~~~efvcwlN~~~m~e~~~hr~~~~~Df~d~lk~~~~~~~~~~~r~Cl~I~Esi~~es~fLe~~N~LL~n 1920 (3164)
T COG5245        1841 LKGVLIRGACDAREFVCWLNPRNMREIFGHRDELTGDFRDSLKVQDLRRNIHGGRECLFIFESIPVESSFLEDFNPLLDN 1920 (3164)
T ss_pred             hhhhhhhhhHHHHHHHHHhCccchhhhhcccccchhhHHHHHHHHHHhccccCCceEEEEecCCccchHHHHHhhhhhhc
Confidence            999999999999999999999999999999999999999999999999999999999999999999999999999 9999


Q ss_pred             CccccCcchhHHHHHHHhhccc
Q psy12736        531 GYNEASFKEDLKSLYNLLGVKN  552 (567)
Q Consensus       531 Gevp~Lf~~eE~~~i~~~~~~~  552 (567)
                      .++|+||+++|.+.|. .-+|.
T Consensus      1921 ~~~~~lf~gne~~~I~-~nlr~ 1941 (3164)
T COG5245        1921 NRFLCLFSGNERIRIP-ENLRF 1941 (3164)
T ss_pred             cccchhccchhHHHHH-HHHHh
Confidence            9999999999999997 55543

>PF12780 AAA_8: P-loop containing dynein motor region D4; InterPro: IPR024317 The 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases

Probab=100.00  E-value=6.9e-42  Score=343.30  Aligned_cols=145  Identities=39%  Similarity=0.652  Sum_probs=122.3

Q ss_pred             HhhhhcccCcceEEecHHHHHHHHHHHHHHhcCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCChhhHHHHH
Q psy12736        414 YNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDL  493 (567)
Q Consensus       414 yn~~~~~~~~~~lvlf~dai~hi~ri~RvL~~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~~~~f~edL  493 (567)
                      ||+.   +.+|+||+|++|++||+||+|||++|+||+||||++||||+|++||||||+++++++|+++++|+.++|++||
T Consensus         1 yN~~---n~~m~lVlf~~ai~hi~ri~RvL~~~~Gh~LLvG~~GsGr~sl~rLaa~i~~~~~~~i~~~~~y~~~~f~~dL   77 (268)
T PF12780_consen    1 YNES---NTKMNLVLFDEAIEHIARISRVLSQPRGHALLVGVGGSGRQSLARLAAFICGYEVFQIEITKGYSIKDFKEDL   77 (268)
T ss_dssp             ----------------HHHHHHHHHHHHHHCSTTEEEEEECTTTSCHHHHHHHHHHHTTEEEE-TTTSTTTHHHHHHHHH
T ss_pred             CCcc---ccccceeeHHHHHHHHHHHHHHHcCCCCCeEEecCCCccHHHHHHHHHHHhccceEEEEeeCCcCHHHHHHHH
Confidence            7877   6799999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhccCCCcEEEEEecCcccchhhhHHhh-hccCCccccCcchhHHHHHHHhhccccceeeeeecc
Q psy12736        494 KSLYNLLGVKNQATVFLFTAAEIVEEGYQVFTI-QLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAA  562 (567)
Q Consensus       494 k~~~~~ag~~~~~~vfl~~d~qi~~e~fle~in-lL~~Gevp~Lf~~eE~~~i~~~~~~~~~~~~~~~~~  562 (567)
                      |+++++||++|+++||+++|+|+.+++|||+|| ||++|||||||++||++.|. +.+|++|+..++.++
T Consensus        78 k~~~~~ag~~~~~~vfll~d~qi~~~~fLe~in~LL~sGeip~LF~~eE~~~i~-~~l~~~~~~~~~~~~  146 (268)
T PF12780_consen   78 KKALQKAGIKGKPTVFLLTDSQIVDESFLEDINSLLSSGEIPNLFTKEELDNII-SSLREEAKAEGISDS  146 (268)
T ss_dssp             HHHHHHHHCS-S-EEEEEECCCSSSCHHHHHHHHHHHCSS-TTTS-TCHHHHHH-HHHHHHHHHCT--SS
T ss_pred             HHHHHHHhccCCCeEEEecCcccchHhHHHHHHHHHhCCCCCCCccHHHHHHHH-HHhHHHHHHcCCCCc
Confidence            999999999999999999999999999999999 99999999999999999998 999999988776543

The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules, of which four (D1 - D4) correspond to the ATP binding sites with P-loop signatures described previously, and two (D5, D6) are modules in which the P loop has been lost in evolution. This particular entry represents the D4 ATP-binding domain of the motor [].; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.

>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A

Probab=100.00  E-value=8.4e-41  Score=337.58  Aligned_cols=173  Identities=35%  Similarity=0.610  Sum_probs=136.4

Q ss_pred             eeecCCCCCccccccCcchhhHHHHHHHHHhcCCCeEEeccCCCCchhhHHHHHhccCCCcceee--e------------
Q psy12736        161 YVHDGDKSFGDILVPTTDSTKLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLSPDKYLVI--A------------  226 (567)
Q Consensus       161 ~~~~~~~~~~~i~VpT~dtvR~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~~~~~~~~--~------------  226 (567)
                      |++++++++++++|||+||+|+.|+++.|+++++||||+||+|||||++++++|++++++.|...  +            
T Consensus         1 ~~~~~~~~~~~~~VpT~dt~r~~~ll~~l~~~~~pvLl~G~~GtGKT~li~~~l~~l~~~~~~~~~~~~s~~Tts~~~q~   80 (272)
T PF12775_consen    1 FEYDPEMPFNEILVPTVDTVRYSYLLDLLLSNGRPVLLVGPSGTGKTSLIQNFLSSLDSDKYLVITINFSAQTTSNQLQK   80 (272)
T ss_dssp             ------------T---HHHHHHHHHHHHHHHCTEEEEEESSTTSSHHHHHHHHHHCSTTCCEEEEEEES-TTHHHHHHHH
T ss_pred             CCcccccccceEEeCcHHHHHHHHHHHHHHHcCCcEEEECCCCCchhHHHHhhhccCCccccceeEeeccCCCCHHHHHH
Confidence            46788999999999999999999999999999999999999999999999999999988876532  2            


Q ss_pred             --c-----------CCCCCceEEEEe----e-----------------------------------ccchh---------
Q psy12736        227 --E-----------LPPTPAKFHYIF----N-----------------------------------LRDLS---------  245 (567)
Q Consensus       227 --e-----------gPp~gkk~v~iF----N-----------------------------------l~D~~---------  245 (567)
                        |           |||.||+++ +|    |                                   +.|++         
T Consensus        81 ~ie~~l~k~~~~~~gP~~~k~lv-~fiDDlN~p~~d~ygtq~~iElLRQ~i~~~g~yd~~~~~~~~i~~i~~vaa~~p~~  159 (272)
T PF12775_consen   81 IIESKLEKRRGRVYGPPGGKKLV-LFIDDLNMPQPDKYGTQPPIELLRQLIDYGGFYDRKKLEWKSIEDIQFVAAMNPTG  159 (272)
T ss_dssp             CCCTTECECTTEEEEEESSSEEE-EEEETTT-S---TTS--HHHHHHHHHHHCSEEECTTTTEEEEECSEEEEEEESSTT
T ss_pred             HHhhcEEcCCCCCCCCCCCcEEE-EEecccCCCCCCCCCCcCHHHHHHHHHHhcCcccCCCcEEEEEeeeEEEEecCCCC
Confidence              1           999999999 77    4                                   12221         


Q ss_pred             -------hhhhccccccccccCCHHHHHHHHHHhhhhhh-----------------cChHHHHHHHHHhCCCCCCccccc
Q psy12736        246 -------RIIQGLTATEKIIFNTKEMFVRAWRNEFTRTI-----------------CDRLNTDELVIAELPPTPAKFHYI  301 (567)
Q Consensus       246 -------R~~rg~f~~~~~~~~s~~sl~~I~~~il~~~~-----------------~~~i~~y~~i~~~llptp~k~HY~  301 (567)
                             ||+| ||+++++++|++++|.+||++++...+                 .+++++|++++++|+|||.|+||+
T Consensus       160 Gr~~is~R~~r-~f~i~~~~~p~~~sl~~If~~il~~~l~~~~f~~~v~~~~~~lv~ati~ly~~i~~~~~ptp~k~HY~  238 (272)
T PF12775_consen  160 GRNPISPRFLR-HFNILNIPYPSDESLNTIFSSILQSHLKNGGFPEDVQKLADKLVQATIELYQKIRQQFLPTPSKPHYT  238 (272)
T ss_dssp             T--SHHHHHHT-TEEEEE----TCCHHHHHHHHHHHHHTCHTTSSGGGCCCHHHHHHHHHHHHHHHHHHS-TTTTCTTTT
T ss_pred             CCCCCChHHhh-heEEEEecCCChHHHHHHHHHHHhhhcccCCCChHHHHHHHHHHHHHHHHHHhhhcccCCCCccceee
Confidence                   9999 999999999999999999999988432                 123899999999999999999999


Q ss_pred             cChhhHHHHHhhhhcccccccCCHHHHHHHHhhh
Q psy12736        302 FNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNE  335 (567)
Q Consensus       302 FnlRDlsrv~qGi~~~~~~~~~~~~~l~rLw~hE  335 (567)
                      |||||++||+||++++.++.+.+...++|||.||
T Consensus       239 FnlRDlsrv~qGil~~~~~~~~~~~~l~rLW~HE  272 (272)
T PF12775_consen  239 FNLRDLSRVFQGILLASPESIKTKESLLRLWVHE  272 (272)
T ss_dssp             SHHHHHHHHHHHHHHHHCTSSS-SHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHhcChhhcCCHHHheEeecCC
Confidence            9999999999999999999999999999999999

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=99.04  E-value=5.8e-09  Score=120.48  Aligned_cols=198  Identities=16%  Similarity=0.124  Sum_probs=125.1

Q ss_pred             hhhhccccccccccCCHHHHHHHHHHhhhhhhcC----hHHHH----HHHHHhCCCCCCccccccChhhHHHHHhhhhcc
Q psy12736        246 RIIQGLTATEKIIFNTKEMFVRAWRNEFTRTICD----RLNTD----ELVIAELPPTPAKFHYIFNLRDLSRIIQGLTAT  317 (567)
Q Consensus       246 R~~rg~f~~~~~~~~s~~sl~~I~~~il~~~~~~----~i~~y----~~i~~~llptp~k~HY~FnlRDlsrv~qGi~~~  317 (567)
                      -|+. +|++++++..+.+++..|-.+...++-.|    .|.+.    .++.+..+-....+.+.||+||--||.+-+-++
T Consensus      1677 SF~n-RFsvV~~d~lt~dDi~~Ia~~~yp~v~~d~~~kiik~ms~lqd~i~k~~~~g~~gsPwefnlrdTLRwl~llNq~ 1755 (4600)
T COG5271        1677 SFLN-RFSVVKMDGLTTDDITHIANKMYPQVNEDWRLKIIKFMSRLQDNIEKDISFGSFGSPWEFNLRDTLRWLILLNQV 1755 (4600)
T ss_pred             HHhh-hhheEEecccccchHHHHHHhhCCccChHHHHHHHHHHHHHHHhhhhhhcccCCCCCeEEehHHHHHHHHHhhcc
Confidence            5677 89999999999999999999887643221    13333    445555555567889999999999999987776


Q ss_pred             cccccCCHHHHHHHHhhhhchhhccccCChhhHHHHHHHHHHHHHhhCCcchhhhccCCceec---cccccccC----CC
Q psy12736        318 EKIIFNTKEMFVRAWRNEFTRTICDRLNTDEDLSLMSGHIADSVKRNFPQDVNVVMRDPLLFG---DFRNALKE----TE  390 (567)
Q Consensus       318 ~~~~~~~~~~l~rLw~hE~~RVF~DRLi~~eDr~~f~~~l~~~~~~~f~~~~~~~~~~~llf~---d~~~~~~~----~~  390 (567)
                      ..-..-++.+++..-+       -.|+.+-+||..-.+++++++.++-+..        +.|+   ++..-...    ..
T Consensus      1756 ~~~edvd~~dfid~~V-------~~r~rtv~dr~rt~~l~~evfg~~~~r~--------~~f~ls~~~~kv~~sv~vr~~ 1820 (4600)
T COG5271        1756 GTLEDVDTSDFIDESV-------VRRMRTVEDRVRTCELFKEVFGDYEPRT--------IGFSLSSQCFKVGHSVTVRMK 1820 (4600)
T ss_pred             CccccCCHHHHHHHHH-------HHHhhhHhhhhHHHHHHHHHhcccCccc--------ccccchhhHhhcCceEEEecc
Confidence            5444445666665433       2466677888888888888776332211        1111   11100000    00


Q ss_pred             CcccccccChHHHHHHHHHHHHHHhhhhcccCcceEEecHHHHHHHHHHHHHHhcCCCceEEeccCCCcHhHHHHHHHHH
Q psy12736        391 PRYYEDLLDYSAVGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVRLASFA  470 (567)
Q Consensus       391 ~~~Y~~v~d~~~l~~~~~~~l~~yn~~~~~~~~~~lvlf~dai~hi~ri~RvL~~p~Gh~LLvG~~GsGr~sl~rlaa~i  470 (567)
                      .|-|. +.                         -++++..--+.-+..+-|.+.+ .-.++|||++|+||+++.|+.|.|
T Consensus      1821 err~~-l~-------------------------~~~~~l~sql~vlEsV~~cIn~-nwPlIlvG~t~~GKt~~lRflasI 1873 (4600)
T COG5271        1821 ERRPR-LD-------------------------DSFVLLHSQLQVLESVMRCINM-NWPLILVGDTGVGKTSLLRFLASI 1873 (4600)
T ss_pred             ccCCC-cc-------------------------cchhhhhhhhHHHHHHHHHHhc-CCCEEEEcCCCCchHHHHHHHHHH
Confidence            01111 00                         0122222223333344566665 667899999999999999999999


Q ss_pred             cCCeEEEEEecCCCCh
Q psy12736        471 AGYQVFTIQLSRGYNE  486 (567)
Q Consensus       471 ~~~~~~~i~~~k~y~~  486 (567)
                      .|.++-...+.++.+.
T Consensus      1874 ~G~~~~~f~~nsDtD~ 1889 (4600)
T COG5271        1874 FGQEMTLFNCNSDTDV 1889 (4600)
T ss_pred             hcccceEEeccCCchH
Confidence            9998877777765543

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA

Probab=98.85  E-value=2.3e-07  Score=106.96  Aligned_cols=100  Identities=19%  Similarity=0.222  Sum_probs=66.2

Q ss_pred             HHHHHHHHHHHHHHh-------cCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCCh----hhH---------
Q psy12736        430 EDAREHLTRIHRALR-------LSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNE----ASF---------  489 (567)
Q Consensus       430 ~dai~hi~ri~RvL~-------~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~~----~~f---------  489 (567)
                      ++|++.+++.-+..+       .|.|+.||+|++|+||+.+++..|...+..+..+..+. |..    ...         
T Consensus       460 ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l~~~~~~~d~se-~~~~~~~~~lig~~~gyvg  538 (731)
T TIGR02639       460 DEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEALGVHLERFDMSE-YMEKHTVSRLIGAPPGYVG  538 (731)
T ss_pred             HHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHhcCCeEEEeCch-hhhcccHHHHhcCCCCCcc
Confidence            466676666544432       47889999999999999999999999898888886542 100    000         


Q ss_pred             ---HHHHHHHHHHhccCCCcEEEEEecCcccchhhhHHhh-hccCCccc
Q psy12736        490 ---KEDLKSLYNLLGVKNQATVFLFTAAEIVEEGYQVFTI-QLSRGYNE  534 (567)
Q Consensus       490 ---~edLk~~~~~ag~~~~~~vfl~~d~qi~~e~fle~in-lL~~Gevp  534 (567)
                         -..|...++    .+...|+++++-+-..+.....+- +|..|.+.
T Consensus       539 ~~~~~~l~~~~~----~~p~~VvllDEieka~~~~~~~Ll~~ld~g~~~  583 (731)
T TIGR02639       539 FEQGGLLTEAVR----KHPHCVLLLDEIEKAHPDIYNILLQVMDYATLT  583 (731)
T ss_pred             cchhhHHHHHHH----hCCCeEEEEechhhcCHHHHHHHHHhhccCeee
Confidence               011222222    233468888887777787777777 77777544

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=98.81  E-value=2.5e-07  Score=105.92  Aligned_cols=106  Identities=21%  Similarity=0.210  Sum_probs=68.1

Q ss_pred             EecHHHHHHHHHHHHHH-------hcCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCChhhHHHHH------
Q psy12736        427 VLFEDAREHLTRIHRAL-------RLSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDL------  493 (567)
Q Consensus       427 vlf~dai~hi~ri~RvL-------~~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~~~~f~edL------  493 (567)
                      +=-++|++.+++.-+..       +.|.|++||+|++|+||+.+++..|-..+..++.+..+. |....--..|      
T Consensus       461 iGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~~~~i~id~se-~~~~~~~~~LiG~~~g  539 (758)
T PRK11034        461 FGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSE-YMERHTVSRLIGAPPG  539 (758)
T ss_pred             eCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHhCCCcEEeechh-hcccccHHHHcCCCCC
Confidence            33457777777665543       357899999999999999999988888888888876542 1110000111      


Q ss_pred             ------HHHHHHhccCCCcEEEEEecCcccchhhhHHhh-hccCCcc
Q psy12736        494 ------KSLYNLLGVKNQATVFLFTAAEIVEEGYQVFTI-QLSRGYN  533 (567)
Q Consensus       494 ------k~~~~~ag~~~~~~vfl~~d~qi~~e~fle~in-lL~~Gev  533 (567)
                            ...+..+-..+...|+++++-+-..+.....+- +|..|.+
T Consensus       540 yvg~~~~g~L~~~v~~~p~sVlllDEieka~~~v~~~LLq~ld~G~l  586 (758)
T PRK11034        540 YVGFDQGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNLLLQVMDNGTL  586 (758)
T ss_pred             cccccccchHHHHHHhCCCcEEEeccHhhhhHHHHHHHHHHHhcCee
Confidence                  112222222233468888887777777777666 7777754

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=98.79  E-value=1.2e-07  Score=110.08  Aligned_cols=116  Identities=15%  Similarity=0.118  Sum_probs=89.2

Q ss_pred             cceEEecHHHHHHHHHHHHHHhcCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCC--------------CChhh
Q psy12736        423 RLDLVLFEDAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRG--------------YNEAS  488 (567)
Q Consensus       423 ~~~lvlf~dai~hi~ri~RvL~~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~--------------y~~~~  488 (567)
                      .-+.++.+.+-.+..++.|.-+..+=.+|+.|+..|||+|.....|...|.++++|+-+..              -|.-.
T Consensus       864 q~hyIiTPfVqkn~ln~~Ra~s~~~fP~LiQGpTSSGKTSMI~yla~~tghkfVRINNHEHTdlqeYiGTyvTdd~G~ls  943 (4600)
T COG5271         864 QEHYIITPFVQKNYLNTMRAASLSNFPLLIQGPTSSGKTSMILYLARETGHKFVRINNHEHTDLQEYIGTYVTDDDGSLS  943 (4600)
T ss_pred             cceeEecHHHHHHHHHHHHHHhhcCCcEEEecCCCCCcchHHHHHHHHhCccEEEecCcccchHHHHhhceeecCCCcee
Confidence            4468888888888999999988878889999999999999999999999999999974432              23345


Q ss_pred             HHHHHHHHHHHhccCCCcEEEEEecCcccchhhhHHhh-hccCCccccCcchhHHHHH
Q psy12736        489 FKEDLKSLYNLLGVKNQATVFLFTAAEIVEEGYQVFTI-QLSRGYNEASFKEDLKSLY  545 (567)
Q Consensus       489 f~edLk~~~~~ag~~~~~~vfl~~d~qi~~e~fle~in-lL~~Gevp~Lf~~eE~~~i  545 (567)
                      |+|.   ++-.|-  .+...+++++-++.....||.+| ||.  +-..||-+|-.+-+
T Consensus       944 FkEG---vLVeAl--R~GyWIVLDELNLApTDVLEaLNRLLD--DNRelfIPETqevV  994 (4600)
T COG5271         944 FKEG---VLVEAL--RRGYWIVLDELNLAPTDVLEALNRLLD--DNRELFIPETQEVV  994 (4600)
T ss_pred             eehh---HHHHHH--hcCcEEEeeccccCcHHHHHHHHHhhc--cccceecCCcceee
Confidence            6663   444443  34466777899999999999999 997  44456666554433

>KOG0733|consensus

Probab=98.61  E-value=7.9e-07  Score=95.92  Aligned_cols=64  Identities=17%  Similarity=0.350  Sum_probs=51.8

Q ss_pred             CceEEeccCCCcHhHHHHHHHHHcCCeEEEEE---e-cCCCChhhHHHHHHHHHHHhccCCCcEEEEEecC
Q psy12736        448 GHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQ---L-SRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAA  514 (567)
Q Consensus       448 Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~---~-~k~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~  514 (567)
                      +-+||.|++|+||+-|+|-+|.-++.++..|.   + .+--|.+|  ..+|.++.+|- .+.|+|+.|++-
T Consensus       546 sGvLL~GPPGCGKTLlAKAVANEag~NFisVKGPELlNkYVGESE--rAVR~vFqRAR-~saPCVIFFDEi  613 (802)
T KOG0733|consen  546 SGVLLCGPPGCGKTLLAKAVANEAGANFISVKGPELLNKYVGESE--RAVRQVFQRAR-ASAPCVIFFDEI  613 (802)
T ss_pred             CceEEeCCCCccHHHHHHHHhhhccCceEeecCHHHHHHHhhhHH--HHHHHHHHHhh-cCCCeEEEecch
Confidence            45899999999999999999999999998884   2 23334444  57899999995 578999999753

>KOG0736|consensus

Probab=98.48  E-value=4.4e-06  Score=92.48  Aligned_cols=67  Identities=15%  Similarity=0.299  Sum_probs=53.9

Q ss_pred             cCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEE---ec-CCCChhhHHHHHHHHHHHhccCCCcEEEEEecC
Q psy12736        445 LSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQ---LS-RGYNEASFKEDLKSLYNLLGVKNQATVFLFTAA  514 (567)
Q Consensus       445 ~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~---~~-k~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~  514 (567)
                      .+|+-+||-|++|+||+-++|-.|-=+..+++++.   +- .--|.+|  +.+|+++.+|- ...|+|+.|++-
T Consensus       703 rkRSGILLYGPPGTGKTLlAKAVATEcsL~FlSVKGPELLNMYVGqSE--~NVR~VFerAR-~A~PCVIFFDEL  773 (953)
T KOG0736|consen  703 RKRSGILLYGPPGTGKTLLAKAVATECSLNFLSVKGPELLNMYVGQSE--ENVREVFERAR-SAAPCVIFFDEL  773 (953)
T ss_pred             cccceeEEECCCCCchHHHHHHHHhhceeeEEeecCHHHHHHHhcchH--HHHHHHHHHhh-ccCCeEEEeccc
Confidence            35888999999999999999999988888888874   22 2224443  78999999994 679999999763

>KOG0735|consensus

Probab=98.34  E-value=2.1e-05  Score=86.51  Aligned_cols=100  Identities=17%  Similarity=0.318  Sum_probs=67.6

Q ss_pred             ccccccChHHHHHHHHHHHHHHhhhhcccCcceEEecHHHHHHHHHHHHHHhcCCCceEEeccCCCcHhHHHHHHHHHcC
Q psy12736        393 YYEDLLDYSAVGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVRLASFAAG  472 (567)
Q Consensus       393 ~Y~~v~d~~~l~~~~~~~l~~yn~~~~~~~~~~lvlf~dai~hi~ri~RvL~~p~Gh~LLvG~~GsGr~sl~rlaa~i~~  472 (567)
                      -++++.-+...++++++.++--.       +-     +.    |-.-+ -||. +..+||-|++|+||+-|+-.+|.-++
T Consensus       665 ~w~digg~~~~k~~l~~~i~~P~-------ky-----p~----if~~~-plr~-~~giLLyGppGcGKT~la~a~a~~~~  726 (952)
T KOG0735|consen  665 RWEDIGGLFEAKKVLEEVIEWPS-------KY-----PQ----IFANC-PLRL-RTGILLYGPPGCGKTLLASAIASNSN  726 (952)
T ss_pred             CceecccHHHHHHHHHHHHhccc-------cc-----hH----HHhhC-Cccc-ccceEEECCCCCcHHHHHHHHHhhCC
Confidence            35666777777777777654110       00     00    00001 1234 55689999999999999998888888


Q ss_pred             CeEEEEE----ecCCCChhhHHHHHHHHHHHhccCCCcEEEEEec
Q psy12736        473 YQVFTIQ----LSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTA  513 (567)
Q Consensus       473 ~~~~~i~----~~k~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d  513 (567)
                      ..+..+.    ++|-.|.+|  +.+|.++.+|- ..+|+++.|++
T Consensus       727 ~~fisvKGPElL~KyIGaSE--q~vR~lF~rA~-~a~PCiLFFDE  768 (952)
T KOG0735|consen  727 LRFISVKGPELLSKYIGASE--QNVRDLFERAQ-SAKPCILFFDE  768 (952)
T ss_pred             eeEEEecCHHHHHHHhcccH--HHHHHHHHHhh-ccCCeEEEecc
Confidence            8888774    344446654  78999999885 47899999975

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=98.30  E-value=2.3e-05  Score=90.75  Aligned_cols=68  Identities=15%  Similarity=0.382  Sum_probs=51.8

Q ss_pred             HhcCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEec----CCCChhhHHHHHHHHHHHhccCCCcEEEEEecC
Q psy12736        443 LRLSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLS----RGYNEASFKEDLKSLYNLLGVKNQATVFLFTAA  514 (567)
Q Consensus       443 L~~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~----k~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~  514 (567)
                      ++.|+| +||.|++||||+++++..|..++..++.+..+    +-.+.++  ..++.++..|. ...|.+++++|-
T Consensus       484 ~~~~~g-iLL~GppGtGKT~lakalA~e~~~~fi~v~~~~l~~~~vGese--~~i~~~f~~A~-~~~p~iifiDEi  555 (733)
T TIGR01243       484 IRPPKG-VLLFGPPGTGKTLLAKAVATESGANFIAVRGPEILSKWVGESE--KAIREIFRKAR-QAAPAIIFFDEI  555 (733)
T ss_pred             CCCCce-EEEECCCCCCHHHHHHHHHHhcCCCEEEEehHHHhhcccCcHH--HHHHHHHHHHH-hcCCEEEEEECh
Confidence            344554 89999999999999999999999999988643    3334432  46788888774 567888888874

This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.

>CHL00095 clpC Clp protease ATP binding subunit

Probab=98.15  E-value=0.00018  Score=84.16  Aligned_cols=104  Identities=16%  Similarity=0.164  Sum_probs=62.1

Q ss_pred             EEecHHHHHHHHHHHH---H-H---hcCCCceEEeccCCCcHhHHHHHHHHHc---CCeEEEEEecCCCC---hhhH---
Q psy12736        426 LVLFEDAREHLTRIHR---A-L---RLSRGHCMVVGVEGGGKRSLVRLASFAA---GYQVFTIQLSRGYN---EASF---  489 (567)
Q Consensus       426 lvlf~dai~hi~ri~R---v-L---~~p~Gh~LLvG~~GsGr~sl~rlaa~i~---~~~~~~i~~~k~y~---~~~f---  489 (567)
                      ++=-++|++.|++.-+   + |   +.|.|+.||+|++|+||+++++..|...   +..+..+..+.-.+   .+.+   
T Consensus       511 v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l~~~~~~~~~~d~s~~~~~~~~~~l~g~  590 (821)
T CHL00095        511 IIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYFFGSEDAMIRLDMSEYMEKHTVSKLIGS  590 (821)
T ss_pred             CcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCCccceEEEEchhccccccHHHhcCC
Confidence            4444677777766433   2 2   2356788999999999999998776543   34566666542110   0000   


Q ss_pred             ---------HHHHHHHHHHhccCCCcEEEEEecCcccchhhhHHhh-hccCCcc
Q psy12736        490 ---------KEDLKSLYNLLGVKNQATVFLFTAAEIVEEGYQVFTI-QLSRGYN  533 (567)
Q Consensus       490 ---------~edLk~~~~~ag~~~~~~vfl~~d~qi~~e~fle~in-lL~~Gev  533 (567)
                               -..|...++.    +-..|+++++-+-.++.+...+= +|..|.+
T Consensus       591 ~~gyvg~~~~~~l~~~~~~----~p~~VvllDeieka~~~v~~~Llq~le~g~~  640 (821)
T CHL00095        591 PPGYVGYNEGGQLTEAVRK----KPYTVVLFDEIEKAHPDIFNLLLQILDDGRL  640 (821)
T ss_pred             CCcccCcCccchHHHHHHh----CCCeEEEECChhhCCHHHHHHHHHHhccCce
Confidence                     0012222222    22368888887777777777666 7777754

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=98.13  E-value=0.00024  Score=83.20  Aligned_cols=102  Identities=20%  Similarity=0.233  Sum_probs=63.4

Q ss_pred             eEEecHHHHHHHHHHHHHH-------hcCCCceEEeccCCCcHhHHHHHHHHHc-C--CeEEEEEecCCCChhhHHHH--
Q psy12736        425 DLVLFEDAREHLTRIHRAL-------RLSRGHCMVVGVEGGGKRSLVRLASFAA-G--YQVFTIQLSRGYNEASFKED--  492 (567)
Q Consensus       425 ~lvlf~dai~hi~ri~RvL-------~~p~Gh~LLvG~~GsGr~sl~rlaa~i~-~--~~~~~i~~~k~y~~~~f~ed--  492 (567)
                      .++=-++|++.|++..+..       +.|.|..||+|++|+||+.+++..|... +  ..+..+.++      +|.+.  
T Consensus       567 ~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~~~~~~~~~~dms------e~~~~~~  640 (852)
T TIGR03345       567 RVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELLYGGEQNLITINMS------EFQEAHT  640 (852)
T ss_pred             eEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHHhCCCcceEEEeHH------Hhhhhhh
Confidence            4555678888888766553       2466788999999999999998665544 2  245555432      22111  


Q ss_pred             H---------------HHHHHHhccCCCcEEEEEecCcccchhhhHHhh-hccCCc
Q psy12736        493 L---------------KSLYNLLGVKNQATVFLFTAAEIVEEGYQVFTI-QLSRGY  532 (567)
Q Consensus       493 L---------------k~~~~~ag~~~~~~vfl~~d~qi~~e~fle~in-lL~~Ge  532 (567)
                      .               ...+..+-.++...|+++++-.-.++.+.+.+= +|..|.
T Consensus       641 ~~~l~g~~~gyvg~~~~g~L~~~v~~~p~svvllDEieka~~~v~~~Llq~ld~g~  696 (852)
T TIGR03345       641 VSRLKGSPPGYVGYGEGGVLTEAVRRKPYSVVLLDEVEKAHPDVLELFYQVFDKGV  696 (852)
T ss_pred             hccccCCCCCcccccccchHHHHHHhCCCcEEEEechhhcCHHHHHHHHHHhhcce
Confidence            0               011222322345577888887766777777666 776665

Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.

>PF12774 AAA_6: Hydrolytic ATP binding site of dynein motor region D1; PDB: 3VKH_A 3VKG_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A

Probab=98.09  E-value=1.6e-05  Score=78.67  Aligned_cols=48  Identities=25%  Similarity=0.253  Sum_probs=37.6

Q ss_pred             cccccCcchhhHHHHHHHHHhcCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        171 DILVPTTDSTKLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       171 ~i~VpT~dtvR~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      +-+|-|+-|-|.-.-+..-+..+....+.||+|||||.+++++-+.+-
T Consensus        10 ~rlv~Tplt~r~~~~l~~al~~~~~~~~~GpagtGKtetik~La~~lG   57 (231)
T PF12774_consen   10 PRLVITPLTDRCFLTLTQALSLNLGGALSGPAGTGKTETIKDLARALG   57 (231)
T ss_dssp             ------HHHHHHHHHHHHHHCTTTEEEEESSTTSSHHHHHHHHHHCTT
T ss_pred             CCceechHHHHHHHHHHHHhccCCCCCCcCCCCCCchhHHHHHHHHhC
Confidence            348999999999888888889999999999999999999999877653

>KOG0730|consensus

Probab=98.00  E-value=0.00029  Score=77.48  Aligned_cols=99  Identities=14%  Similarity=0.247  Sum_probs=74.8

Q ss_pred             cccccChHHHHHHHHHHHHHHhhhhcccCcceEEecHHHHHHHHHHHHHHhcCCCceEEeccCCCcHhHHHHHHHHHcCC
Q psy12736        394 YEDLLDYSAVGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVRLASFAAGY  473 (567)
Q Consensus       394 Y~~v~d~~~l~~~~~~~l~~yn~~~~~~~~~~lvlf~dai~hi~ri~RvL~~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~  473 (567)
                      +..+.-+++++..+++...                  ..++|-..-.|.=-.|.--+||-|++|+||++++|-.|-.+++
T Consensus       433 W~dIGGlE~lK~elq~~V~------------------~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne~~~  494 (693)
T KOG0730|consen  433 WDDIGGLEELKRELQQAVE------------------WPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANEAGM  494 (693)
T ss_pred             hhhccCHHHHHHHHHHHHh------------------hhhhchHHHHHhcCCCCceEEEECCCCcchHHHHHHHhhhhcC
Confidence            4455667777777766543                  4466666777764445455999999999999999999999999


Q ss_pred             eEEEE----EecCCCChhhHHHHHHHHHHHhccCCCcEEEEEec
Q psy12736        474 QVFTI----QLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTA  513 (567)
Q Consensus       474 ~~~~i----~~~k~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d  513 (567)
                      ++.+|    -.++-||.+|  ..++.++.+|- +..|.++.|++
T Consensus       495 nFlsvkgpEL~sk~vGeSE--r~ir~iF~kAR-~~aP~IiFfDE  535 (693)
T KOG0730|consen  495 NFLSVKGPELFSKYVGESE--RAIREVFRKAR-QVAPCIIFFDE  535 (693)
T ss_pred             CeeeccCHHHHHHhcCchH--HHHHHHHHHHh-hcCCeEEehhh
Confidence            99999    3677777775  67999999984 56676666654

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=97.92  E-value=0.0016  Score=74.08  Aligned_cols=100  Identities=20%  Similarity=0.273  Sum_probs=62.6

Q ss_pred             EEecHHHHHHHHHHHHHH-------hcCCCceEEeccCCCcHhHHHH-HHHHHcC--CeEEEEEecCCCChhhHHHHHH-
Q psy12736        426 LVLFEDAREHLTRIHRAL-------RLSRGHCMVVGVEGGGKRSLVR-LASFAAG--YQVFTIQLSRGYNEASFKEDLK-  494 (567)
Q Consensus       426 lvlf~dai~hi~ri~RvL-------~~p~Gh~LLvG~~GsGr~sl~r-laa~i~~--~~~~~i~~~k~y~~~~f~edLk-  494 (567)
                      ++==++|++.|++.-|--       +.|-|..|++|++|+||+.|++ ||.++-|  -.+.++      +++||.|--- 
T Consensus       493 ViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lfg~e~aliR~------DMSEy~EkHsV  566 (786)
T COG0542         493 VIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFGDEQALIRI------DMSEYMEKHSV  566 (786)
T ss_pred             eeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhcCCCccceee------chHHHHHHHHH
Confidence            444468888888654442       3567899999999999999987 5666665  345555      4666655311 


Q ss_pred             ----------------HHHHHhccCCCc-EEEEEecCcccchhhhHHhh-hccCCc
Q psy12736        495 ----------------SLYNLLGVKNQA-TVFLFTAAEIVEEGYQVFTI-QLSRGY  532 (567)
Q Consensus       495 ----------------~~~~~ag~~~~~-~vfl~~d~qi~~e~fle~in-lL~~Ge  532 (567)
                                      ..|..| +..+| .|+|+++-.-.++..+.-+= +|-.|.
T Consensus       567 SrLIGaPPGYVGyeeGG~LTEa-VRr~PySViLlDEIEKAHpdV~nilLQVlDdGr  621 (786)
T COG0542         567 SRLIGAPPGYVGYEEGGQLTEA-VRRKPYSVILLDEIEKAHPDVFNLLLQVLDDGR  621 (786)
T ss_pred             HHHhCCCCCCceeccccchhHh-hhcCCCeEEEechhhhcCHHHHHHHHHHhcCCe
Confidence                            122223 34566 47788776666666655444 444443

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.84  E-value=0.0032  Score=74.19  Aligned_cols=106  Identities=21%  Similarity=0.198  Sum_probs=61.7

Q ss_pred             EEecHHHHHHHHHHHHHHh-------cCCCceEEeccCCCcHhHHHHHHHHHc---CCeEEEEEecCCCChhhHHHHH--
Q psy12736        426 LVLFEDAREHLTRIHRALR-------LSRGHCMVVGVEGGGKRSLVRLASFAA---GYQVFTIQLSRGYNEASFKEDL--  493 (567)
Q Consensus       426 lvlf~dai~hi~ri~RvL~-------~p~Gh~LLvG~~GsGr~sl~rlaa~i~---~~~~~~i~~~k~y~~~~f~edL--  493 (567)
                      ++=-+.|++.+++..+-.+       .|.|..||+|++|+||+.+++..|...   +..+..+..+. |........|  
T Consensus       567 v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~~~~~~~i~~d~s~-~~~~~~~~~l~g  645 (852)
T TIGR03346       567 VVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFLFDDEDAMVRIDMSE-YMEKHSVARLIG  645 (852)
T ss_pred             cCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhcCCCCcEEEEechh-hcccchHHHhcC
Confidence            4445677777776555432       367889999999999999999877643   45566666542 1111100000  


Q ss_pred             ----------HHHHHHhccCCCcEEEEEecCcccchhhhHHhh-hccCCc
Q psy12736        494 ----------KSLYNLLGVKNQATVFLFTAAEIVEEGYQVFTI-QLSRGY  532 (567)
Q Consensus       494 ----------k~~~~~ag~~~~~~vfl~~d~qi~~e~fle~in-lL~~Ge  532 (567)
                                ...+..+-......|+++++-+-.++.....+= +|..|.
T Consensus       646 ~~~g~~g~~~~g~l~~~v~~~p~~vlllDeieka~~~v~~~Ll~~l~~g~  695 (852)
T TIGR03346       646 APPGYVGYEEGGQLTEAVRRKPYSVVLFDEVEKAHPDVFNVLLQVLDDGR  695 (852)
T ss_pred             CCCCccCcccccHHHHHHHcCCCcEEEEeccccCCHHHHHHHHHHHhcCc
Confidence                      011111111122347888887766776666665 666664

Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.

>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=97.62  E-value=6.5e-05  Score=68.07  Aligned_cols=82  Identities=18%  Similarity=0.204  Sum_probs=62.4

Q ss_pred             ceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCChhhHHHHHHHHHHH-hccC-----------CCcEEEEEecCcc
Q psy12736        449 HCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNL-LGVK-----------NQATVFLFTAAEI  516 (567)
Q Consensus       449 h~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~~~~f~edLk~~~~~-ag~~-----------~~~~vfl~~d~qi  516 (567)
                      |+||+|++|+||+++++..|...+.+++.+.++...+..++.    ..+.. .|..           .++.++++++-+.
T Consensus         1 ~vlL~G~~G~GKt~l~~~la~~~~~~~~~i~~~~~~~~~dl~----g~~~~~~~~~~~~~~~l~~a~~~~~il~lDEin~   76 (139)
T PF07728_consen    1 PVLLVGPPGTGKTTLARELAALLGRPVIRINCSSDTTEEDLI----GSYDPSNGQFEFKDGPLVRAMRKGGILVLDEINR   76 (139)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHTCEEEEEE-TTTSTHHHHH----CEEET-TTTTCEEE-CCCTTHHEEEEEEESSCGG
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhhcceEEEEeccccccccce----eeeeecccccccccccccccccceeEEEECCccc
Confidence            689999999999999999999999999999999887765332    11110 1110           1688899999998


Q ss_pred             cchhhhHHhh-hccCCccc
Q psy12736        517 VEEGYQVFTI-QLSRGYNE  534 (567)
Q Consensus       517 ~~e~fle~in-lL~~Gevp  534 (567)
                      .++..++.++ +|..+.+-
T Consensus        77 a~~~v~~~L~~ll~~~~~~   95 (139)
T PF07728_consen   77 APPEVLESLLSLLEERRIQ   95 (139)
T ss_dssp             --HHHHHTTHHHHSSSEEE
T ss_pred             CCHHHHHHHHHHHhhCccc
Confidence            8999999999 99988754

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.

>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=97.58  E-value=0.00022  Score=63.26  Aligned_cols=70  Identities=14%  Similarity=0.236  Sum_probs=56.3

Q ss_pred             eEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCC--ChhhHHHHHHHHHHHhccCCCcEEEEEecCcccch
Q psy12736        450 CMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGY--NEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEE  519 (567)
Q Consensus       450 ~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y--~~~~f~edLk~~~~~ag~~~~~~vfl~~d~qi~~e  519 (567)
                      +||.|++|+||+++++..|...+..++++....-.  ...+-...+++++.++...++|.|++++|-+...+
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~~~~~~i~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~vl~iDe~d~l~~   72 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLGFPFIEIDGSELISSYAGDSEQKIRDFFKKAKKSAKPCVLFIDEIDKLFP   72 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTTSEEEEEETTHHHTSSTTHHHHHHHHHHHHHHHTSTSEEEEEETGGGTSH
T ss_pred             CEEECcCCCCeeHHHHHHHhhcccccccccccccccccccccccccccccccccccccceeeeeccchhccc
Confidence            58999999999999999999999999999765432  33456678889998886555689999998766544

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 ....

>KOG0741|consensus

Probab=97.33  E-value=0.0019  Score=69.35  Aligned_cols=82  Identities=13%  Similarity=0.192  Sum_probs=54.2

Q ss_pred             HHHHHHHHHHHHHhcC----CCceEEeccCCCcHhHHHHHHHHHcCCeEEEEE---ecCCCChhhHHHHHHHHHHHhccC
Q psy12736        431 DAREHLTRIHRALRLS----RGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQ---LSRGYNEASFKEDLKSLYNLLGVK  503 (567)
Q Consensus       431 dai~hi~ri~RvL~~p----~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~---~~k~y~~~~f~edLk~~~~~ag~~  503 (567)
                      ..++|=....+-.+.|    --.+||-|++||||++|+--+|..+++.++.|-   -.-+++.++=-..+|+++..|= +
T Consensus       518 ~il~~G~llv~qvk~s~~s~lvSvLl~Gp~~sGKTaLAA~iA~~S~FPFvKiiSpe~miG~sEsaKc~~i~k~F~DAY-k  596 (744)
T KOG0741|consen  518 RILDDGKLLVQQVKNSERSPLVSVLLEGPPGSGKTALAAKIALSSDFPFVKIISPEDMIGLSESAKCAHIKKIFEDAY-K  596 (744)
T ss_pred             HHHhhHHHHHHHhhccccCcceEEEEecCCCCChHHHHHHHHhhcCCCeEEEeChHHccCccHHHHHHHHHHHHHHhh-c
Confidence            3344444444444443    346799999999999999999999999888762   2234555555567888888873 3


Q ss_pred             CCcEEEEEec
Q psy12736        504 NQATVFLFTA  513 (567)
Q Consensus       504 ~~~~vfl~~d  513 (567)
                      ..-.|++++|
T Consensus       597 S~lsiivvDd  606 (744)
T KOG0741|consen  597 SPLSIIVVDD  606 (744)
T ss_pred             CcceEEEEcc
Confidence            4444555544

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=97.20  E-value=0.0018  Score=65.58  Aligned_cols=94  Identities=13%  Similarity=0.105  Sum_probs=64.8

Q ss_pred             HHHHHHHHhcCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCChhhHHHHH-------------H--------
Q psy12736        436 LTRIHRALRLSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDL-------------K--------  494 (567)
Q Consensus       436 i~ri~RvL~~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~~~~f~edL-------------k--------  494 (567)
                      +.|+-+.+.. ++|+||.|++|+||+++++..|...|.++..++.+...+..++....             +        
T Consensus        11 ~~~~l~~l~~-g~~vLL~G~~GtGKT~lA~~la~~lg~~~~~i~~~~~~~~~dllg~~~~~~~~~~~~~~~~~~~~~~~~   89 (262)
T TIGR02640        11 TSRALRYLKS-GYPVHLRGPAGTGKTTLAMHVARKRDRPVMLINGDAELTTSDLVGSYAGYTRKKVHDQFIHNVVKLEDI   89 (262)
T ss_pred             HHHHHHHHhc-CCeEEEEcCCCCCHHHHHHHHHHHhCCCEEEEeCCccCCHHHHhhhhcccchhhHHHHHHHHhhhhhcc
Confidence            3345555554 77999999999999999999998889999999776654433321110             0        


Q ss_pred             -------HHHHHhccCCCcEEEEEecCcccchhhhHHhh-hccCCc
Q psy12736        495 -------SLYNLLGVKNQATVFLFTAAEIVEEGYQVFTI-QLSRGY  532 (567)
Q Consensus       495 -------~~~~~ag~~~~~~vfl~~d~qi~~e~fle~in-lL~~Ge  532 (567)
                             ..+..|-.  +..++++++-+-.+++....++ +|..|.
T Consensus        90 ~~~~~~~g~l~~A~~--~g~~lllDEi~r~~~~~q~~Ll~~Le~~~  133 (262)
T TIGR02640        90 VRQNWVDNRLTLAVR--EGFTLVYDEFTRSKPETNNVLLSVFEEGV  133 (262)
T ss_pred             cceeecCchHHHHHH--cCCEEEEcchhhCCHHHHHHHHHHhcCCe
Confidence                   11122211  2357888888888888988888 888775

Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.20  E-value=0.0015  Score=70.95  Aligned_cols=119  Identities=13%  Similarity=0.223  Sum_probs=73.7

Q ss_pred             HHHHHhcCC-Cce-EEeccCCCcHhHHHHHHHHHcCCe------------------------EEEEEecCCCChhhHHHH
Q psy12736        439 IHRALRLSR-GHC-MVVGVEGGGKRSLVRLASFAAGYQ------------------------VFTIQLSRGYNEASFKED  492 (567)
Q Consensus       439 i~RvL~~p~-Gh~-LLvG~~GsGr~sl~rlaa~i~~~~------------------------~~~i~~~k~y~~~~f~ed  492 (567)
                      +.+.+...+ +|+ |+.|+.|+||+|++|..|...+++                        +++|....+-+..+.|+-
T Consensus        30 L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~~pCg~C~sC~~i~~g~~~dviEIdaas~~gVd~IReL  109 (484)
T PRK14956         30 LQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRLNCENPIGNEPCNECTSCLEITKGISSDVLEIDAASNRGIENIREL  109 (484)
T ss_pred             HHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhcCcccccCccccCCCcHHHHHHccCCccceeechhhcccHHHHHHH
Confidence            445555544 674 999999999999999998877663                        555554444555544432


Q ss_pred             HHHHHHHhccCCCcEEEEEecCcccchhhhHHhh-hccC--CccccCcchhHHHHHHHhhccccceeeee
Q psy12736        493 LKSLYNLLGVKNQATVFLFTAAEIVEEGYQVFTI-QLSR--GYNEASFKEDLKSLYNLLGVKNQATVFLF  559 (567)
Q Consensus       493 Lk~~~~~ag~~~~~~vfl~~d~qi~~e~fle~in-lL~~--Gevp~Lf~~eE~~~i~~~~~~~~~~~~~~  559 (567)
                      ...+ ..+...++..|+++++.+.......+.+= .|..  +.+-=++...|..+|. ..++..+..+-+
T Consensus       110 ~e~l-~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~kI~-~TI~SRCq~~~f  177 (484)
T PRK14956        110 RDNV-KFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKIP-ETILSRCQDFIF  177 (484)
T ss_pred             HHHH-HhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhhcc-HHHHhhhheeee
Confidence            2222 22334567788999998887764333222 2322  2333356677777876 777777655544

>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold

Probab=97.12  E-value=0.0034  Score=55.88  Aligned_cols=81  Identities=16%  Similarity=0.158  Sum_probs=53.1

Q ss_pred             CCCceEEeccCCCcHhHHHHHHHHHc---CCeEEEEEecCCCChhhHHHHH----HHHHHHhccCCCcEEEEEecCccc-
Q psy12736        446 SRGHCMVVGVEGGGKRSLVRLASFAA---GYQVFTIQLSRGYNEASFKEDL----KSLYNLLGVKNQATVFLFTAAEIV-  517 (567)
Q Consensus       446 p~Gh~LLvG~~GsGr~sl~rlaa~i~---~~~~~~i~~~k~y~~~~f~edL----k~~~~~ag~~~~~~vfl~~d~qi~-  517 (567)
                      +.+++++.|++|+||+++++.++...   +..++.+..+..+.........    ...........++.+++++|.+-. 
T Consensus        18 ~~~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lilDe~~~~~   97 (151)
T cd00009          18 PPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAELFGHFLVRLLFELAEKAKPGVLFIDEIDSLS   97 (151)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEehhhhhhhhHHHHHhhhhhHhHHHHhhccCCCeEEEEeChhhhh
Confidence            56789999999999999999998876   7777777766544432222211    122233344567889999998743 


Q ss_pred             ---chhhhHHhh
Q psy12736        518 ---EEGYQVFTI  526 (567)
Q Consensus       518 ---~e~fle~in  526 (567)
                         .+.+++.+.
T Consensus        98 ~~~~~~~~~~i~  109 (151)
T cd00009          98 RGAQNALLRVLE  109 (151)
T ss_pred             HHHHHHHHHHHH
Confidence               334444445

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.

>PRK04195 replication factor C large subunit; Provisional

Probab=97.11  E-value=0.0024  Score=70.39  Aligned_cols=110  Identities=13%  Similarity=0.162  Sum_probs=70.1

Q ss_pred             CCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCChhhHHHHHHHHHHHh----ccCC-CcEEEEEecCcccch-
Q psy12736        446 SRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLL----GVKN-QATVFLFTAAEIVEE-  519 (567)
Q Consensus       446 p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~~~~f~edLk~~~~~a----g~~~-~~~vfl~~d~qi~~e-  519 (567)
                      |..++||.|++|+||+++++..|.-.++++.+++.+..-+..    .++.+...+    .+.+ .+.+++++|.+-... 
T Consensus        38 ~~~~lLL~GppG~GKTtla~ala~el~~~~ielnasd~r~~~----~i~~~i~~~~~~~sl~~~~~kvIiIDEaD~L~~~  113 (482)
T PRK04195         38 PKKALLLYGPPGVGKTSLAHALANDYGWEVIELNASDQRTAD----VIERVAGEAATSGSLFGARRKLILLDEVDGIHGN  113 (482)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHcCCCEEEEcccccccHH----HHHHHHHHhhccCcccCCCCeEEEEecCcccccc
Confidence            456789999999999999999999999999888776433333    344443333    2222 567788887765432 


Q ss_pred             ---hhhHHhh-hccCCccccCcchhHHHHHHHhhccccceeeee
Q psy12736        520 ---GYQVFTI-QLSRGYNEASFKEDLKSLYNLLGVKNQATVFLF  559 (567)
Q Consensus       520 ---~fle~in-lL~~Gevp~Lf~~eE~~~i~~~~~~~~~~~~~~  559 (567)
                         ..++.+. ++..+..|-++...+...+...++|..+...-+
T Consensus       114 ~d~~~~~aL~~~l~~~~~~iIli~n~~~~~~~k~Lrsr~~~I~f  157 (482)
T PRK04195        114 EDRGGARAILELIKKAKQPIILTANDPYDPSLRELRNACLMIEF  157 (482)
T ss_pred             cchhHHHHHHHHHHcCCCCEEEeccCccccchhhHhccceEEEe
Confidence               3455565 666666666655554444432255555554443

>KOG1969|consensus

Probab=97.10  E-value=0.0015  Score=72.70  Aligned_cols=80  Identities=18%  Similarity=0.244  Sum_probs=64.8

Q ss_pred             eEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCChhhHHHHHHHHHHHhcc---CCCcEEEEEecCcccchhhhHHhh
Q psy12736        450 CMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGV---KNQATVFLFTAAEIVEEGYQVFTI  526 (567)
Q Consensus       450 ~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~~~~f~edLk~~~~~ag~---~~~~~vfl~~d~qi~~e~fle~in  526 (567)
                      +||.|++|-||+||++.+|+-+||.+.+|+-+..=+...+++-+-.+.....+   ..+|+|+++++-+=....+..-|-
T Consensus       329 lLL~GppGlGKTTLAHViAkqaGYsVvEINASDeRt~~~v~~kI~~avq~~s~l~adsrP~CLViDEIDGa~~~~Vdvil  408 (877)
T KOG1969|consen  329 LLLCGPPGLGKTTLAHVIAKQAGYSVVEINASDERTAPMVKEKIENAVQNHSVLDADSRPVCLVIDEIDGAPRAAVDVIL  408 (877)
T ss_pred             EEeecCCCCChhHHHHHHHHhcCceEEEecccccccHHHHHHHHHHHHhhccccccCCCcceEEEecccCCcHHHHHHHH
Confidence            58999999999999999999999999999998877788888888888876543   489999999876655555555444


Q ss_pred             -hcc
Q psy12736        527 -QLS  529 (567)
Q Consensus       527 -lL~  529 (567)
                       ++.
T Consensus       409 slv~  412 (877)
T KOG1969|consen  409 SLVK  412 (877)
T ss_pred             HHHH
Confidence             443

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=97.09  E-value=0.00066  Score=68.72  Aligned_cols=45  Identities=22%  Similarity=0.206  Sum_probs=35.9

Q ss_pred             cccCcchhhHHHHHHHHHhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        173 LVPTTDSTKLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       173 ~VpT~dtvR~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +|+|.-..+..--+..++..+.|++|.||+|||||++++.+-+.+
T Consensus         1 ~~~t~~~~~l~~~~l~~l~~g~~vLL~G~~GtGKT~lA~~la~~l   45 (262)
T TIGR02640         1 FIETDAVKRVTSRALRYLKSGYPVHLRGPAGTGKTTLAMHVARKR   45 (262)
T ss_pred             CCCCHHHHHHHHHHHHHHhcCCeEEEEcCCCCCHHHHHHHHHHHh
Confidence            356666666666666778899999999999999999999887643

Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.97  E-value=0.0034  Score=72.47  Aligned_cols=117  Identities=15%  Similarity=0.183  Sum_probs=66.6

Q ss_pred             HHHHHhc-CCCce-EEeccCCCcHhHHHHHHHHHcCCe------------------------EEEEEecCCCChhhHHHH
Q psy12736        439 IHRALRL-SRGHC-MVVGVEGGGKRSLVRLASFAAGYQ------------------------VFTIQLSRGYNEASFKED  492 (567)
Q Consensus       439 i~RvL~~-p~Gh~-LLvG~~GsGr~sl~rlaa~i~~~~------------------------~~~i~~~k~y~~~~f~ed  492 (567)
                      +.+.+.. --.|+ ||.|+.|+||++++|..|...+|+                        +++++-....+..++|+-
T Consensus        28 LknaI~~~rl~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~sC~~i~~g~~~DviEidAas~~kVDdIReL  107 (944)
T PRK14949         28 LTNALTQQRLHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCSSCVEIAQGRFVDLIEVDAASRTKVDDTREL  107 (944)
T ss_pred             HHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCchHHHHHhcCCCceEEEeccccccCHHHHHHH
Confidence            3444544 34687 899999999999999998776653                        222322223556666654


Q ss_pred             HHHHHHHhccCCCcEEEEEecCcccchhhhHHhh-hccC--CccccCcchhHHHHHHHhhccccceee
Q psy12736        493 LKSLYNLLGVKNQATVFLFTAAEIVEEGYQVFTI-QLSR--GYNEASFKEDLKSLYNLLGVKNQATVF  557 (567)
Q Consensus       493 Lk~~~~~ag~~~~~~vfl~~d~qi~~e~fle~in-lL~~--Gevp~Lf~~eE~~~i~~~~~~~~~~~~  557 (567)
                      ++.+ ......++..|+++++.+.....-.+.+- .|-.  +.+.-++...+...|. ..++..+..+
T Consensus       108 ie~v-~~~P~~gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrFILaTTe~~kLl-~TIlSRCq~f  173 (944)
T PRK14949        108 LDNV-QYRPSRGRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFLLATTDPQKLP-VTVLSRCLQF  173 (944)
T ss_pred             HHHH-HhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhccCCCeEEEEECCCchhch-HHHHHhheEE
Confidence            4333 33345677889999988877654443322 2221  2233334444444443 4444444444

>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]

Probab=96.95  E-value=0.0042  Score=65.06  Aligned_cols=81  Identities=15%  Similarity=0.199  Sum_probs=57.4

Q ss_pred             HHHHHhc-CCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCChhhHHHHHHHHHHHh----ccCCCcEEEEEec
Q psy12736        439 IHRALRL-SRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLL----GVKNQATVFLFTA  513 (567)
Q Consensus       439 i~RvL~~-p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~~~~f~edLk~~~~~a----g~~~~~~vfl~~d  513 (567)
                      |-|.+.. --++++|-|++|+||+|++++.|...++.+.+++-+. .+..    |+|.++.+|    +. |+.+++++++
T Consensus        39 lrr~v~~~~l~SmIl~GPPG~GKTTlA~liA~~~~~~f~~~sAv~-~gvk----dlr~i~e~a~~~~~~-gr~tiLflDE  112 (436)
T COG2256          39 LRRAVEAGHLHSMILWGPPGTGKTTLARLIAGTTNAAFEALSAVT-SGVK----DLREIIEEARKNRLL-GRRTILFLDE  112 (436)
T ss_pred             HHHHHhcCCCceeEEECCCCCCHHHHHHHHHHhhCCceEEecccc-ccHH----HHHHHHHHHHHHHhc-CCceEEEEeh
Confidence            4555654 2467899999999999999999999999998886442 2454    566666555    33 6778888776


Q ss_pred             Ccc----cchhhhHHh
Q psy12736        514 AEI----VEEGYQVFT  525 (567)
Q Consensus       514 ~qi----~~e~fle~i  525 (567)
                      .+=    .++.||-.|
T Consensus       113 IHRfnK~QQD~lLp~v  128 (436)
T COG2256         113 IHRFNKAQQDALLPHV  128 (436)
T ss_pred             hhhcChhhhhhhhhhh
Confidence            432    246666655

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=96.92  E-value=0.006  Score=63.24  Aligned_cols=110  Identities=11%  Similarity=0.086  Sum_probs=69.3

Q ss_pred             CceEE-eccCCCcHhHHHHHHHHHcCCeEEEEEecCCCChhhHHHHHHHHHHHhccCCCcEEEEEecCccc-chhhhHHh
Q psy12736        448 GHCMV-VGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIV-EEGYQVFT  525 (567)
Q Consensus       448 Gh~LL-vG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~qi~-~e~fle~i  525 (567)
                      .|++| .|++|+||+++++..+.-.+.++..++.+.. +....++.++.........+.+-+++++|.+-. .....+.+
T Consensus        43 ~~~lll~G~~G~GKT~la~~l~~~~~~~~~~i~~~~~-~~~~i~~~l~~~~~~~~~~~~~~vliiDe~d~l~~~~~~~~L  121 (316)
T PHA02544         43 PNMLLHSPSPGTGKTTVAKALCNEVGAEVLFVNGSDC-RIDFVRNRLTRFASTVSLTGGGKVIIIDEFDRLGLADAQRHL  121 (316)
T ss_pred             CeEEEeeCcCCCCHHHHHHHHHHHhCccceEeccCcc-cHHHHHHHHHHHHHhhcccCCCeEEEEECcccccCHHHHHHH
Confidence            36666 7999999999999988877778877776652 234444556655555544455677888886654 33334444


Q ss_pred             h-hcc--CCccccCcchhHHHHHHHhhccccceeeee
Q psy12736        526 I-QLS--RGYNEASFKEDLKSLYNLLGVKNQATVFLF  559 (567)
Q Consensus       526 n-lL~--~Gevp~Lf~~eE~~~i~~~~~~~~~~~~~~  559 (567)
                      . ++.  .+.++-+++..+...+. ..++..+.+.-+
T Consensus       122 ~~~le~~~~~~~~Ilt~n~~~~l~-~~l~sR~~~i~~  157 (316)
T PHA02544        122 RSFMEAYSKNCSFIITANNKNGII-EPLRSRCRVIDF  157 (316)
T ss_pred             HHHHHhcCCCceEEEEcCChhhch-HHHHhhceEEEe
Confidence            4 554  24455566666666665 666666555443

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.86  E-value=0.005  Score=69.09  Aligned_cols=117  Identities=15%  Similarity=0.196  Sum_probs=71.1

Q ss_pred             HHHHhcCC-Cce-EEeccCCCcHhHHHHHHHHHcCC------------------------eEEEEEecCCCChhhHHHHH
Q psy12736        440 HRALRLSR-GHC-MVVGVEGGGKRSLVRLASFAAGY------------------------QVFTIQLSRGYNEASFKEDL  493 (567)
Q Consensus       440 ~RvL~~p~-Gh~-LLvG~~GsGr~sl~rlaa~i~~~------------------------~~~~i~~~k~y~~~~f~edL  493 (567)
                      .+.+...+ .|+ ||.|+.|+||+|++|..|...+|                        +++++..+.+.+..++|+-+
T Consensus        28 ~~aI~~grl~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~C~sC~~I~~g~hpDviEIDAAs~~~VddIReli  107 (702)
T PRK14960         28 SSALERGRLHHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEVCATCKAVNEGRFIDLIEIDAASRTKVEDTRELL  107 (702)
T ss_pred             HHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCccCHHHHHHhcCCCCceEEecccccCCHHHHHHHH
Confidence            44444432 466 99999999999999988776655                        45666555445665555533


Q ss_pred             HHHHHHhccCCCcEEEEEecCcccchhhhHHhh-hccC--CccccCcchhHHHHHHHhhccccceeee
Q psy12736        494 KSLYNLLGVKNQATVFLFTAAEIVEEGYQVFTI-QLSR--GYNEASFKEDLKSLYNLLGVKNQATVFL  558 (567)
Q Consensus       494 k~~~~~ag~~~~~~vfl~~d~qi~~e~fle~in-lL~~--Gevp~Lf~~eE~~~i~~~~~~~~~~~~~  558 (567)
                      ..+ ..+...++.-|+++++.+.....-...+- +|..  +.+.=++...+...+. ..++..+..+-
T Consensus       108 ~~~-~y~P~~gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTtd~~kIp-~TIlSRCq~fe  173 (702)
T PRK14960        108 DNV-PYAPTQGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTDPQKLP-ITVISRCLQFT  173 (702)
T ss_pred             HHH-hhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEECChHhhh-HHHHHhhheee
Confidence            332 22234567778889988877654444444 4443  4444555556666664 55555444443

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional

Probab=96.82  E-value=0.005  Score=64.43  Aligned_cols=64  Identities=16%  Similarity=0.192  Sum_probs=52.5

Q ss_pred             eEEeccCCCcHhHHHHHHHHHcCCeEEEEE----ecCCCChhhHHHHHHHHHHHhc----cCCCcEEEEEecCc
Q psy12736        450 CMVVGVEGGGKRSLVRLASFAAGYQVFTIQ----LSRGYNEASFKEDLKSLYNLLG----VKNQATVFLFTAAE  515 (567)
Q Consensus       450 ~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~----~~k~y~~~~f~edLk~~~~~ag----~~~~~~vfl~~d~q  515 (567)
                      ++|.|++|+||+.+++++|.-++..++.+.    .++.++.++  .-+|.++..|.    .+++|+|++++|-+
T Consensus       151 llL~GPPGcGKTllAraiA~elg~~~i~vsa~eL~sk~vGEsE--k~IR~~F~~A~~~a~~~~aPcVLFIDEID  222 (413)
T PLN00020        151 LGIWGGKGQGKSFQCELVFKKMGIEPIVMSAGELESENAGEPG--KLIRQRYREAADIIKKKGKMSCLFINDLD  222 (413)
T ss_pred             EEeeCCCCCCHHHHHHHHHHHcCCCeEEEEHHHhhcCcCCcHH--HHHHHHHHHHHHHhhccCCCeEEEEehhh
Confidence            688999999999999999999999998886    345566654  56888888775    36899999998643

>PRK10865 protein disaggregation chaperone; Provisional

Probab=96.77  E-value=0.0081  Score=70.67  Aligned_cols=112  Identities=21%  Similarity=0.316  Sum_probs=76.6

Q ss_pred             cCcceEEecHHHHHHHHHHHHHHhc-CCCceEEeccCCCcHhHHHHHHHHHc----------CCeEEEEEecCCC----C
Q psy12736        421 KARLDLVLFEDAREHLTRIHRALRL-SRGHCMVVGVEGGGKRSLVRLASFAA----------GYQVFTIQLSRGY----N  485 (567)
Q Consensus       421 ~~~~~lvlf~dai~hi~ri~RvL~~-p~Gh~LLvG~~GsGr~sl~rlaa~i~----------~~~~~~i~~~k~y----~  485 (567)
                      ..+++=|+-.+..  |.|+..||.. ..+|++|+|++|+||+++++-.|.-.          ++.++.+.++.-.    .
T Consensus       174 ~~~l~~vigr~~e--i~~~i~iL~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~l~~l~ag~~~  251 (857)
T PRK10865        174 QGKLDPVIGRDEE--IRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKY  251 (857)
T ss_pred             cCCCCcCCCCHHH--HHHHHHHHhcCCcCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEehhhhhhccch
Confidence            3455556666553  7777777765 45699999999999999998777654          7888888766422    2


Q ss_pred             hhhHHHHHHHHHHHhccCCCcEEEEEecCcccch-----h---hhHHhh-hccCCccc
Q psy12736        486 EASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEE-----G---YQVFTI-QLSRGYNE  534 (567)
Q Consensus       486 ~~~f~edLk~~~~~ag~~~~~~vfl~~d~qi~~e-----~---fle~in-lL~~Gevp  534 (567)
                      ..+|.+-||.++......+.++++++++-+-...     .   .-..+. .|+.|++-
T Consensus       252 ~g~~e~~lk~~~~~~~~~~~~~ILfIDEih~l~~~~~~~~~~d~~~~lkp~l~~g~l~  309 (857)
T PRK10865        252 RGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALARGELH  309 (857)
T ss_pred             hhhhHHHHHHHHHHHHHcCCCeEEEEecHHHhccCCCCccchhHHHHhcchhhcCCCe
Confidence            3568888999988754456788888887664421     1   122345 56777654

>PRK13851 type IV secretion system protein VirB11; Provisional

Probab=96.70  E-value=0.0016  Score=68.34  Aligned_cols=41  Identities=20%  Similarity=0.293  Sum_probs=35.9

Q ss_pred             hhHHHHHHHHHhcCCCeEEeccCCCCchhhHHHHHhccCCC
Q psy12736        180 TKLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLSPD  220 (567)
Q Consensus       180 vR~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~~~  220 (567)
                      -....++..+++.+++++++||||||||++++.++..++++
T Consensus       149 ~~~~~~l~~~v~~~~nilI~G~tGSGKTTll~aLl~~i~~~  189 (344)
T PRK13851        149 GDLEAFLHACVVGRLTMLLCGPTGSGKTTMSKTLISAIPPQ  189 (344)
T ss_pred             HHHHHHHHHHHHcCCeEEEECCCCccHHHHHHHHHcccCCC
Confidence            34567889999999999999999999999999999887654

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=96.68  E-value=0.01  Score=69.14  Aligned_cols=120  Identities=15%  Similarity=0.147  Sum_probs=74.2

Q ss_pred             HHHHHhcC-CCce-EEeccCCCcHhHHHHHHHHHcCC--------------------------eEEEEEecCCCChhhHH
Q psy12736        439 IHRALRLS-RGHC-MVVGVEGGGKRSLVRLASFAAGY--------------------------QVFTIQLSRGYNEASFK  490 (567)
Q Consensus       439 i~RvL~~p-~Gh~-LLvG~~GsGr~sl~rlaa~i~~~--------------------------~~~~i~~~k~y~~~~f~  490 (567)
                      +.+.++.. -.|+ ||.|+.|+||+++++..|...+|                          ++++|+-....++++-|
T Consensus        27 L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~C~sC~~~~~g~~~~~dv~eidaas~~~Vd~iR  106 (824)
T PRK07764         27 LSTALDSGRINHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGECDSCVALAPGGPGSLDVTEIDAASHGGVDDAR  106 (824)
T ss_pred             HHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCcccHHHHHHHcCCCCCCcEEEecccccCCHHHHH
Confidence            44445543 3575 89999999999999988766554                          23444333333454444


Q ss_pred             HHHHHHHHHhccCCCcEEEEEecCcccchhhhHHhh-hccC--CccccCcchhHHHHHHHhhccccceeeeee
Q psy12736        491 EDLKSLYNLLGVKNQATVFLFTAAEIVEEGYQVFTI-QLSR--GYNEASFKEDLKSLYNLLGVKNQATVFLFT  560 (567)
Q Consensus       491 edLk~~~~~ag~~~~~~vfl~~d~qi~~e~fle~in-lL~~--Gevp~Lf~~eE~~~i~~~~~~~~~~~~~~~  560 (567)
                      + |+.-+......++.-|++|++.+...++-...+- +|..  +.+-=+|...+.++|+ ..||..+..+-|.
T Consensus       107 ~-l~~~~~~~p~~~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~fIl~tt~~~kLl-~TIrSRc~~v~F~  177 (824)
T PRK07764        107 E-LRERAFFAPAESRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFATTEPDKVI-GTIRSRTHHYPFR  177 (824)
T ss_pred             H-HHHHHHhchhcCCceEEEEechhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhhh-HHHHhheeEEEee
Confidence            3 3322233345566778888888777764444443 4442  3344467778888887 7788887776664

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.66  E-value=0.01  Score=65.10  Aligned_cols=120  Identities=12%  Similarity=0.163  Sum_probs=66.8

Q ss_pred             HHHHHHhcCCC-c-eEEeccCCCcHhHHHHHHHHHcCC------------------------eEEEEEecCCCChhhHHH
Q psy12736        438 RIHRALRLSRG-H-CMVVGVEGGGKRSLVRLASFAAGY------------------------QVFTIQLSRGYNEASFKE  491 (567)
Q Consensus       438 ri~RvL~~p~G-h-~LLvG~~GsGr~sl~rlaa~i~~~------------------------~~~~i~~~k~y~~~~f~e  491 (567)
                      ++.+.+..++- | +||.|++|+||+|+++..|...++                        .+.+++.+.+-+..+.++
T Consensus        25 ~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~~g~~~dv~el~aa~~~gid~iR~  104 (472)
T PRK14962         25 LIINALKKNSISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSIDEGTFMDVIELDAASNRGIDEIRK  104 (472)
T ss_pred             HHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHhcCCCCccEEEeCcccCCHHHHHH
Confidence            44555555433 5 599999999999999988776554                        466666554556655552


Q ss_pred             HHHHHHHHhccCCCcEEEEEecCcccchhhhHHhh-hccC--CccccCcchhHHHHHHHhhccccceeeee
Q psy12736        492 DLKSLYNLLGVKNQATVFLFTAAEIVEEGYQVFTI-QLSR--GYNEASFKEDLKSLYNLLGVKNQATVFLF  559 (567)
Q Consensus       492 dLk~~~~~ag~~~~~~vfl~~d~qi~~e~fle~in-lL~~--Gevp~Lf~~eE~~~i~~~~~~~~~~~~~~  559 (567)
                       ++......-..++..++++++.+.....-.+.+- .|..  |.+--++.....+.+. ..++..+.++-+
T Consensus       105 -i~~~~~~~p~~~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~vv~Ilattn~~kl~-~~L~SR~~vv~f  173 (472)
T PRK14962        105 -IRDAVGYRPMEGKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVFVLATTNLEKVP-PTIISRCQVIEF  173 (472)
T ss_pred             -HHHHHhhChhcCCeEEEEEEChHHhHHHHHHHHHHHHHhCCCcEEEEEEeCChHhhh-HHHhcCcEEEEE
Confidence             4443333334456678888876655432222222 2222  3332233333334554 556655555443

>PRK13900 type IV secretion system ATPase VirB11; Provisional

Probab=96.64  E-value=0.0021  Score=67.22  Aligned_cols=41  Identities=27%  Similarity=0.235  Sum_probs=35.4

Q ss_pred             hHHHHHHHHHhcCCCeEEeccCCCCchhhHHHHHhccCCCc
Q psy12736        181 KLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLSPDK  221 (567)
Q Consensus       181 R~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~~~~  221 (567)
                      ....++..+++.+++++++|+||||||++++.++..++++.
T Consensus       148 ~~~~~L~~~v~~~~nili~G~tgSGKTTll~aL~~~ip~~~  188 (332)
T PRK13900        148 KIKEFLEHAVISKKNIIISGGTSTGKTTFTNAALREIPAIE  188 (332)
T ss_pred             HHHHHHHHHHHcCCcEEEECCCCCCHHHHHHHHHhhCCCCC
Confidence            35567888899999999999999999999999998876543

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=96.62  E-value=0.0095  Score=61.39  Aligned_cols=76  Identities=14%  Similarity=0.191  Sum_probs=50.6

Q ss_pred             CCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCChhhHHHHHHHHHHHhccCCCcEEEEEecCcccchhhhHHhh
Q psy12736        447 RGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEGYQVFTI  526 (567)
Q Consensus       447 ~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~qi~~e~fle~in  526 (567)
                      ..|++|.|++|+||+++++..|...+.++..+..+....    ..++...+...+   .+.+++++|-|-..+...|.+.
T Consensus        30 ~~~~ll~Gp~G~GKT~la~~ia~~~~~~~~~~~~~~~~~----~~~l~~~l~~~~---~~~vl~iDEi~~l~~~~~e~l~  102 (305)
T TIGR00635        30 LDHLLLYGPPGLGKTTLAHIIANEMGVNLKITSGPALEK----PGDLAAILTNLE---EGDVLFIDEIHRLSPAVEELLY  102 (305)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhCCCEEEeccchhcC----chhHHHHHHhcc---cCCEEEEehHhhhCHHHHHHhh
Confidence            468999999999999999999988887765543221112    234444444433   4568888887776665555555


Q ss_pred             -hcc
Q psy12736        527 -QLS  529 (567)
Q Consensus       527 -lL~  529 (567)
                       +++
T Consensus       103 ~~~~  106 (305)
T TIGR00635       103 PAME  106 (305)
T ss_pred             HHHh
Confidence             543

RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.

>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=96.61  E-value=0.0019  Score=57.48  Aligned_cols=27  Identities=22%  Similarity=0.247  Sum_probs=24.3

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .+.+++++||+|||||++++.+.+.+.
T Consensus        18 ~~~~v~i~G~~G~GKT~l~~~i~~~~~   44 (151)
T cd00009          18 PPKNLLLYGPPGTGKTTLARAIANELF   44 (151)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHhh
Confidence            488999999999999999999988764

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.

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=96.61  E-value=0.012  Score=64.87  Aligned_cols=104  Identities=12%  Similarity=0.181  Sum_probs=66.4

Q ss_pred             CceEEeccCCCcHhHHHHHHHHHcCC----------------------------eEEEEEecCCCChhhHHHHHHHHHHH
Q psy12736        448 GHCMVVGVEGGGKRSLVRLASFAAGY----------------------------QVFTIQLSRGYNEASFKEDLKSLYNL  499 (567)
Q Consensus       448 Gh~LLvG~~GsGr~sl~rlaa~i~~~----------------------------~~~~i~~~k~y~~~~f~edLk~~~~~  499 (567)
                      ++.||.|+.|+||++++|..|...+|                            ++.++....+.+.    +|++.++..
T Consensus        44 ~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C~~C~~C~~i~~~~h~Dv~eidaas~~~v----d~Ir~iie~  119 (507)
T PRK06645         44 GGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEQCTNCISFNNHNHPDIIEIDAASKTSV----DDIRRIIES  119 (507)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCCCCChHHHHHhcCCCCcEEEeeccCCCCH----HHHHHHHHH
Confidence            56799999999999999998876655                            2344443333444    455555544


Q ss_pred             h---ccCCCcEEEEEecCcccchhhhHHhh-hccCCc-----cccCcchhHHHHHHHhhccccceeeee
Q psy12736        500 L---GVKNQATVFLFTAAEIVEEGYQVFTI-QLSRGY-----NEASFKEDLKSLYNLLGVKNQATVFLF  559 (567)
Q Consensus       500 a---g~~~~~~vfl~~d~qi~~e~fle~in-lL~~Ge-----vp~Lf~~eE~~~i~~~~~~~~~~~~~~  559 (567)
                      +   ...++.-|+++++.+....   +..| ||.+=|     +-=+|...+.++|. ..++..+..+-+
T Consensus       120 a~~~P~~~~~KVvIIDEa~~Ls~---~a~naLLk~LEepp~~~vfI~aTte~~kI~-~tI~SRc~~~ef  184 (507)
T PRK06645        120 AEYKPLQGKHKIFIIDEVHMLSK---GAFNALLKTLEEPPPHIIFIFATTEVQKIP-ATIISRCQRYDL  184 (507)
T ss_pred             HHhccccCCcEEEEEEChhhcCH---HHHHHHHHHHhhcCCCEEEEEEeCChHHhh-HHHHhcceEEEc
Confidence            4   3456667888888766554   3344 443222     22257777888887 777777766654

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=96.60  E-value=0.0014  Score=57.76  Aligned_cols=27  Identities=30%  Similarity=0.497  Sum_probs=24.1

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhccCC
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      +.+++++||+|||||+++..+...+..
T Consensus         2 ~~~~~l~G~~G~GKTtl~~~l~~~~~~   28 (148)
T smart00382        2 GEVILIVGPPGSGKTTLARALARELGP   28 (148)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHhccCC
Confidence            578999999999999999999887754

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.

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=96.54  E-value=0.0067  Score=62.86  Aligned_cols=86  Identities=13%  Similarity=0.186  Sum_probs=63.3

Q ss_pred             HHHHHhcCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCChh-----------------hHHHHHHHHHHHhc
Q psy12736        439 IHRALRLSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEA-----------------SFKEDLKSLYNLLG  501 (567)
Q Consensus       439 i~RvL~~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~~~-----------------~f~edLk~~~~~ag  501 (567)
                      |...| .+++|+||.|++|+||+++++..|...+..++.|+.+..-...                 +|++.   .+-.|-
T Consensus        57 vl~~l-~~~~~ilL~G~pGtGKTtla~~lA~~l~~~~~rV~~~~~l~~~DliG~~~~~l~~g~~~~~f~~G---pL~~A~  132 (327)
T TIGR01650        57 ICAGF-AYDRRVMVQGYHGTGKSTHIEQIAARLNWPCVRVNLDSHVSRIDLVGKDAIVLKDGKQITEFRDG---ILPWAL  132 (327)
T ss_pred             HHHHH-hcCCcEEEEeCCCChHHHHHHHHHHHHCCCeEEEEecCCCChhhcCCCceeeccCCcceeEEecC---cchhHH
Confidence            34445 4588999999999999999999999999999999876653332                 22221   121221


Q ss_pred             cCCCcEEEEEecCcccchhhhHHhh-hccC
Q psy12736        502 VKNQATVFLFTAAEIVEEGYQVFTI-QLSR  530 (567)
Q Consensus       502 ~~~~~~vfl~~d~qi~~e~fle~in-lL~~  530 (567)
                        .++.++++++-+...+.-+..+| +|..
T Consensus       133 --~~g~illlDEin~a~p~~~~~L~~lLE~  160 (327)
T TIGR01650       133 --QHNVALCFDEYDAGRPDVMFVIQRVLEA  160 (327)
T ss_pred             --hCCeEEEechhhccCHHHHHHHHHHhcc
Confidence              34578999998888888999999 8874

This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.

>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair

Probab=96.53  E-value=0.014  Score=57.22  Aligned_cols=66  Identities=17%  Similarity=0.267  Sum_probs=40.3

Q ss_pred             CCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCChhhHHHHHHHHHHHhccCCCcEEEEEecCcccc
Q psy12736        446 SRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVE  518 (567)
Q Consensus       446 p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~qi~~  518 (567)
                      +-.|+||.|++|+||+||+++.|.-.+.++....-. ....   ..||.+++...+   +..|+++++-+=.+
T Consensus        49 ~l~h~lf~GPPG~GKTTLA~IIA~e~~~~~~~~sg~-~i~k---~~dl~~il~~l~---~~~ILFIDEIHRln  114 (233)
T PF05496_consen   49 ALDHMLFYGPPGLGKTTLARIIANELGVNFKITSGP-AIEK---AGDLAAILTNLK---EGDILFIDEIHRLN  114 (233)
T ss_dssp             ---EEEEESSTTSSHHHHHHHHHHHCT--EEEEECC-C--S---CHHHHHHHHT-----TT-EEEECTCCC--
T ss_pred             CcceEEEECCCccchhHHHHHHHhccCCCeEeccch-hhhh---HHHHHHHHHhcC---CCcEEEEechhhcc
Confidence            457999999999999999999999999987654321 1111   257888776542   34566666654433

Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.

>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=96.53  E-value=0.0012  Score=59.79  Aligned_cols=24  Identities=33%  Similarity=0.516  Sum_probs=21.9

Q ss_pred             CeEEeccCCCCchhhHHHHHhccC
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ||||+||||||||.+++.+...+.
T Consensus         1 ~vlL~G~~G~GKt~l~~~la~~~~   24 (139)
T PF07728_consen    1 PVLLVGPPGTGKTTLARELAALLG   24 (139)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHT
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhh
Confidence            799999999999999999988773

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=96.52  E-value=0.0029  Score=60.57  Aligned_cols=39  Identities=26%  Similarity=0.359  Sum_probs=33.0

Q ss_pred             hHHHHHHHHHhcCCCeEEeccCCCCchhhHHHHHhccCC
Q psy12736        181 KLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       181 R~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      ....++...++.+..++++||+|+|||++++.++..+++
T Consensus        13 ~~~~~l~~~v~~g~~i~I~G~tGSGKTTll~aL~~~i~~   51 (186)
T cd01130          13 LQAAYLWLAVEARKNILISGGTGSGKTTLLNALLAFIPP   51 (186)
T ss_pred             HHHHHHHHHHhCCCEEEEECCCCCCHHHHHHHHHhhcCC
Confidence            355677888999999999999999999999988876543

The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.51  E-value=0.017  Score=64.23  Aligned_cols=119  Identities=15%  Similarity=0.184  Sum_probs=71.9

Q ss_pred             HHHHHhcCC-Cc-eEEeccCCCcHhHHHHHHHHHcCC------------------------eEEEEEecCCCChhhHHHH
Q psy12736        439 IHRALRLSR-GH-CMVVGVEGGGKRSLVRLASFAAGY------------------------QVFTIQLSRGYNEASFKED  492 (567)
Q Consensus       439 i~RvL~~p~-Gh-~LLvG~~GsGr~sl~rlaa~i~~~------------------------~~~~i~~~k~y~~~~f~ed  492 (567)
                      +.+.++..+ .| .|+.|+.|+||++++|..|...++                        ++.+++....-+..+.++-
T Consensus        28 L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~~~~~dlieidaas~~gvd~ir~i  107 (546)
T PRK14957         28 LVHALETQKVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINNNSFIDLIEIDAASRTGVEETKEI  107 (546)
T ss_pred             HHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhcCCCCceEEeecccccCHHHHHHH
Confidence            445566544 36 479999999999999988875543                        4455544344455444332


Q ss_pred             HHHHHHHhccCCCcEEEEEecCcccchhhhHHhh-hccC--CccccCcchhHHHHHHHhhccccceeeee
Q psy12736        493 LKSLYNLLGVKNQATVFLFTAAEIVEEGYQVFTI-QLSR--GYNEASFKEDLKSLYNLLGVKNQATVFLF  559 (567)
Q Consensus       493 Lk~~~~~ag~~~~~~vfl~~d~qi~~e~fle~in-lL~~--Gevp~Lf~~eE~~~i~~~~~~~~~~~~~~  559 (567)
                      + ..+......++.-|++++|.+-....-.+.+- .|..  +.+.=+|...+...|. ..++..+.++-+
T Consensus       108 i-~~~~~~p~~g~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~fIL~Ttd~~kil-~tI~SRc~~~~f  175 (546)
T PRK14957        108 L-DNIQYMPSQGRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKFILATTDYHKIP-VTILSRCIQLHL  175 (546)
T ss_pred             H-HHHHhhhhcCCcEEEEEechhhccHHHHHHHHHHHhcCCCCceEEEEECChhhhh-hhHHHheeeEEe
Confidence            2 22233334567778889887666554444444 4443  2333455566677776 667777766655

>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily

Probab=96.47  E-value=0.024  Score=57.13  Aligned_cols=88  Identities=13%  Similarity=0.144  Sum_probs=54.5

Q ss_pred             HHhcCCCceEEeccCCCcHhHHHHHHHHHcCC-eEEEEE-ecCCCChh--------------------hHHHHHHHHHHH
Q psy12736        442 ALRLSRGHCMVVGVEGGGKRSLVRLASFAAGY-QVFTIQ-LSRGYNEA--------------------SFKEDLKSLYNL  499 (567)
Q Consensus       442 vL~~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~-~~~~i~-~~k~y~~~--------------------~f~edLk~~~~~  499 (567)
                      .++.+.|.++|+|++|+||+++++..+..... .+.... +....+..                    +-...|...+..
T Consensus        38 ~~~~~~~~~~l~G~~G~GKTtl~~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~i~~~lG~~~~~~~~~~~~~~l~~~l~~  117 (269)
T TIGR03015        38 GLSQREGFILITGEVGAGKTTLIRNLLKRLDQERVVAAKLVNTRVDAEDLLRMVAADFGLETEGRDKAALLRELEDFLIE  117 (269)
T ss_pred             HHhcCCCEEEEEcCCCCCHHHHHHHHHHhcCCCCeEEeeeeCCCCCHHHHHHHHHHHcCCCCCCCCHHHHHHHHHHHHHH
Confidence            34566677899999999999999988766442 222111 11111111                    112233443444


Q ss_pred             hccCCCcEEEEEecCcccchhhhHHhh-hcc
Q psy12736        500 LGVKNQATVFLFTAAEIVEEGYQVFTI-QLS  529 (567)
Q Consensus       500 ag~~~~~~vfl~~d~qi~~e~fle~in-lL~  529 (567)
                      ...++++.+++++|.|...+.-++.+. +.+
T Consensus       118 ~~~~~~~~vliiDe~~~l~~~~~~~l~~l~~  148 (269)
T TIGR03015       118 QFAAGKRALLVVDEAQNLTPELLEELRMLSN  148 (269)
T ss_pred             HHhCCCCeEEEEECcccCCHHHHHHHHHHhC
Confidence            444678899999999988877777776 543

Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=96.45  E-value=0.0094  Score=52.89  Aligned_cols=93  Identities=14%  Similarity=0.195  Sum_probs=56.2

Q ss_pred             cCCCceEEeccCCCcHhHHHHHHHHHc--------CCeEEEEEecCCCChhhHHHHHH-----------------HHHHH
Q psy12736        445 LSRGHCMVVGVEGGGKRSLVRLASFAA--------GYQVFTIQLSRGYNEASFKEDLK-----------------SLYNL  499 (567)
Q Consensus       445 ~p~Gh~LLvG~~GsGr~sl~rlaa~i~--------~~~~~~i~~~k~y~~~~f~edLk-----------------~~~~~  499 (567)
                      +.++++++.|++|+||+++++-.+.-.        +..+..++....-+..+|...+-                 +.+.+
T Consensus         2 ~~~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~~~~   81 (131)
T PF13401_consen    2 QSQRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKSRQTSDELRSLLID   81 (131)
T ss_dssp             -----EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSSTS-HHHHHHHHHH
T ss_pred             CCCcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccccCCHHHHHHHHHH
Confidence            457889999999999999987666554        67777777654434333333322                 22222


Q ss_pred             hccCCCcEEEEEecCccc-chhhhHHhh-hccCCccccCc
Q psy12736        500 LGVKNQATVFLFTAAEIV-EEGYQVFTI-QLSRGYNEASF  537 (567)
Q Consensus       500 ag~~~~~~vfl~~d~qi~-~e~fle~in-lL~~Gevp~Lf  537 (567)
                      +--+....+++++|.|-. +..+++.+- +++...++-++
T Consensus        82 ~l~~~~~~~lviDe~~~l~~~~~l~~l~~l~~~~~~~vvl  121 (131)
T PF13401_consen   82 ALDRRRVVLLVIDEADHLFSDEFLEFLRSLLNESNIKVVL  121 (131)
T ss_dssp             HHHHCTEEEEEEETTHHHHTHHHHHHHHHHTCSCBEEEEE
T ss_pred             HHHhcCCeEEEEeChHhcCCHHHHHHHHHHHhCCCCeEEE
Confidence            222223368888988888 888888887 77765555433

>PRK13342 recombination factor protein RarA; Reviewed

Probab=96.43  E-value=0.015  Score=62.96  Aligned_cols=82  Identities=16%  Similarity=0.209  Sum_probs=54.2

Q ss_pred             HHHHHhcCC-CceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCChhhHHHHHHHHHHHh---ccCCCcEEEEEecC
Q psy12736        439 IHRALRLSR-GHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLL---GVKNQATVFLFTAA  514 (567)
Q Consensus       439 i~RvL~~p~-Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~~~~f~edLk~~~~~a---g~~~~~~vfl~~d~  514 (567)
                      +.+++.... .|++|.|++|+||+++++..|.-.+..+..+..+. .+..    +++.++..+   ...++..+++++|.
T Consensus        27 L~~~i~~~~~~~ilL~GppGtGKTtLA~~ia~~~~~~~~~l~a~~-~~~~----~ir~ii~~~~~~~~~g~~~vL~IDEi  101 (413)
T PRK13342         27 LRRMIEAGRLSSMILWGPPGTGKTTLARIIAGATDAPFEALSAVT-SGVK----DLREVIEEARQRRSAGRRTILFIDEI  101 (413)
T ss_pred             HHHHHHcCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEeccc-ccHH----HHHHHHHHHHHhhhcCCceEEEEech
Confidence            455555543 48899999999999999999998888888776542 2333    344444333   23457788888887


Q ss_pred             cccchhhhHHh
Q psy12736        515 EIVEEGYQVFT  525 (567)
Q Consensus       515 qi~~e~fle~i  525 (567)
                      +-......+.+
T Consensus       102 ~~l~~~~q~~L  112 (413)
T PRK13342        102 HRFNKAQQDAL  112 (413)
T ss_pred             hhhCHHHHHHH
Confidence            65544333333

>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]

Probab=96.42  E-value=0.0026  Score=64.47  Aligned_cols=53  Identities=19%  Similarity=0.283  Sum_probs=39.4

Q ss_pred             CCccccccCcchhhHHHHHHHHHhcCCCeEEeccCCCCchhhHHHHHhccCCC
Q psy12736        168 SFGDILVPTTDSTKLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLSPD  220 (567)
Q Consensus       168 ~~~~i~VpT~dtvR~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~~~  220 (567)
                      .+.++...-.-......++...++.+..++++||||||||++++.++..+++.
T Consensus       102 sle~l~~~~~~~~~~~~~l~~~v~~~~~ili~G~tGSGKTT~l~all~~i~~~  154 (270)
T PF00437_consen  102 SLEDLGESGSIPEEIAEFLRSAVRGRGNILISGPTGSGKTTLLNALLEEIPPE  154 (270)
T ss_dssp             CHCCCCHTHHCHHHHHHHHHHCHHTTEEEEEEESTTSSHHHHHHHHHHHCHTT
T ss_pred             cHhhccCchhhHHHHHHHHhhccccceEEEEECCCccccchHHHHHhhhcccc
Confidence            33344333333345555667777789999999999999999999999988776

These proteins are probably located in the cytoplasm and, on the basis of the presence of a conserved P-loop region IPR001687 from INTERPRO, bind ATP.; GO: 0005524 ATP binding, 0006810 transport, 0005622 intracellular; PDB: 1NLZ_C 2PT7_B 1OPX_A 1NLY_A 1G6O_B 2OAQ_2 2OAP_1 2JNQ_A 2JMZ_A 2GZA_B ....

>PLN03025 replication factor C subunit; Provisional

Probab=96.36  E-value=0.014  Score=60.90  Aligned_cols=79  Identities=14%  Similarity=0.184  Sum_probs=50.0

Q ss_pred             CceEEeccCCCcHhHHHHHHHHHc-C----CeEEEEEecCCCChhhHHHHHHHHHHHhc-c-CCCcEEEEEecCcccchh
Q psy12736        448 GHCMVVGVEGGGKRSLVRLASFAA-G----YQVFTIQLSRGYNEASFKEDLKSLYNLLG-V-KNQATVFLFTAAEIVEEG  520 (567)
Q Consensus       448 Gh~LLvG~~GsGr~sl~rlaa~i~-~----~~~~~i~~~k~y~~~~f~edLk~~~~~ag-~-~~~~~vfl~~d~qi~~e~  520 (567)
                      .|+||.|++|+||+++++..|... +    ..+.+++.+...+....++-++..-.... . .++.-+++++|.+-....
T Consensus        35 ~~lll~Gp~G~GKTtla~~la~~l~~~~~~~~~~eln~sd~~~~~~vr~~i~~~~~~~~~~~~~~~kviiiDE~d~lt~~  114 (319)
T PLN03025         35 PNLILSGPPGTGKTTSILALAHELLGPNYKEAVLELNASDDRGIDVVRNKIKMFAQKKVTLPPGRHKIVILDEADSMTSG  114 (319)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHhcccCccceeeecccccccHHHHHHHHHHHHhccccCCCCCeEEEEEechhhcCHH
Confidence            489999999999999999877654 2    23555665555666666666655433221 1 245667788877666544


Q ss_pred             hhHHhh
Q psy12736        521 YQVFTI  526 (567)
Q Consensus       521 fle~in  526 (567)
                      --..+.
T Consensus       115 aq~aL~  120 (319)
T PLN03025        115 AQQALR  120 (319)
T ss_pred             HHHHHH
Confidence            433344

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=96.35  E-value=0.017  Score=65.69  Aligned_cols=115  Identities=15%  Similarity=0.143  Sum_probs=74.5

Q ss_pred             HHHhcCC-Cce-EEeccCCCcHhHHHHHHHHHcCC------------------------eEEEEEecCCCChhhHHHHHH
Q psy12736        441 RALRLSR-GHC-MVVGVEGGGKRSLVRLASFAAGY------------------------QVFTIQLSRGYNEASFKEDLK  494 (567)
Q Consensus       441 RvL~~p~-Gh~-LLvG~~GsGr~sl~rlaa~i~~~------------------------~~~~i~~~k~y~~~~f~edLk  494 (567)
                      +.+...+ .|+ ||.|..|+||+|+++..|...+|                        ++++|+-..+.+..+.++-++
T Consensus        30 ~aL~~gRL~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C~sCr~I~~G~h~DviEIDAas~rgVDdIReLIe  109 (830)
T PRK07003         30 HALDGGRLHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRACREIDEGRFVDYVEMDAASNRGVDEMAALLE  109 (830)
T ss_pred             HHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcccHHHHHHhcCCCceEEEecccccccHHHHHHHHH
Confidence            3345433 677 89999999999999977765544                        455665555556655554443


Q ss_pred             HHHHHhccCCCcEEEEEecCcccchhhhHHhh-hccC-----CccccCcchhHHHHHHHhhccccceeeeee
Q psy12736        495 SLYNLLGVKNQATVFLFTAAEIVEEGYQVFTI-QLSR-----GYNEASFKEDLKSLYNLLGVKNQATVFLFT  560 (567)
Q Consensus       495 ~~~~~ag~~~~~~vfl~~d~qi~~e~fle~in-lL~~-----Gevp~Lf~~eE~~~i~~~~~~~~~~~~~~~  560 (567)
                      .+. ..-.+++.-|+++++.+.....   ..| ||.+     ..+.=+|...+..+|. ..|+..+..+-|.
T Consensus       110 ~a~-~~P~~gr~KVIIIDEah~LT~~---A~NALLKtLEEPP~~v~FILaTtd~~KIp-~TIrSRCq~f~Fk  176 (830)
T PRK07003        110 RAV-YAPVDARFKVYMIDEVHMLTNH---AFNAMLKTLEEPPPHVKFILATTDPQKIP-VTVLSRCLQFNLK  176 (830)
T ss_pred             HHH-hccccCCceEEEEeChhhCCHH---HHHHHHHHHHhcCCCeEEEEEECChhhcc-chhhhheEEEecC
Confidence            332 2233456678888887776542   345 5442     3455677778888886 7888887777654

>PRK13833 conjugal transfer protein TrbB; Provisional

Probab=96.31  E-value=0.0037  Score=65.01  Aligned_cols=36  Identities=14%  Similarity=0.235  Sum_probs=31.6

Q ss_pred             HHHHHHHHHhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        182 LTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       182 ~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ...++..+++.+.+++++|+||||||++++.++..+
T Consensus       133 ~~~~L~~~v~~~~nilI~G~tGSGKTTll~aL~~~i  168 (323)
T PRK13833        133 QASVIRSAIDSRLNIVISGGTGSGKTTLANAVIAEI  168 (323)
T ss_pred             HHHHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            345677888899999999999999999999988865

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.30  E-value=0.032  Score=62.62  Aligned_cols=115  Identities=16%  Similarity=0.133  Sum_probs=68.8

Q ss_pred             HHHHhcC-CCce-EEeccCCCcHhHHHHHHHHHcCC--------------------------eEEEEEecCCCChhhHHH
Q psy12736        440 HRALRLS-RGHC-MVVGVEGGGKRSLVRLASFAAGY--------------------------QVFTIQLSRGYNEASFKE  491 (567)
Q Consensus       440 ~RvL~~p-~Gh~-LLvG~~GsGr~sl~rlaa~i~~~--------------------------~~~~i~~~k~y~~~~f~e  491 (567)
                      .+.+... -.|+ |+.|+.|+||+|+++..|...+|                          ++++++-..+-+..+.++
T Consensus        26 ~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~~~~~~~dvieidaas~~gvd~iRe  105 (584)
T PRK14952         26 SSALDAGRINHAYLFSGPRGCGKTSSARILARSLNCAQGPTATPCGVCESCVALAPNGPGSIDVVELDAASHGGVDDTRE  105 (584)
T ss_pred             HHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCcccccHHHHHhhcccCCCceEEEeccccccCHHHHHH
Confidence            3344443 4686 89999999999999988765432                          244444333334554432


Q ss_pred             HHHHHHHHhccCCCcEEEEEecCcccchhhhHHhh-hccCC-----ccccCcchhHHHHHHHhhccccceeeee
Q psy12736        492 DLKSLYNLLGVKNQATVFLFTAAEIVEEGYQVFTI-QLSRG-----YNEASFKEDLKSLYNLLGVKNQATVFLF  559 (567)
Q Consensus       492 dLk~~~~~ag~~~~~~vfl~~d~qi~~e~fle~in-lL~~G-----evp~Lf~~eE~~~i~~~~~~~~~~~~~~  559 (567)
                       |+.-+..+...+..-|+++++.+....+   ..| ||.+=     .+-=+|...|.++|. ..++..+..+-+
T Consensus       106 -l~~~~~~~P~~~~~KVvIIDEah~Lt~~---A~NALLK~LEEpp~~~~fIL~tte~~kll-~TI~SRc~~~~F  174 (584)
T PRK14952        106 -LRDRAFYAPAQSRYRIFIVDEAHMVTTA---GFNALLKIVEEPPEHLIFIFATTEPEKVL-PTIRSRTHHYPF  174 (584)
T ss_pred             -HHHHHHhhhhcCCceEEEEECCCcCCHH---HHHHHHHHHhcCCCCeEEEEEeCChHhhH-HHHHHhceEEEe
Confidence             4444444444566678888887766653   344 44322     222355566667776 777776666554

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.29  E-value=0.022  Score=62.97  Aligned_cols=108  Identities=17%  Similarity=0.236  Sum_probs=62.1

Q ss_pred             CCce-EEeccCCCcHhHHHHHHHHHcCC-----------------------eEEEEEecCCCChhhHHHHHHHHHHHhcc
Q psy12736        447 RGHC-MVVGVEGGGKRSLVRLASFAAGY-----------------------QVFTIQLSRGYNEASFKEDLKSLYNLLGV  502 (567)
Q Consensus       447 ~Gh~-LLvG~~GsGr~sl~rlaa~i~~~-----------------------~~~~i~~~k~y~~~~f~edLk~~~~~ag~  502 (567)
                      -+|+ |+.|++|+||+|+++..|....+                       .+.++..+.+.+..+.++ ++..+.....
T Consensus        35 l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~~i~~~~h~dv~el~~~~~~~vd~iR~-l~~~~~~~p~  113 (504)
T PRK14963         35 LGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCLAVRRGAHPDVLEIDAASNNSVEDVRD-LREKVLLAPL  113 (504)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhHHHhcCCCCceEEecccccCCHHHHHH-HHHHHhhccc
Confidence            4688 99999999999999987765543                       256666555556554443 4443433344


Q ss_pred             CCCcEEEEEecCcccchhhhHHhh-hccCCccc-----cCcchhHHHHHHHhhccccceeeee
Q psy12736        503 KNQATVFLFTAAEIVEEGYQVFTI-QLSRGYNE-----ASFKEDLKSLYNLLGVKNQATVFLF  559 (567)
Q Consensus       503 ~~~~~vfl~~d~qi~~e~fle~in-lL~~Gevp-----~Lf~~eE~~~i~~~~~~~~~~~~~~  559 (567)
                      .+.+-++++++.+.....   ..| ||..=|-|     -++...+...|. ..++..+..+-+
T Consensus       114 ~~~~kVVIIDEad~ls~~---a~naLLk~LEep~~~t~~Il~t~~~~kl~-~~I~SRc~~~~f  172 (504)
T PRK14963        114 RGGRKVYILDEAHMMSKS---AFNALLKTLEEPPEHVIFILATTEPEKMP-PTILSRTQHFRF  172 (504)
T ss_pred             cCCCeEEEEECccccCHH---HHHHHHHHHHhCCCCEEEEEEcCChhhCC-hHHhcceEEEEe
Confidence            566777888887655432   233 33322211     134444455554 455555554443

>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=96.29  E-value=0.0025  Score=56.48  Aligned_cols=23  Identities=26%  Similarity=0.351  Sum_probs=20.8

Q ss_pred             eEEeccCCCCchhhHHHHHhccC
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      +|++||+|||||++++.+.+.+.
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~   23 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLG   23 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTT
T ss_pred             CEEECcCCCCeeHHHHHHHhhcc
Confidence            68999999999999999988763

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 ....

>KOG0738|consensus

Probab=96.28  E-value=0.016  Score=60.48  Aligned_cols=28  Identities=21%  Similarity=0.208  Sum_probs=23.0

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      +-=+-||++||||||||++.+..-....
T Consensus       243 rPWkgvLm~GPPGTGKTlLAKAvATEc~  270 (491)
T KOG0738|consen  243 RPWKGVLMVGPPGTGKTLLAKAVATECG  270 (491)
T ss_pred             cccceeeeeCCCCCcHHHHHHHHHHhhc
Confidence            3446799999999999999998876543

>PHA02244 ATPase-like protein

Probab=96.25  E-value=0.0054  Score=64.40  Aligned_cols=34  Identities=15%  Similarity=0.230  Sum_probs=28.9

Q ss_pred             HHHHHHHhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        184 WILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       184 ~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      -.+..++..+.||||.||||||||+++..+...+
T Consensus       110 ~ri~r~l~~~~PVLL~GppGtGKTtLA~aLA~~l  143 (383)
T PHA02244        110 ADIAKIVNANIPVFLKGGAGSGKNHIAEQIAEAL  143 (383)
T ss_pred             HHHHHHHhcCCCEEEECCCCCCHHHHHHHHHHHh
Confidence            3456788999999999999999999999876553

>PRK13342 recombination factor protein RarA; Reviewed

Probab=96.23  E-value=0.007  Score=65.39  Aligned_cols=36  Identities=28%  Similarity=0.182  Sum_probs=27.2

Q ss_pred             HHHHHHHHhcCC--CeEEeccCCCCchhhHHHHHhccC
Q psy12736        183 TWILSLMNEIKR--PCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       183 ~~ll~~ll~~~~--pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .-.+..++.++.  +++|+||+|||||++++.+.+...
T Consensus        24 ~~~L~~~i~~~~~~~ilL~GppGtGKTtLA~~ia~~~~   61 (413)
T PRK13342         24 GKPLRRMIEAGRLSSMILWGPPGTGKTTLARIIAGATD   61 (413)
T ss_pred             chHHHHHHHcCCCceEEEECCCCCCHHHHHHHHHHHhC
Confidence            334555555554  799999999999999998877654

>KOG0744|consensus

Probab=96.20  E-value=0.002  Score=65.57  Aligned_cols=29  Identities=28%  Similarity=0.312  Sum_probs=25.4

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      +..++=+|+.||||||||++.+.+-+++.
T Consensus       174 It~NRliLlhGPPGTGKTSLCKaLaQkLS  202 (423)
T KOG0744|consen  174 ITWNRLILLHGPPGTGKTSLCKALAQKLS  202 (423)
T ss_pred             eeeeeEEEEeCCCCCChhHHHHHHHHhhe
Confidence            45677899999999999999999988764

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=96.16  E-value=0.016  Score=68.29  Aligned_cols=110  Identities=19%  Similarity=0.313  Sum_probs=73.4

Q ss_pred             CcceEEecHHHHHHHHHHHHHHhc-CCCceEEeccCCCcHhHHHHHHHHH----------cCCeEEEEEecC-----CCC
Q psy12736        422 ARLDLVLFEDAREHLTRIHRALRL-SRGHCMVVGVEGGGKRSLVRLASFA----------AGYQVFTIQLSR-----GYN  485 (567)
Q Consensus       422 ~~~~lvlf~dai~hi~ri~RvL~~-p~Gh~LLvG~~GsGr~sl~rlaa~i----------~~~~~~~i~~~k-----~y~  485 (567)
                      .+++=|+-.+.  -|.|+..+|.. ...|++|+|++|+||+++++..|.-          .++.++.++++.     .|.
T Consensus       170 ~~~~~~igr~~--ei~~~~~~l~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l~~~~l~a~~~~~  247 (852)
T TIGR03346       170 GKLDPVIGRDE--EIRRTIQVLSRRTKNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLALDMGALIAGAKYR  247 (852)
T ss_pred             CCCCcCCCcHH--HHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEeeHHHHhhcchhh
Confidence            34444544444  26677777755 4579999999999999999876553          367888876543     232


Q ss_pred             hhhHHHHHHHHHHHhccCCCcEEEEEecCcccc-----h---hhhHHhh-hccCCccc
Q psy12736        486 EASFKEDLKSLYNLLGVKNQATVFLFTAAEIVE-----E---GYQVFTI-QLSRGYNE  534 (567)
Q Consensus       486 ~~~f~edLk~~~~~ag~~~~~~vfl~~d~qi~~-----e---~fle~in-lL~~Gevp  534 (567)
                       .+|.+.++.++..+...++++++++++-+...     +   .....+- .|+.|++.
T Consensus       248 -g~~e~~l~~~l~~~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~~~Lk~~l~~g~i~  304 (852)
T TIGR03346       248 -GEFEERLKAVLNEVTKSEGQIILFIDELHTLVGAGKAEGAMDAGNMLKPALARGELH  304 (852)
T ss_pred             -hhHHHHHHHHHHHHHhcCCCeEEEeccHHHhhcCCCCcchhHHHHHhchhhhcCceE
Confidence             46888899999877545678888888766332     1   1223334 56777765

Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=96.14  E-value=0.019  Score=64.94  Aligned_cols=119  Identities=14%  Similarity=0.183  Sum_probs=71.3

Q ss_pred             HHHHHhc-CCCce-EEeccCCCcHhHHHHHHHHHcCC------------------------eEEEEEecCCCChhhHHHH
Q psy12736        439 IHRALRL-SRGHC-MVVGVEGGGKRSLVRLASFAAGY------------------------QVFTIQLSRGYNEASFKED  492 (567)
Q Consensus       439 i~RvL~~-p~Gh~-LLvG~~GsGr~sl~rlaa~i~~~------------------------~~~~i~~~k~y~~~~f~ed  492 (567)
                      +.+.+.. --.|+ |+.|+.|+||++++|..|...+|                        ++++++-....+..+.|+-
T Consensus        28 L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~~C~~i~~g~~~D~ieidaas~~~VddiR~l  107 (647)
T PRK07994         28 LANALDLGRLHHAYLFSGTRGVGKTTIARLLAKGLNCETGITATPCGECDNCREIEQGRFVDLIEIDAASRTKVEDTREL  107 (647)
T ss_pred             HHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhhhccCCCCCCCCCCHHHHHHHcCCCCCceeecccccCCHHHHHHH
Confidence            3444554 24576 89999999999999998877665                        2344544333456665543


Q ss_pred             HHHHHHHhccCCCcEEEEEecCcccchhhhHHhh-hccC--CccccCcchhHHHHHHHhhccccceeeee
Q psy12736        493 LKSLYNLLGVKNQATVFLFTAAEIVEEGYQVFTI-QLSR--GYNEASFKEDLKSLYNLLGVKNQATVFLF  559 (567)
Q Consensus       493 Lk~~~~~ag~~~~~~vfl~~d~qi~~e~fle~in-lL~~--Gevp~Lf~~eE~~~i~~~~~~~~~~~~~~  559 (567)
                      ++. +..+...++.-|+++++.+.....-...+- .|..  +.+.=++...+..+|. ..++..+..+-|
T Consensus       108 i~~-~~~~p~~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~kLl-~TI~SRC~~~~f  175 (647)
T PRK07994        108 LDN-VQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLP-VTILSRCLQFHL  175 (647)
T ss_pred             HHH-HHhhhhcCCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCccccc-hHHHhhheEeeC
Confidence            333 333445677888999988877663333332 2221  3333455555566665 566665555544

>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB

Probab=96.13  E-value=0.0051  Score=63.44  Aligned_cols=37  Identities=24%  Similarity=0.295  Sum_probs=31.6

Q ss_pred             HHHHHHHHHhcCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        182 LTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       182 ~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ...++..+++.+.+++++|+||||||++++.++..++
T Consensus       121 ~~~~L~~~v~~~~~ilI~G~tGSGKTTll~al~~~i~  157 (299)
T TIGR02782       121 QRDVLREAVLARKNILVVGGTGSGKTTLANALLAEIA  157 (299)
T ss_pred             HHHHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHHhh
Confidence            3455677788999999999999999999999988764

The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.12  E-value=0.038  Score=58.67  Aligned_cols=119  Identities=13%  Similarity=0.166  Sum_probs=68.7

Q ss_pred             HHHHHHHHHHHHHHhcC-CCce-EEeccCCCcHhHHHHHHHHHcCC------------------------eEEEEEecCC
Q psy12736        430 EDAREHLTRIHRALRLS-RGHC-MVVGVEGGGKRSLVRLASFAAGY------------------------QVFTIQLSRG  483 (567)
Q Consensus       430 ~dai~hi~ri~RvL~~p-~Gh~-LLvG~~GsGr~sl~rlaa~i~~~------------------------~~~~i~~~k~  483 (567)
                      +++++.+.   +.+... -.|+ ||.|+.|+||+++++..|...++                        ++..++.+..
T Consensus        22 ~~~~~~l~---~~~~~~~~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~~~pc~~c~~c~~~~~~~~~d~~~~~~~~~   98 (363)
T PRK14961         22 KHIVTAIS---NGLSLGRIHHAWLLSGTRGVGKTTIARLLAKSLNCQNGITSNPCRKCIICKEIEKGLCLDLIEIDAASR   98 (363)
T ss_pred             HHHHHHHH---HHHHcCCCCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCceEEeccccc
Confidence            34444433   334442 3576 89999999999999998876543                        2334433322


Q ss_pred             CChhhHHHHHHHHHHH---hccCCCcEEEEEecCcccchhhhHHhh-hccCCccc-----cCcchhHHHHHHHhhccccc
Q psy12736        484 YNEASFKEDLKSLYNL---LGVKNQATVFLFTAAEIVEEGYQVFTI-QLSRGYNE-----ASFKEDLKSLYNLLGVKNQA  554 (567)
Q Consensus       484 y~~~~f~edLk~~~~~---ag~~~~~~vfl~~d~qi~~e~fle~in-lL~~Gevp-----~Lf~~eE~~~i~~~~~~~~~  554 (567)
                      .+..    +++.++..   ....++.-|++++|.+-..+.   ..| +|..-|-|     -++...+.+++. .+++..+
T Consensus        99 ~~v~----~ir~i~~~~~~~p~~~~~kviIIDEa~~l~~~---a~naLLk~lEe~~~~~~fIl~t~~~~~l~-~tI~SRc  170 (363)
T PRK14961         99 TKVE----EMREILDNIYYSPSKSRFKVYLIDEVHMLSRH---SFNALLKTLEEPPQHIKFILATTDVEKIP-KTILSRC  170 (363)
T ss_pred             CCHH----HHHHHHHHHhcCcccCCceEEEEEChhhcCHH---HHHHHHHHHhcCCCCeEEEEEcCChHhhh-HHHHhhc
Confidence            3443    44444443   334456678888887766542   345 55444322     355556666765 6666655


Q ss_pred             eeeee
Q psy12736        555 TVFLF  559 (567)
Q Consensus       555 ~~~~~  559 (567)
                      .++-+
T Consensus       171 ~~~~~  175 (363)
T PRK14961        171 LQFKL  175 (363)
T ss_pred             eEEeC
Confidence            55544

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.09  E-value=0.029  Score=62.99  Aligned_cols=117  Identities=15%  Similarity=0.185  Sum_probs=67.0

Q ss_pred             HHHHHHhcCC-Cce-EEeccCCCcHhHHHHHHHHHcCCe------------------------EEEEEecCCCChhhHHH
Q psy12736        438 RIHRALRLSR-GHC-MVVGVEGGGKRSLVRLASFAAGYQ------------------------VFTIQLSRGYNEASFKE  491 (567)
Q Consensus       438 ri~RvL~~p~-Gh~-LLvG~~GsGr~sl~rlaa~i~~~~------------------------~~~i~~~k~y~~~~f~e  491 (567)
                      .+.|.+...+ .|+ ||.|+.|+||+++++.-|....|+                        +++|+-..+.++.+-++
T Consensus        27 ~L~~ai~~~ri~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~~pCg~C~sC~~i~~g~hpDv~eId~a~~~~Id~iR~  106 (624)
T PRK14959         27 ILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKALNCETAPTGEPCNTCEQCRKVTQGMHVDVVEIDGASNRGIDDAKR  106 (624)
T ss_pred             HHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhccccCCCCCCCCcccHHHHHHhcCCCCceEEEecccccCHHHHHH
Confidence            4455565543 455 689999999999999988777663                        55554333445544443


Q ss_pred             HHHHHHHHhccCCCcEEEEEecCcccchhhhHHhh-hccC--CccccCcchhHHHHHHHhhcccccee
Q psy12736        492 DLKSLYNLLGVKNQATVFLFTAAEIVEEGYQVFTI-QLSR--GYNEASFKEDLKSLYNLLGVKNQATV  556 (567)
Q Consensus       492 dLk~~~~~ag~~~~~~vfl~~d~qi~~e~fle~in-lL~~--Gevp~Lf~~eE~~~i~~~~~~~~~~~  556 (567)
                       |+..+......++..++++++.+-....-.+.+- .|..  +.+.-++...+...|. ..++..+..
T Consensus       107 -L~~~~~~~p~~g~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaTt~~~kll-~TI~SRcq~  172 (624)
T PRK14959        107 -LKEAIGYAPMEGRYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTEPHKFP-VTIVSRCQH  172 (624)
T ss_pred             -HHHHHHhhhhcCCceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEecCChhhhh-HHHHhhhhc
Confidence             4444554556677788889887766543222222 2221  2333345445555554 444444433

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=96.09  E-value=0.035  Score=65.31  Aligned_cols=112  Identities=19%  Similarity=0.270  Sum_probs=74.4

Q ss_pred             cCcceEEecHHHHHHHHHHHHHHhcC-CCceEEeccCCCcHhHHHHHHHHH----------cCCeEEEEEecCC----CC
Q psy12736        421 KARLDLVLFEDAREHLTRIHRALRLS-RGHCMVVGVEGGGKRSLVRLASFA----------AGYQVFTIQLSRG----YN  485 (567)
Q Consensus       421 ~~~~~lvlf~dai~hi~ri~RvL~~p-~Gh~LLvG~~GsGr~sl~rlaa~i----------~~~~~~~i~~~k~----y~  485 (567)
                      ..+++=|+-.+..  |.|+..+|... ..|++|+|++|+||+++++..|..          .+..++.++++.-    -.
T Consensus       183 ~~~ld~~iGr~~e--i~~~i~~l~r~~~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~l~ag~~~  260 (852)
T TIGR03345       183 EGKIDPVLGRDDE--IRQMIDILLRRRQNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGLLQAGASV  260 (852)
T ss_pred             CCCCCcccCCHHH--HHHHHHHHhcCCcCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhhhhccccc
Confidence            4555555555553  55666665553 568999999999999999987753          3566776665431    12


Q ss_pred             hhhHHHHHHHHHHHhccCCCcEEEEEecCcccch-----hhhH---Hhh-hccCCccc
Q psy12736        486 EASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEE-----GYQV---FTI-QLSRGYNE  534 (567)
Q Consensus       486 ~~~f~edLk~~~~~ag~~~~~~vfl~~d~qi~~e-----~fle---~in-lL~~Gevp  534 (567)
                      ..+|.+.||.++..+...+.++++++++-+-...     .-.+   .+- .|..|++.
T Consensus       261 ~ge~e~~lk~ii~e~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp~l~~G~l~  318 (852)
T TIGR03345       261 KGEFENRLKSVIDEVKASPQPIILFIDEAHTLIGAGGQAGQGDAANLLKPALARGELR  318 (852)
T ss_pred             chHHHHHHHHHHHHHHhcCCCeEEEEeChHHhccCCCccccccHHHHhhHHhhCCCeE
Confidence            4688899999999875456778888876554421     1122   244 57788765

Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.

>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed

Probab=96.09  E-value=0.025  Score=65.14  Aligned_cols=81  Identities=14%  Similarity=0.224  Sum_probs=51.3

Q ss_pred             HHHHHHHhcC-CCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCChhhHHHHHHHHHHHhccCCCcEEEEEecCc
Q psy12736        437 TRIHRALRLS-RGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAE  515 (567)
Q Consensus       437 ~ri~RvL~~p-~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~q  515 (567)
                      ..+.|++... .+|++|.|++|+||+++++..+...+..+..++.+ ..+..+.++.++.+-......++..+++++|.+
T Consensus        41 ~~L~~~i~~~~~~slLL~GPpGtGKTTLA~aIA~~~~~~f~~lna~-~~~i~dir~~i~~a~~~l~~~~~~~IL~IDEIh  119 (725)
T PRK13341         41 RLLRRAIKADRVGSLILYGPPGVGKTTLARIIANHTRAHFSSLNAV-LAGVKDLRAEVDRAKERLERHGKRTILFIDEVH  119 (725)
T ss_pred             HHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHhcCcceeehhh-hhhhHHHHHHHHHHHHHhhhcCCceEEEEeChh
Confidence            3455556554 35999999999999999999998887777666433 123444444443332222223456778888765


Q ss_pred             ccc
Q psy12736        516 IVE  518 (567)
Q Consensus       516 i~~  518 (567)
                      -.+
T Consensus       120 ~Ln  122 (725)
T PRK13341        120 RFN  122 (725)
T ss_pred             hCC
Confidence            443

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.06  E-value=0.041  Score=60.44  Aligned_cols=107  Identities=14%  Similarity=0.150  Sum_probs=72.3

Q ss_pred             ceEEeccCCCcHhHHHHHHHHHc------------------------CCeEEEEEecCCCChhhHHHHHHHHHHHhccCC
Q psy12736        449 HCMVVGVEGGGKRSLVRLASFAA------------------------GYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKN  504 (567)
Q Consensus       449 h~LLvG~~GsGr~sl~rlaa~i~------------------------~~~~~~i~~~k~y~~~~f~edLk~~~~~ag~~~  504 (567)
                      +.||.|+.|+||+|++|+.|...                        ..++++++.+.+.+..+.|+-+.. .......+
T Consensus        37 a~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~Dv~eidaas~~~vddIR~Iie~-~~~~P~~~  115 (491)
T PRK14964         37 SILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHPDVIEIDAASNTSVDDIKVILEN-SCYLPISS  115 (491)
T ss_pred             eEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCCCEEEEecccCCCHHHHHHHHHH-HHhccccC
Confidence            47999999999999999988642                        235677776666677655543322 23334556


Q ss_pred             CcEEEEEecCcccchhhhHHhh-hccCCc-----cccCcchhHHHHHHHhhccccceeeeee
Q psy12736        505 QATVFLFTAAEIVEEGYQVFTI-QLSRGY-----NEASFKEDLKSLYNLLGVKNQATVFLFT  560 (567)
Q Consensus       505 ~~~vfl~~d~qi~~e~fle~in-lL~~Ge-----vp~Lf~~eE~~~i~~~~~~~~~~~~~~~  560 (567)
                      +.-|+++++.+....   +..| ||.+=|     +-=+|...|.++|. ..++..+..+-+.
T Consensus       116 ~~KVvIIDEah~Ls~---~A~NaLLK~LEePp~~v~fIlatte~~Kl~-~tI~SRc~~~~f~  173 (491)
T PRK14964        116 KFKVYIIDEVHMLSN---SAFNALLKTLEEPAPHVKFILATTEVKKIP-VTIISRCQRFDLQ  173 (491)
T ss_pred             CceEEEEeChHhCCH---HHHHHHHHHHhCCCCCeEEEEEeCChHHHH-HHHHHhheeeecc
Confidence            777888888766654   3456 665544     33467778888887 7788777766553

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=96.06  E-value=0.03  Score=58.32  Aligned_cols=32  Identities=31%  Similarity=0.395  Sum_probs=23.8

Q ss_pred             HHHHhcCC-CceEEeccCCCcHhHHHHHHHHHc
Q psy12736        440 HRALRLSR-GHCMVVGVEGGGKRSLVRLASFAA  471 (567)
Q Consensus       440 ~RvL~~p~-Gh~LLvG~~GsGr~sl~rlaa~i~  471 (567)
                      .+.++.++ +|+++.|++|+||+++++..+.-.
T Consensus        28 ~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l   60 (337)
T PRK12402         28 SRAVDSPNLPHLLVQGPPGSGKTAAVRALAREL   60 (337)
T ss_pred             HHHHhCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            33444443 489999999999999998766544

>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=96.04  E-value=0.004  Score=56.31  Aligned_cols=23  Identities=22%  Similarity=0.423  Sum_probs=20.5

Q ss_pred             eEEeccCCCCchhhHHHHHhccC
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      |+++||||||||++++.+.+.+.
T Consensus         2 ii~~G~pgsGKSt~a~~l~~~~~   24 (143)
T PF13671_consen    2 IILCGPPGSGKSTLAKRLAKRLG   24 (143)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHST
T ss_pred             EEEECCCCCCHHHHHHHHHHHCC
Confidence            68999999999999999987653

...

>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11

Probab=96.03  E-value=0.0063  Score=63.11  Aligned_cols=39  Identities=23%  Similarity=0.400  Sum_probs=33.6

Q ss_pred             HHHHHHHHHhcCCCeEEeccCCCCchhhHHHHHhccCCC
Q psy12736        182 LTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLSPD  220 (567)
Q Consensus       182 ~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~~~  220 (567)
                      ...+++..++.+.+++++||+|||||++++.++..+++.
T Consensus       133 ~~~~l~~~v~~~~~ili~G~tGsGKTTll~al~~~~~~~  171 (308)
T TIGR02788       133 IKEFLRLAIASRKNIIISGGTGSGKTTFLKSLVDEIPKD  171 (308)
T ss_pred             HHHHHHHHhhCCCEEEEECCCCCCHHHHHHHHHccCCcc
Confidence            456778889999999999999999999999888776543

The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=96.03  E-value=0.0055  Score=63.49  Aligned_cols=45  Identities=20%  Similarity=0.213  Sum_probs=34.9

Q ss_pred             cccccCcchhhHHHHHHHHHhcCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        171 DILVPTTDSTKLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       171 ~i~VpT~dtvR~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      +-++...++++.   +-..+..++|+||.||+|||||++++.+...+.
T Consensus        45 ~~y~f~~~~~~~---vl~~l~~~~~ilL~G~pGtGKTtla~~lA~~l~   89 (327)
T TIGR01650        45 PAYLFDKATTKA---ICAGFAYDRRVMVQGYHGTGKSTHIEQIAARLN   89 (327)
T ss_pred             CCccCCHHHHHH---HHHHHhcCCcEEEEeCCCChHHHHHHHHHHHHC
Confidence            346777777664   333446689999999999999999999887664

This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.

>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily

Probab=96.02  E-value=0.0087  Score=60.33  Aligned_cols=48  Identities=21%  Similarity=0.362  Sum_probs=38.8

Q ss_pred             cccccCcchhhHHHHHHHHHhcCC-CeEEeccCCCCchhhHHHHHhccC
Q psy12736        171 DILVPTTDSTKLTWILSLMNEIKR-PCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       171 ~i~VpT~dtvR~~~ll~~ll~~~~-pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      +-+.||....+....++..+..+. .++++||+|+|||++++.+++.+.
T Consensus        20 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~G~~G~GKTtl~~~l~~~l~   68 (269)
T TIGR03015        20 DFFYPSKGHKRAMAYLEYGLSQREGFILITGEVGAGKTTLIRNLLKRLD   68 (269)
T ss_pred             HHhCCCHHHHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHHhcC
Confidence            456778887777777777777655 588999999999999999988764

Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.00  E-value=0.027  Score=63.21  Aligned_cols=109  Identities=11%  Similarity=0.113  Sum_probs=74.6

Q ss_pred             CCce-EEeccCCCcHhHHHHHHHHHcCC-----------------------------eEEEEEecCCCChhhHHHHHHHH
Q psy12736        447 RGHC-MVVGVEGGGKRSLVRLASFAAGY-----------------------------QVFTIQLSRGYNEASFKEDLKSL  496 (567)
Q Consensus       447 ~Gh~-LLvG~~GsGr~sl~rlaa~i~~~-----------------------------~~~~i~~~k~y~~~~f~edLk~~  496 (567)
                      -.|+ ||.|+.|+||+++++.-|...+|                             ++++|+-.++-+.++.++-++.+
T Consensus        37 LpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~~~PCG~C~sC~~I~aG~hpDviEIdAas~~gVDdIReLie~~  116 (700)
T PRK12323         37 LHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGITAQPCGQCRACTEIDAGRFVDYIEMDAASNRGVDEMAQLLDKA  116 (700)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCCCCCCcccHHHHHHHcCCCCcceEecccccCCHHHHHHHHHHH
Confidence            3577 89999999999999988776655                             45566655556676666544444


Q ss_pred             HHHhccCCCcEEEEEecCcccchhhhHHhh-hccC-----CccccCcchhHHHHHHHhhccccceeeeee
Q psy12736        497 YNLLGVKNQATVFLFTAAEIVEEGYQVFTI-QLSR-----GYNEASFKEDLKSLYNLLGVKNQATVFLFT  560 (567)
Q Consensus       497 ~~~ag~~~~~~vfl~~d~qi~~e~fle~in-lL~~-----Gevp~Lf~~eE~~~i~~~~~~~~~~~~~~~  560 (567)
                      ... ...++.-|+++++.+..+.   +..| ||.+     +.+.=++...+..+|. ..++..+..+-|.
T Consensus       117 ~~~-P~~gr~KViIIDEah~Ls~---~AaNALLKTLEEPP~~v~FILaTtep~kLl-pTIrSRCq~f~f~  181 (700)
T PRK12323        117 VYA-PTAGRFKVYMIDEVHMLTN---HAFNAMLKTLEEPPEHVKFILATTDPQKIP-VTVLSRCLQFNLK  181 (700)
T ss_pred             Hhc-hhcCCceEEEEEChHhcCH---HHHHHHHHhhccCCCCceEEEEeCChHhhh-hHHHHHHHhcccC
Confidence            333 2456677888888777665   3457 6664     3444577778888886 7787777766553

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=95.96  E-value=0.0038  Score=55.46  Aligned_cols=28  Identities=25%  Similarity=0.462  Sum_probs=20.4

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      +.+..++++||+|+|||++++++++.+.
T Consensus         2 ~~~~~~~i~G~~G~GKT~~~~~~~~~~~   29 (131)
T PF13401_consen    2 QSQRILVISGPPGSGKTTLIKRLARQLN   29 (131)
T ss_dssp             -----EEEEE-TTSSHHHHHHHHHHHHH
T ss_pred             CCCcccEEEcCCCCCHHHHHHHHHHHhH
Confidence            4578899999999999999999998764

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA

Probab=95.95  E-value=0.021  Score=66.34  Aligned_cols=77  Identities=14%  Similarity=0.300  Sum_probs=57.1

Q ss_pred             HHHHHHhcC-CCceEEeccCCCcHhHHHHHHHHHc----------CCeEEEEEecCCC----ChhhHHHHHHHHHHHhcc
Q psy12736        438 RIHRALRLS-RGHCMVVGVEGGGKRSLVRLASFAA----------GYQVFTIQLSRGY----NEASFKEDLKSLYNLLGV  502 (567)
Q Consensus       438 ri~RvL~~p-~Gh~LLvG~~GsGr~sl~rlaa~i~----------~~~~~~i~~~k~y----~~~~f~edLk~~~~~ag~  502 (567)
                      |+.++|... ..|+||+|++|+||+++++..|...          ++.+++++++.-.    -..+|.+.||+++..+.-
T Consensus       193 ~~~~~L~~~~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~~~~l~a~~~~~g~~e~~l~~i~~~~~~  272 (731)
T TIGR02639       193 RTIQVLCRRKKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLDMGSLLAGTKYRGDFEERLKAVVSEIEK  272 (731)
T ss_pred             HHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEecHHHHhhhccccchHHHHHHHHHHHHhc
Confidence            566666553 5689999999999999999887754          7888888754322    124788999999988743


Q ss_pred             CCCcEEEEEecCc
Q psy12736        503 KNQATVFLFTAAE  515 (567)
Q Consensus       503 ~~~~~vfl~~d~q  515 (567)
                       +.++++++++-+
T Consensus       273 -~~~~ILfiDEih  284 (731)
T TIGR02639       273 -EPNAILFIDEIH  284 (731)
T ss_pred             -cCCeEEEEecHH
Confidence             357777777655

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.94  E-value=0.033  Score=61.75  Aligned_cols=111  Identities=14%  Similarity=0.175  Sum_probs=68.8

Q ss_pred             CCce-EEeccCCCcHhHHHHHHHHHcCCe------------------------EEEEEecCCCChhhHHHHHHHHHHHhc
Q psy12736        447 RGHC-MVVGVEGGGKRSLVRLASFAAGYQ------------------------VFTIQLSRGYNEASFKEDLKSLYNLLG  501 (567)
Q Consensus       447 ~Gh~-LLvG~~GsGr~sl~rlaa~i~~~~------------------------~~~i~~~k~y~~~~f~edLk~~~~~ag  501 (567)
                      -.|+ |+.|+.|+||+|++|..|...+|+                        ++++....+.+..++|+-+.. +..+.
T Consensus        37 l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~g~~~d~~eidaas~~~v~~iR~l~~~-~~~~p  115 (509)
T PRK14958         37 LHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENCREIDEGRFPDLFEVDAASRTKVEDTRELLDN-IPYAP  115 (509)
T ss_pred             CCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHHHhcCCCceEEEEcccccCCHHHHHHHHHH-Hhhcc
Confidence            3576 899999999999999988876653                        667766666777777764443 33344


Q ss_pred             cCCCcEEEEEecCcccchhhhHHhh-hccC--CccccCcchhHHHHHHHhhccccceeeee
Q psy12736        502 VKNQATVFLFTAAEIVEEGYQVFTI-QLSR--GYNEASFKEDLKSLYNLLGVKNQATVFLF  559 (567)
Q Consensus       502 ~~~~~~vfl~~d~qi~~e~fle~in-lL~~--Gevp~Lf~~eE~~~i~~~~~~~~~~~~~~  559 (567)
                      ..++.-|+++++.+.....-.+.+- .|..  +.+.=+|...+..++. ..++..+..+-+
T Consensus       116 ~~~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~fIlattd~~kl~-~tI~SRc~~~~f  175 (509)
T PRK14958        116 TKGRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFILATTDHHKLP-VTVLSRCLQFHL  175 (509)
T ss_pred             ccCCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEEEEEECChHhch-HHHHHHhhhhhc
Confidence            5667778888888776653322222 2221  2233344445555654 556555554433

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=95.91  E-value=0.05  Score=62.18  Aligned_cols=116  Identities=12%  Similarity=0.171  Sum_probs=68.8

Q ss_pred             HHHHHhcC-CCce-EEeccCCCcHhHHHHHHHHHcCCe---------------------EEEEEecCCCChhhHHHHHHH
Q psy12736        439 IHRALRLS-RGHC-MVVGVEGGGKRSLVRLASFAAGYQ---------------------VFTIQLSRGYNEASFKEDLKS  495 (567)
Q Consensus       439 i~RvL~~p-~Gh~-LLvG~~GsGr~sl~rlaa~i~~~~---------------------~~~i~~~k~y~~~~f~edLk~  495 (567)
                      +.+.+... -.|+ |+.|+.|+||++++|..|....|.                     ++++.-..+.+..+.++ |..
T Consensus        30 L~~aI~~~rl~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~~C~~~~~~~~Dvieidaasn~~vd~IRe-Lie  108 (725)
T PRK07133         30 LKNIIKSNKISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQECIENVNNSLDIIEMDAASNNGVDEIRE-LIE  108 (725)
T ss_pred             HHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchhHHHHhhcCCCcEEEEeccccCCHHHHHH-HHH
Confidence            44555553 3677 899999999999999887665442                     23333222234444333 334


Q ss_pred             HHHHhccCCCcEEEEEecCcccchhhhHHhh-hccCC-----ccccCcchhHHHHHHHhhccccceeeee
Q psy12736        496 LYNLLGVKNQATVFLFTAAEIVEEGYQVFTI-QLSRG-----YNEASFKEDLKSLYNLLGVKNQATVFLF  559 (567)
Q Consensus       496 ~~~~ag~~~~~~vfl~~d~qi~~e~fle~in-lL~~G-----evp~Lf~~eE~~~i~~~~~~~~~~~~~~  559 (567)
                      .+......++.-|+++.+.+....+   ..| ||..=     .+-=++...+.+.|. ..++..+..+-+
T Consensus       109 ~~~~~P~~g~~KV~IIDEa~~LT~~---A~NALLKtLEEPP~~tifILaTte~~KLl-~TI~SRcq~ieF  174 (725)
T PRK07133        109 NVKNLPTQSKYKIYIIDEVHMLSKS---AFNALLKTLEEPPKHVIFILATTEVHKIP-LTILSRVQRFNF  174 (725)
T ss_pred             HHHhchhcCCCEEEEEEChhhCCHH---HHHHHHHHhhcCCCceEEEEEcCChhhhh-HHHHhhceeEEc
Confidence            4444455677778889887766543   455 55322     222355566777776 666666655544

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.91  E-value=0.036  Score=62.57  Aligned_cols=116  Identities=14%  Similarity=0.154  Sum_probs=72.6

Q ss_pred             HHHHHhcCC-Cce-EEeccCCCcHhHHHHHHHHHcCC-----------------------------eEEEEEecCCCChh
Q psy12736        439 IHRALRLSR-GHC-MVVGVEGGGKRSLVRLASFAAGY-----------------------------QVFTIQLSRGYNEA  487 (567)
Q Consensus       439 i~RvL~~p~-Gh~-LLvG~~GsGr~sl~rlaa~i~~~-----------------------------~~~~i~~~k~y~~~  487 (567)
                      +.+.+...+ .|+ ||.|+.|+||++++|..|...+|                             ++++++-..+.+..
T Consensus        28 L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~~pCg~C~~C~~i~~g~h~D~~eldaas~~~Vd  107 (618)
T PRK14951         28 LTNALTQQRLHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITATPCGVCQACRDIDSGRFVDYTELDAASNRGVD  107 (618)
T ss_pred             HHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCCCCCCccHHHHHHHcCCCCceeecCcccccCHH
Confidence            344455443 477 89999999999999998776654                             34555544456665


Q ss_pred             hHHHHHHHHHHHhccCCCcEEEEEecCcccchhhhHHhh-hccCCccc-----cCcchhHHHHHHHhhccccceeeee
Q psy12736        488 SFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEGYQVFTI-QLSRGYNE-----ASFKEDLKSLYNLLGVKNQATVFLF  559 (567)
Q Consensus       488 ~f~edLk~~~~~ag~~~~~~vfl~~d~qi~~e~fle~in-lL~~Gevp-----~Lf~~eE~~~i~~~~~~~~~~~~~~  559 (567)
                      +.++-+..+ ......++--|+++++.+....   +..| ||.+-|-|     =+|...|..+|. ..++..+.++-+
T Consensus       108 ~iReli~~~-~~~p~~g~~KV~IIDEvh~Ls~---~a~NaLLKtLEEPP~~~~fIL~Ttd~~kil-~TIlSRc~~~~f  180 (618)
T PRK14951        108 EVQQLLEQA-VYKPVQGRFKVFMIDEVHMLTN---TAFNAMLKTLEEPPEYLKFVLATTDPQKVP-VTVLSRCLQFNL  180 (618)
T ss_pred             HHHHHHHHH-HhCcccCCceEEEEEChhhCCH---HHHHHHHHhcccCCCCeEEEEEECCchhhh-HHHHHhceeeec
Confidence            555544432 2233456667888998877665   3466 66654432     245555666665 566666666554

>CHL00176 ftsH cell division protein; Validated

Probab=95.90  E-value=0.033  Score=63.31  Aligned_cols=65  Identities=18%  Similarity=0.289  Sum_probs=47.3

Q ss_pred             CceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCC---C-ChhhHHHHHHHHHHHhccCCCcEEEEEecCc
Q psy12736        448 GHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRG---Y-NEASFKEDLKSLYNLLGVKNQATVFLFTAAE  515 (567)
Q Consensus       448 Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~---y-~~~~f~edLk~~~~~ag~~~~~~vfl~~d~q  515 (567)
                      .++||.|++|+||++++|..|.-++..++.+..+.-   | +..  ...++.++.+| ..+.|.+++++|-+
T Consensus       217 ~gVLL~GPpGTGKT~LAralA~e~~~p~i~is~s~f~~~~~g~~--~~~vr~lF~~A-~~~~P~ILfIDEID  285 (638)
T CHL00176        217 KGVLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSEFVEMFVGVG--AARVRDLFKKA-KENSPCIVFIDEID  285 (638)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhCCCeeeccHHHHHHHhhhhh--HHHHHHHHHHH-hcCCCcEEEEecch
Confidence            359999999999999999999999998888764321   0 110  13456667666 35778888888764

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=95.88  E-value=0.0096  Score=53.75  Aligned_cols=43  Identities=19%  Similarity=0.245  Sum_probs=35.8

Q ss_pred             chhhHHHHHHHHHhcCCCeEEeccCCCCchhhHHHHHhccCCC
Q psy12736        178 DSTKLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLSPD  220 (567)
Q Consensus       178 dtvR~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~~~  220 (567)
                      +|.+...-+...+..+.-++|.|+.|+|||++++.+.+.+...
T Consensus         7 ~t~~l~~~l~~~l~~~~~i~l~G~lGaGKTtl~~~l~~~lg~~   49 (133)
T TIGR00150         7 AMDKFGKAFAKPLDFGTVVLLKGDLGAGKTTLVQGLLQGLGIQ   49 (133)
T ss_pred             HHHHHHHHHHHhCCCCCEEEEEcCCCCCHHHHHHHHHHHcCCC
Confidence            5566666677777889999999999999999999999887543

Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.

>PF13173 AAA_14: AAA domain

Probab=95.87  E-value=0.0065  Score=54.29  Aligned_cols=27  Identities=22%  Similarity=0.377  Sum_probs=24.3

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      |++.+++.||.|||||++++++++.+.
T Consensus         1 n~~~~~l~G~R~vGKTtll~~~~~~~~   27 (128)
T PF13173_consen    1 NRKIIILTGPRGVGKTTLLKQLAKDLL   27 (128)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHhc
Confidence            578899999999999999999998764

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=95.84  E-value=0.0094  Score=58.41  Aligned_cols=28  Identities=14%  Similarity=0.173  Sum_probs=24.1

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ...+.+++|+||+|||||++++.+.+..
T Consensus        35 ~~~~~~lll~G~~G~GKT~la~~~~~~~   62 (226)
T TIGR03420        35 GKGDRFLYLWGESGSGKSHLLQAACAAA   62 (226)
T ss_pred             cCCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            3567899999999999999999988764

Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=95.81  E-value=0.022  Score=61.35  Aligned_cols=87  Identities=16%  Similarity=0.250  Sum_probs=52.6

Q ss_pred             HHHHHHHHHHHHH------hcCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecC----CCChhhHHHHHHHHHHHh
Q psy12736        431 DAREHLTRIHRAL------RLSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSR----GYNEASFKEDLKSLYNLL  500 (567)
Q Consensus       431 dai~hi~ri~RvL------~~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k----~y~~~~f~edLk~~~~~a  500 (567)
                      .+..|..|+.-..      ..+.+|+||+|++|+||++++|..|...+..++.+..+.    +|--.+-..-+..++..+
T Consensus        86 av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l~~pf~~id~~~l~~~gyvG~d~e~~l~~l~~~~  165 (412)
T PRK05342         86 AVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARILDVPFAIADATTLTEAGYVGEDVENILLKLLQAA  165 (412)
T ss_pred             HHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHhCCCceecchhhcccCCcccchHHHHHHHHHHhc
Confidence            3345666663222      235799999999999999999999988888888776432    332222222334443333


Q ss_pred             cc---CCCcEEEEEecCccc
Q psy12736        501 GV---KNQATVFLFTAAEIV  517 (567)
Q Consensus       501 g~---~~~~~vfl~~d~qi~  517 (567)
                      ..   +..+-++++++-+-.
T Consensus       166 ~~~~~~a~~gIi~iDEIdkl  185 (412)
T PRK05342        166 DYDVEKAQRGIVYIDEIDKI  185 (412)
T ss_pred             cccHHHcCCcEEEEechhhh
Confidence            21   234556666664443

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=95.79  E-value=0.046  Score=57.14  Aligned_cols=68  Identities=16%  Similarity=0.202  Sum_probs=47.6

Q ss_pred             cCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCChhhHHHHHHHHHHHhccCCCcEEEEEecCcccch
Q psy12736        445 LSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEE  519 (567)
Q Consensus       445 ~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~qi~~e  519 (567)
                      .|.+|+++.|++|+||+++++..|...+..+..+.....    +-..|+..++...+   .+.+++++|-+-...
T Consensus        49 ~~~~~~ll~GppG~GKT~la~~ia~~l~~~~~~~~~~~~----~~~~~l~~~l~~l~---~~~vl~IDEi~~l~~  116 (328)
T PRK00080         49 EALDHVLLYGPPGLGKTTLANIIANEMGVNIRITSGPAL----EKPGDLAAILTNLE---EGDVLFIDEIHRLSP  116 (328)
T ss_pred             CCCCcEEEECCCCccHHHHHHHHHHHhCCCeEEEecccc----cChHHHHHHHHhcc---cCCEEEEecHhhcch
Confidence            456799999999999999999999998887765543211    12246666665543   456778888665543

>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX

Probab=95.77  E-value=0.011  Score=57.25  Aligned_cols=36  Identities=22%  Similarity=0.281  Sum_probs=24.4

Q ss_pred             HHHHHHHhcCCCeEEeccCCCCchhhHHHHHhccCC
Q psy12736        184 WILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       184 ~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      .-+..-...++++|+.||+|||||++++.+-.-+++
T Consensus        13 rAL~iAAaG~h~lLl~GppGtGKTmlA~~l~~lLP~   48 (206)
T PF01078_consen   13 RALEIAAAGGHHLLLIGPPGTGKTMLARRLPSLLPP   48 (206)
T ss_dssp             HHHHHHHHCC--EEEES-CCCTHHHHHHHHHHCS--
T ss_pred             HHHHHHHcCCCCeEEECCCCCCHHHHHHHHHHhCCC
Confidence            334445567999999999999999999987665554

This is the first unique step in the synthesis of (bacterio)chlorophyll. As a result, it is thought that Mg-chelatase has an important role in channeling intermediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weights between 38-42 kDa.; GO: 0016851 magnesium chelatase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process; PDB: 2X31_J 1G8P_A 3K1J_B.

>PF13245 AAA_19: Part of AAA domain

Probab=95.73  E-value=0.0091  Score=48.47  Aligned_cols=25  Identities=36%  Similarity=0.494  Sum_probs=19.1

Q ss_pred             CCCeE-EeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCI-VVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvL-l~GptGtGKT~~i~~~l~~l  217 (567)
                      +.+++ +.||||||||.++.+.+..+
T Consensus         9 ~~~~~vv~g~pGtGKT~~~~~~i~~l   34 (76)
T PF13245_consen    9 GSPLFVVQGPPGTGKTTTLAARIAEL   34 (76)
T ss_pred             hCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            45555 49999999998887776654

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.71  E-value=0.064  Score=60.63  Aligned_cols=108  Identities=13%  Similarity=0.123  Sum_probs=67.0

Q ss_pred             CCce-EEeccCCCcHhHHHHHHHHHcCC-------------------------eEEEEEecCCCChhhHHHHHHHHHHHh
Q psy12736        447 RGHC-MVVGVEGGGKRSLVRLASFAAGY-------------------------QVFTIQLSRGYNEASFKEDLKSLYNLL  500 (567)
Q Consensus       447 ~Gh~-LLvG~~GsGr~sl~rlaa~i~~~-------------------------~~~~i~~~k~y~~~~f~edLk~~~~~a  500 (567)
                      .+|+ ||.|+.|+||+++++..|...+|                         ++++++.+...+..+.++ +...+...
T Consensus        37 i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~~~~~c~~c~~c~~i~~~~~~d~~~i~~~~~~~vd~ir~-ii~~~~~~  115 (585)
T PRK14950         37 VAHAYLFTGPRGVGKTSTARILAKAVNCTTNDPKGRPCGTCEMCRAIAEGSAVDVIEMDAASHTSVDDARE-IIERVQFR  115 (585)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccCHHHHHHhcCCCCeEEEEeccccCCHHHHHH-HHHHHhhC
Confidence            4676 89999999999999987755432                         244454444556555443 33333333


Q ss_pred             ccCCCcEEEEEecCcccchhhhHHhh-hccCCccc-----cCcchhHHHHHHHhhccccceeeee
Q psy12736        501 GVKNQATVFLFTAAEIVEEGYQVFTI-QLSRGYNE-----ASFKEDLKSLYNLLGVKNQATVFLF  559 (567)
Q Consensus       501 g~~~~~~vfl~~d~qi~~e~fle~in-lL~~Gevp-----~Lf~~eE~~~i~~~~~~~~~~~~~~  559 (567)
                      ...+..-|+++++.+....   +..| ||..-|-|     =++..++.+.+. ..++..+..+.+
T Consensus       116 p~~~~~kVvIIDEa~~L~~---~a~naLLk~LEepp~~tv~Il~t~~~~kll-~tI~SR~~~i~f  176 (585)
T PRK14950        116 PALARYKVYIIDEVHMLST---AAFNALLKTLEEPPPHAIFILATTEVHKVP-ATILSRCQRFDF  176 (585)
T ss_pred             cccCCeEEEEEeChHhCCH---HHHHHHHHHHhcCCCCeEEEEEeCChhhhh-HHHHhccceeeC
Confidence            3456677888888765554   3455 55433322     356667788876 677777666655

>PRK13894 conjugal transfer ATPase TrbB; Provisional

Probab=95.68  E-value=0.013  Score=61.07  Aligned_cols=36  Identities=19%  Similarity=0.290  Sum_probs=30.9

Q ss_pred             HHHHHHHHHhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        182 LTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       182 ~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ...++...++.+.+++++|+||||||++++.++...
T Consensus       137 ~~~~L~~~v~~~~~ilI~G~tGSGKTTll~aL~~~~  172 (319)
T PRK13894        137 QREAIIAAVRAHRNILVIGGTGSGKTTLVNAIINEM  172 (319)
T ss_pred             HHHHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHhh
Confidence            345677788899999999999999999999988753

>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed

Probab=95.63  E-value=0.019  Score=66.12  Aligned_cols=88  Identities=9%  Similarity=0.134  Sum_probs=53.8

Q ss_pred             HHHHHHhcC--CCeEEeccCCCCchhhHHHHHhccCCCcceeee-------------c-----CCCCCceEEEEe-ecc-
Q psy12736        185 ILSLMNEIK--RPCIVVGDTGTSKTATMMNFLRSLSPDKYLVIA-------------E-----LPPTPAKFHYIF-NLR-  242 (567)
Q Consensus       185 ll~~ll~~~--~pvLl~GptGtGKT~~i~~~l~~l~~~~~~~~~-------------e-----gPp~gkk~v~iF-Nl~-  242 (567)
                      .+..++.++  .+++|+||+|||||++++.+-+... ..+..++             +     .+..+++.++++ ++. 
T Consensus        42 ~L~~~i~~~~~~slLL~GPpGtGKTTLA~aIA~~~~-~~f~~lna~~~~i~dir~~i~~a~~~l~~~~~~~IL~IDEIh~  120 (725)
T PRK13341         42 LLRRAIKADRVGSLILYGPPGVGKTTLARIIANHTR-AHFSSLNAVLAGVKDLRAEVDRAKERLERHGKRTILFIDEVHR  120 (725)
T ss_pred             HHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHhc-CcceeehhhhhhhHHHHHHHHHHHHHhhhcCCceEEEEeChhh
Confidence            344444444  3899999999999999988766543 2333332             0     122344444133 110 


Q ss_pred             --------------------------c----h-hhhhhccccccccccCCHHHHHHHHHHhhh
Q psy12736        243 --------------------------D----L-SRIIQGLTATEKIIFNTKEMFVRAWRNEFT  274 (567)
Q Consensus       243 --------------------------D----~-~R~~rg~f~~~~~~~~s~~sl~~I~~~il~  274 (567)
                                                +    + .++.+ +..++.++.++.+++..|....+.
T Consensus       121 Ln~~qQdaLL~~lE~g~IiLI~aTTenp~~~l~~aL~S-R~~v~~l~pLs~edi~~IL~~~l~  182 (725)
T PRK13341        121 FNKAQQDALLPWVENGTITLIGATTENPYFEVNKALVS-RSRLFRLKSLSDEDLHQLLKRALQ  182 (725)
T ss_pred             CCHHHHHHHHHHhcCceEEEEEecCCChHhhhhhHhhc-cccceecCCCCHHHHHHHHHHHHH
Confidence                                      0    0 04444 566788889999999999888775

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=95.62  E-value=0.034  Score=48.66  Aligned_cols=36  Identities=28%  Similarity=0.336  Sum_probs=29.1

Q ss_pred             CCceEEeccCCCcHhHHHHHHHHHcCCe---EEEEEecC
Q psy12736        447 RGHCMVVGVEGGGKRSLVRLASFAAGYQ---VFTIQLSR  482 (567)
Q Consensus       447 ~Gh~LLvG~~GsGr~sl~rlaa~i~~~~---~~~i~~~k  482 (567)
                      +++++|+|++||||+++++..|......   ++.+....
T Consensus         2 ~~~~~l~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~~~   40 (148)
T smart00382        2 GEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGED   40 (148)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHhccCCCCCCEEEECCEE
Confidence            5789999999999999999877776664   77775554

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.

>CHL00195 ycf46 Ycf46; Provisional

Probab=95.61  E-value=0.046  Score=60.14  Aligned_cols=67  Identities=10%  Similarity=0.270  Sum_probs=51.3

Q ss_pred             hcCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCC----ChhhHHHHHHHHHHHhccCCCcEEEEEecC
Q psy12736        444 RLSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGY----NEASFKEDLKSLYNLLGVKNQATVFLFTAA  514 (567)
Q Consensus       444 ~~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y----~~~~f~edLk~~~~~ag~~~~~~vfl~~d~  514 (567)
                      ..|+ .+||.|++|+||+.++|..|.-.+..++.+..++-+    +.+  ...+++++..|. ...|++++++|-
T Consensus       257 ~~pk-GILL~GPpGTGKTllAkaiA~e~~~~~~~l~~~~l~~~~vGes--e~~l~~~f~~A~-~~~P~IL~IDEI  327 (489)
T CHL00195        257 PTPR-GLLLVGIQGTGKSLTAKAIANDWQLPLLRLDVGKLFGGIVGES--ESRMRQMIRIAE-ALSPCILWIDEI  327 (489)
T ss_pred             CCCc-eEEEECCCCCcHHHHHHHHHHHhCCCEEEEEhHHhcccccChH--HHHHHHHHHHHH-hcCCcEEEehhh
Confidence            3444 489999999999999999999999999999865432    333  346788887774 346888888764

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=95.60  E-value=0.008  Score=57.23  Aligned_cols=29  Identities=21%  Similarity=0.540  Sum_probs=25.8

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhccCCC
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSLSPD  220 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l~~~  220 (567)
                      .++|++|+||+|+|||++++.+++..+..
T Consensus         1 ~~r~ivl~Gpsg~GK~~l~~~L~~~~~~~   29 (183)
T PF00625_consen    1 KRRPIVLVGPSGSGKSTLAKRLIQEFPDK   29 (183)
T ss_dssp             SSSEEEEESSTTSSHHHHHHHHHHHSTTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhcccc
Confidence            37899999999999999999999987653

7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....

>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB

Probab=95.59  E-value=0.007  Score=63.99  Aligned_cols=35  Identities=20%  Similarity=0.391  Sum_probs=29.1

Q ss_pred             HHHHHHHhcCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        184 WILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       184 ~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .+.+.+...+--|+++||||||||++++.+++.+.
T Consensus       125 ~~~~~~~~~~glilI~GpTGSGKTTtL~aLl~~i~  159 (358)
T TIGR02524       125 AIIDAIAPQEGIVFITGATGSGKSTLLAAIIRELA  159 (358)
T ss_pred             HHHHHHhccCCEEEEECCCCCCHHHHHHHHHHHHh
Confidence            35666666788999999999999999999887653

Members of this protein family are the DotB component of Dot/Icm secretion systems, as found in obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii. While this system resembles type IV secretion systems and has been called a form of type IV, the liturature now seems to favor calling this the Dot/Icm system. This family is most closely related to TraJ proteins of plasmid transfer, rather than to proteins of other type IV secretion systems.

>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=95.57  E-value=0.0071  Score=53.06  Aligned_cols=22  Identities=23%  Similarity=0.415  Sum_probs=19.9

Q ss_pred             eEEeccCCCCchhhHHHHHhcc
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ++++|++|||||++++.+.+.+
T Consensus         2 I~I~G~~gsGKST~a~~La~~~   23 (121)
T PF13207_consen    2 IIISGPPGSGKSTLAKELAERL   23 (121)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6899999999999999988765

...

>CHL00095 clpC Clp protease ATP binding subunit

Probab=95.56  E-value=0.051  Score=63.93  Aligned_cols=107  Identities=18%  Similarity=0.290  Sum_probs=69.1

Q ss_pred             HHHHHHHHhc-CCCceEEeccCCCcHhHHHHHHHHHc----------CCeEEEEEecC-----CCChhhHHHHHHHHHHH
Q psy12736        436 LTRIHRALRL-SRGHCMVVGVEGGGKRSLVRLASFAA----------GYQVFTIQLSR-----GYNEASFKEDLKSLYNL  499 (567)
Q Consensus       436 i~ri~RvL~~-p~Gh~LLvG~~GsGr~sl~rlaa~i~----------~~~~~~i~~~k-----~y~~~~f~edLk~~~~~  499 (567)
                      |.|+..+|.. ...|++|+|++|+||+++++-.|.-.          +..+++++.+.     .| ..+|.+-||.++..
T Consensus       188 i~~~~~~L~r~~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l~~~~l~ag~~~-~ge~e~rl~~i~~~  266 (821)
T CHL00095        188 IERVIQILGRRTKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITLDIGLLLAGTKY-RGEFEERLKRIFDE  266 (821)
T ss_pred             HHHHHHHHcccccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeHHHHhccCCC-ccHHHHHHHHHHHH
Confidence            4455555554 45699999999999999998666532          57888887542     33 45899999999987


Q ss_pred             hccCCCcEEEEEecCccc-c----h---hhhHHhh-hccCCccc--cCcchhHHHH
Q psy12736        500 LGVKNQATVFLFTAAEIV-E----E---GYQVFTI-QLSRGYNE--ASFKEDLKSL  544 (567)
Q Consensus       500 ag~~~~~~vfl~~d~qi~-~----e---~fle~in-lL~~Gevp--~Lf~~eE~~~  544 (567)
                      + .+++++++++++-+.. .    +   .....+. .|..|++.  +.=+.+|+..
T Consensus       267 ~-~~~~~~ILfiDEih~l~~~g~~~g~~~~a~lLkp~l~rg~l~~IgaTt~~ey~~  321 (821)
T CHL00095        267 I-QENNNIILVIDEVHTLIGAGAAEGAIDAANILKPALARGELQCIGATTLDEYRK  321 (821)
T ss_pred             H-HhcCCeEEEEecHHHHhcCCCCCCcccHHHHhHHHHhCCCcEEEEeCCHHHHHH
Confidence            7 3456778887764321 1    1   1122233 46677765  3334555544

>PLN03025 replication factor C subunit; Provisional

Probab=95.55  E-value=0.0085  Score=62.39  Aligned_cols=32  Identities=25%  Similarity=0.408  Sum_probs=24.9

Q ss_pred             HHHHHhcC--CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        186 LSLMNEIK--RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       186 l~~ll~~~--~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +..++.++  .|+||+||+|||||+++..+.+.+
T Consensus        25 L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l   58 (319)
T PLN03025         25 LQVIARDGNMPNLILSGPPGTGKTTSILALAHEL   58 (319)
T ss_pred             HHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            33444443  579999999999999999888765

>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional

Probab=95.54  E-value=0.11  Score=56.09  Aligned_cols=101  Identities=15%  Similarity=0.251  Sum_probs=62.4

Q ss_pred             EEecHHHHHHHHHHHHHHhcCCCceEEeccCCCcHhHHHHHHHHHcCC-----eEEEEEecCCCChhhHHHH--------
Q psy12736        426 LVLFEDAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVRLASFAAGY-----QVFTIQLSRGYNEASFKED--------  492 (567)
Q Consensus       426 lvlf~dai~hi~ri~RvL~~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~-----~~~~i~~~k~y~~~~f~ed--------  492 (567)
                      +++..+.++.+.+   .|. .++|++|.|++|+||+.+++..|.....     .+..++++..|+..+|-+.        
T Consensus       177 ~~i~e~~le~l~~---~L~-~~~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySYeDFI~G~rP~~vgy  252 (459)
T PRK11331        177 LFIPETTIETILK---RLT-IKKNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSYEDFIQGYRPNGVGF  252 (459)
T ss_pred             ccCCHHHHHHHHH---HHh-cCCCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccHHHHhcccCCCCCCe
Confidence            4555566666543   343 3789999999999999998866654422     2334566666666555422        


Q ss_pred             ------HHHHHHHhccC-CCcEEEEEecCcccc-hh-hhHHhhhccC
Q psy12736        493 ------LKSLYNLLGVK-NQATVFLFTAAEIVE-EG-YQVFTIQLSR  530 (567)
Q Consensus       493 ------Lk~~~~~ag~~-~~~~vfl~~d~qi~~-e~-fle~inlL~~  530 (567)
                            +++++.+|-.+ +++.++++++-+-.+ +. |=|.+.+|..
T Consensus       253 ~~~~G~f~~~~~~A~~~p~~~~vliIDEINRani~kiFGel~~lLE~  299 (459)
T PRK11331        253 RRKDGIFYNFCQQAKEQPEKKYVFIIDEINRANLSKVFGEVMMLMEH  299 (459)
T ss_pred             EecCchHHHHHHHHHhcccCCcEEEEehhhccCHHHhhhhhhhhccc
Confidence                  34556666433 478999998876665 22 3344444443

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=95.53  E-value=0.045  Score=62.08  Aligned_cols=77  Identities=14%  Similarity=0.354  Sum_probs=47.8

Q ss_pred             HHHHHhcCC-Cce-EEeccCCCcHhHHHHHHHHHcCC------------------------eEEEEEecCCCChhhHHHH
Q psy12736        439 IHRALRLSR-GHC-MVVGVEGGGKRSLVRLASFAAGY------------------------QVFTIQLSRGYNEASFKED  492 (567)
Q Consensus       439 i~RvL~~p~-Gh~-LLvG~~GsGr~sl~rlaa~i~~~------------------------~~~~i~~~k~y~~~~f~ed  492 (567)
                      +.+.+...+ +|+ ||.|+.|+||+++++..|...+|                        ++++++...+.+.    ++
T Consensus        28 L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~~~pCg~C~sCr~i~~g~~~DvlEidaAs~~gV----d~  103 (709)
T PRK08691         28 LQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGVCQSCTQIDAGRYVDLLEIDAASNTGI----DN  103 (709)
T ss_pred             HHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcccCCCCCCCCcccHHHHHHhccCccceEEEeccccCCH----HH
Confidence            334444433 565 99999999999999977765443                        2344444444454    35


Q ss_pred             HHHHHHHh---ccCCCcEEEEEecCcccch
Q psy12736        493 LKSLYNLL---GVKNQATVFLFTAAEIVEE  519 (567)
Q Consensus       493 Lk~~~~~a---g~~~~~~vfl~~d~qi~~e  519 (567)
                      +|.++..+   -..++.-|++++|.+....
T Consensus       104 IRelle~a~~~P~~gk~KVIIIDEad~Ls~  133 (709)
T PRK08691        104 IREVLENAQYAPTAGKYKVYIIDEVHMLSK  133 (709)
T ss_pred             HHHHHHHHHhhhhhCCcEEEEEECccccCH
Confidence            55555433   2335667888888766554

>KOG2028|consensus

Probab=95.52  E-value=0.039  Score=57.21  Aligned_cols=89  Identities=19%  Similarity=0.164  Sum_probs=58.0

Q ss_pred             hHHHHHHHHHhcCC--CeEEeccCCCCchhhHHHHHhccCCCcc--eeee-------------c-----CCCCCceEEEE
Q psy12736        181 KLTWILSLMNEIKR--PCIVVGDTGTSKTATMMNFLRSLSPDKY--LVIA-------------E-----LPPTPAKFHYI  238 (567)
Q Consensus       181 R~~~ll~~ll~~~~--pvLl~GptGtGKT~~i~~~l~~l~~~~~--~~~~-------------e-----gPp~gkk~v~i  238 (567)
                      ...-++..+++++.  .++|-||+|||||++.+-+.++-.+..|  +.+.             |     ---.++|-| +
T Consensus       148 ~q~gllrs~ieq~~ipSmIlWGppG~GKTtlArlia~tsk~~SyrfvelSAt~a~t~dvR~ife~aq~~~~l~krkTi-l  226 (554)
T KOG2028|consen  148 GQDGLLRSLIEQNRIPSMILWGPPGTGKTTLARLIASTSKKHSYRFVELSATNAKTNDVRDIFEQAQNEKSLTKRKTI-L  226 (554)
T ss_pred             CcchHHHHHHHcCCCCceEEecCCCCchHHHHHHHHhhcCCCceEEEEEeccccchHHHHHHHHHHHHHHhhhcceeE-E
Confidence            34556777887665  6788999999999999887776544433  3222             2     345667777 8


Q ss_pred             e-------e-------ccc-----h---------------hhhhhccccccccccCCHHHHHHHHHH
Q psy12736        239 F-------N-------LRD-----L---------------SRIIQGLTATEKIIFNTKEMFVRAWRN  271 (567)
Q Consensus       239 F-------N-------l~D-----~---------------~R~~rg~f~~~~~~~~s~~sl~~I~~~  271 (567)
                      |       |       ++-     +               .-+++ ++.++.+.....+.+..|..+
T Consensus       227 FiDEiHRFNksQQD~fLP~VE~G~I~lIGATTENPSFqln~aLlS-RC~VfvLekL~~n~v~~iL~r  292 (554)
T KOG2028|consen  227 FIDEIHRFNKSQQDTFLPHVENGDITLIGATTENPSFQLNAALLS-RCRVFVLEKLPVNAVVTILMR  292 (554)
T ss_pred             EeHHhhhhhhhhhhcccceeccCceEEEecccCCCccchhHHHHh-ccceeEeccCCHHHHHHHHHH
Confidence            8       3       110     0               04556 677777777777777766654

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=95.48  E-value=0.066  Score=55.24  Aligned_cols=72  Identities=13%  Similarity=0.146  Sum_probs=43.3

Q ss_pred             CceEEeccCCCcHhHHHHHHHHHcC-----CeEEEEEecCCCChhhHHHHHHHHHHHhccC-CCcEEEEEecCcccch
Q psy12736        448 GHCMVVGVEGGGKRSLVRLASFAAG-----YQVFTIQLSRGYNEASFKEDLKSLYNLLGVK-NQATVFLFTAAEIVEE  519 (567)
Q Consensus       448 Gh~LLvG~~GsGr~sl~rlaa~i~~-----~~~~~i~~~k~y~~~~f~edLk~~~~~ag~~-~~~~vfl~~d~qi~~e  519 (567)
                      .|++|.|++|+||+++++..+....     ..+..+..+...+...+++.++......-.. ..+-++++++.+-...
T Consensus        39 ~~~ll~G~~G~GKt~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~vviiDe~~~l~~  116 (319)
T PRK00440         39 PHLLFAGPPGTGKTTAALALARELYGEDWRENFLELNASDERGIDVIRNKIKEFARTAPVGGAPFKIIFLDEADNLTS  116 (319)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHcCCccccceEEeccccccchHHHHHHHHHHHhcCCCCCCCceEEEEeCcccCCH
Confidence            4799999999999999987765432     1233443333344444556666655433222 3355677777655444

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=95.47  E-value=0.04  Score=63.75  Aligned_cols=100  Identities=16%  Similarity=0.292  Sum_probs=64.3

Q ss_pred             HHHHHHHHhcC-CCceEEeccCCCcHhHHHHHHHHH----------cCCeEEEEEecCC---CC-hhhHHHHHHHHHHHh
Q psy12736        436 LTRIHRALRLS-RGHCMVVGVEGGGKRSLVRLASFA----------AGYQVFTIQLSRG---YN-EASFKEDLKSLYNLL  500 (567)
Q Consensus       436 i~ri~RvL~~p-~Gh~LLvG~~GsGr~sl~rlaa~i----------~~~~~~~i~~~k~---y~-~~~f~edLk~~~~~a  500 (567)
                      +.++.++|... ..|.||+|++|+||+.+++..|.-          .++.++.+.++.-   .. ..+|.+-+++++..+
T Consensus       195 i~~~i~iL~r~~~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l~~~~llaG~~~~Ge~e~rl~~l~~~l  274 (758)
T PRK11034        195 LERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDFEKRFKALLKQL  274 (758)
T ss_pred             HHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEeccHHHHhcccchhhhHHHHHHHHHHHH
Confidence            34444555553 568899999999999999987753          3666776654321   11 236778888887765


Q ss_pred             ccCCCcEEEEEecCccc---------chhhhHHhh-hccCCccccC
Q psy12736        501 GVKNQATVFLFTAAEIV---------EEGYQVFTI-QLSRGYNEAS  536 (567)
Q Consensus       501 g~~~~~~vfl~~d~qi~---------~e~fle~in-lL~~Gevp~L  536 (567)
                      - +..+.+++++|-+-.         ...+...+. +|+.|++.=+
T Consensus       275 ~-~~~~~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp~L~~g~i~vI  319 (758)
T PRK11034        275 E-QDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSGKIRVI  319 (758)
T ss_pred             H-hcCCCEEEeccHHHHhccCCCCCcHHHHHHHHHHHHhCCCeEEE
Confidence            3 345667777775532         123344466 7888987643

>PRK06526 transposase; Provisional

Probab=95.47  E-value=0.0087  Score=60.25  Aligned_cols=29  Identities=21%  Similarity=0.204  Sum_probs=25.1

Q ss_pred             HHhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        189 MNEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       189 ll~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ++..+.+++++||+|||||.++..+....
T Consensus        94 fi~~~~nlll~Gp~GtGKThLa~al~~~a  122 (254)
T PRK06526         94 FVTGKENVVFLGPPGTGKTHLAIGLGIRA  122 (254)
T ss_pred             hhhcCceEEEEeCCCCchHHHHHHHHHHH
Confidence            55688999999999999999999876654

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=95.43  E-value=0.11  Score=54.92  Aligned_cols=24  Identities=17%  Similarity=0.351  Sum_probs=20.7

Q ss_pred             CCceEEeccCCCcHhHHHHHHHHH
Q psy12736        447 RGHCMVVGVEGGGKRSLVRLASFA  470 (567)
Q Consensus       447 ~Gh~LLvG~~GsGr~sl~rlaa~i  470 (567)
                      .+++++.|++|+||+++++.++.-
T Consensus        40 ~~~i~I~G~~GtGKT~l~~~~~~~   63 (365)
T TIGR02928        40 PSNVFIYGKTGTGKTAVTKYVMKE   63 (365)
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999887653

Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.

>PRK08181 transposase; Validated

Probab=95.42  E-value=0.016  Score=58.86  Aligned_cols=33  Identities=12%  Similarity=0.003  Sum_probs=27.6

Q ss_pred             HHHHHHhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        185 ILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       185 ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      -.+.++..+.+++|+||+|||||.++..+....
T Consensus        98 ~~~~~~~~~~nlll~Gp~GtGKTHLa~Aia~~a  130 (269)
T PRK08181         98 AGDSWLAKGANLLLFGPPGGGKSHLAAAIGLAL  130 (269)
T ss_pred             HHHHHHhcCceEEEEecCCCcHHHHHHHHHHHH
Confidence            344577889999999999999999999887654

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=95.41  E-value=0.0086  Score=58.32  Aligned_cols=31  Identities=23%  Similarity=0.309  Sum_probs=22.6

Q ss_pred             HHHHhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        187 SLMNEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       187 ~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ...+.++.-.++.||||||||.++..++..+
T Consensus        11 ~~~~~~~~~~~i~GpPGTGKT~~l~~~i~~~   41 (236)
T PF13086_consen   11 QSALSSNGITLIQGPPGTGKTTTLASIIAQL   41 (236)
T ss_dssp             HHHCTSSE-EEEE-STTSSHHHHHHHHHHHH
T ss_pred             HHHHcCCCCEEEECCCCCChHHHHHHHHHHh
Confidence            4444444458999999999999999988776

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=95.40  E-value=0.012  Score=61.45  Aligned_cols=33  Identities=30%  Similarity=0.349  Sum_probs=27.6

Q ss_pred             HHHHHhcCC--CeEEeccCCCCchhhHHHHHhccC
Q psy12736        186 LSLMNEIKR--PCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       186 l~~ll~~~~--pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      +..++.++.  |++++||+|||||++++.+.+.+.
T Consensus        27 L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l~   61 (337)
T PRK12402         27 LSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELY   61 (337)
T ss_pred             HHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhc
Confidence            455666777  899999999999999999888764

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.37  E-value=0.11  Score=58.95  Aligned_cols=113  Identities=18%  Similarity=0.241  Sum_probs=65.5

Q ss_pred             HHHHHhcC-CCc-eEEeccCCCcHhHHHHHHHHHcCCe--------------------------------EEEEEecCCC
Q psy12736        439 IHRALRLS-RGH-CMVVGVEGGGKRSLVRLASFAAGYQ--------------------------------VFTIQLSRGY  484 (567)
Q Consensus       439 i~RvL~~p-~Gh-~LLvG~~GsGr~sl~rlaa~i~~~~--------------------------------~~~i~~~k~y  484 (567)
                      +.+.++.. -.| .|+.|+.|+||+++++.-|...+|+                                +..++-....
T Consensus        28 L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~~~Cg~C~sC~~~~~g~~~n~~~~d~~s~~  107 (620)
T PRK14954         28 IQNSLRMDRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVTEPCGECESCRDFDAGTSLNISEFDAASNN  107 (620)
T ss_pred             HHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccCCCCccCHHHHHHhccCCCCeEEecccccC
Confidence            44556553 346 5799999999999999888776663                                1222222223


Q ss_pred             ChhhHHHHHHHHHHHh---ccCCCcEEEEEecCcccchhhhHHhh-hccCCc-----cccCcchhHHHHHHHhhccccce
Q psy12736        485 NEASFKEDLKSLYNLL---GVKNQATVFLFTAAEIVEEGYQVFTI-QLSRGY-----NEASFKEDLKSLYNLLGVKNQAT  555 (567)
Q Consensus       485 ~~~~f~edLk~~~~~a---g~~~~~~vfl~~d~qi~~e~fle~in-lL~~Ge-----vp~Lf~~eE~~~i~~~~~~~~~~  555 (567)
                      +.    ++++.+....   ...+..-|+++.+.+-...   +..| ||..=|     +-=+|..++..+|. ..++..+.
T Consensus       108 ~v----d~Ir~l~e~~~~~P~~~~~KVvIIdEad~Lt~---~a~naLLK~LEePp~~tv~IL~t~~~~kLl-~TI~SRc~  179 (620)
T PRK14954        108 SV----DDIRQLRENVRYGPQKGRYRVYIIDEVHMLST---AAFNAFLKTLEEPPPHAIFIFATTELHKIP-ATIASRCQ  179 (620)
T ss_pred             CH----HHHHHHHHHHHhhhhcCCCEEEEEeChhhcCH---HHHHHHHHHHhCCCCCeEEEEEeCChhhhh-HHHHhhce
Confidence            34    3454444333   4555566777777655443   2344 444322     22245556777886 67777766


Q ss_pred             eeee
Q psy12736        556 VFLF  559 (567)
Q Consensus       556 ~~~~  559 (567)
                      ++-+
T Consensus       180 ~vef  183 (620)
T PRK14954        180 RFNF  183 (620)
T ss_pred             EEec
Confidence            6554

>PRK04195 replication factor C large subunit; Provisional

Probab=95.36  E-value=0.011  Score=65.31  Aligned_cols=50  Identities=14%  Similarity=0.180  Sum_probs=37.4

Q ss_pred             CccccccCcchhhHHHHHHHHHhc--CCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        169 FGDILVPTTDSTKLTWILSLMNEI--KRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       169 ~~~i~VpT~dtvR~~~ll~~ll~~--~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      +.+++.+.....+..-++..+...  .+++||+||+|||||++++.+.+.+.
T Consensus        13 l~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el~   64 (482)
T PRK04195         13 LSDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDYG   64 (482)
T ss_pred             HHHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHcC
Confidence            556666655555666666665532  57899999999999999999988764

>PRK13764 ATPase; Provisional

Probab=95.34  E-value=0.012  Score=65.92  Aligned_cols=48  Identities=10%  Similarity=0.120  Sum_probs=36.6

Q ss_pred             ccCcchhhHH-HHHHHHHhcCCCeEEeccCCCCchhhHHHHHhccCCCc
Q psy12736        174 VPTTDSTKLT-WILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLSPDK  221 (567)
Q Consensus       174 VpT~dtvR~~-~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~~~~  221 (567)
                      .||.|..... .+++.+...+..+|++||||||||++++.++..++...
T Consensus       237 ~~~Le~l~l~~~l~~~l~~~~~~ILIsG~TGSGKTTll~AL~~~i~~~~  285 (602)
T PRK13764        237 KLSLEDYNLSEKLKERLEERAEGILIAGAPGAGKSTFAQALAEFYADMG  285 (602)
T ss_pred             CCCHHHhCCCHHHHHHHHhcCCEEEEECCCCCCHHHHHHHHHHHHhhCC
Confidence            4454444432 56777888899999999999999999999888776443

>COG0630 VirB11 Type IV secretory pathway, VirB11 components, and related ATPases involved in archaeal flagella biosynthesis [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=95.33  E-value=0.02  Score=59.46  Aligned_cols=45  Identities=24%  Similarity=0.431  Sum_probs=36.7

Q ss_pred             CcchhhHHHHHHHHHhcCCCeEEeccCCCCchhhHHHHHhccCCCc
Q psy12736        176 TTDSTKLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLSPDK  221 (567)
Q Consensus       176 T~dtvR~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~~~~  221 (567)
                      |.+.....| +..++.+++++++||+||||||++++.++.-.+++.
T Consensus       127 t~~~~~~ay-L~~~ie~~~siii~G~t~sGKTt~lnall~~Ip~~~  171 (312)
T COG0630         127 TISPEQAAY-LWLAIEARKSIIICGGTASGKTTLLNALLDFIPPEE  171 (312)
T ss_pred             CCCHHHHHH-HHHHHHcCCcEEEECCCCCCHHHHHHHHHHhCCchh
Confidence            444444444 778889999999999999999999999999887653

>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A

Probab=95.32  E-value=0.0086  Score=56.37  Aligned_cols=27  Identities=26%  Similarity=0.503  Sum_probs=19.0

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .++.++++|++|||||++++.++..+.
T Consensus        23 ~~~~~ll~G~~G~GKT~ll~~~~~~~~   49 (185)
T PF13191_consen   23 SPRNLLLTGESGSGKTSLLRALLDRLA   49 (185)
T ss_dssp             ----EEE-B-TTSSHHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHH
Confidence            467899999999999999999887654

>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor

Probab=95.27  E-value=0.028  Score=52.95  Aligned_cols=37  Identities=19%  Similarity=0.234  Sum_probs=29.4

Q ss_pred             hhHHHHHHHHHhcCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        180 TKLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       180 vR~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .+....++.+.....|||++|++||||+.+++.+-+.
T Consensus         9 ~~~~~~~~~~a~~~~pVlI~GE~GtGK~~lA~~IH~~   45 (168)
T PF00158_consen    9 KRLREQAKRAASSDLPVLITGETGTGKELLARAIHNN   45 (168)
T ss_dssp             HHHHHHHHHHTTSTS-EEEECSTTSSHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhCCCCCEEEEcCCCCcHHHHHHHHHHh
Confidence            3455566777788999999999999999999887664

These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....

>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=95.26  E-value=0.014  Score=55.10  Aligned_cols=89  Identities=17%  Similarity=0.204  Sum_probs=54.5

Q ss_pred             cCCCceEEeccCCCcHhHHHHHHHHHcCC----eEEEEEecCCCChhhHHHHHHHHHHHh----ccCCCcEEEEEecCcc
Q psy12736        445 LSRGHCMVVGVEGGGKRSLVRLASFAAGY----QVFTIQLSRGYNEASFKEDLKSLYNLL----GVKNQATVFLFTAAEI  516 (567)
Q Consensus       445 ~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~----~~~~i~~~k~y~~~~f~edLk~~~~~a----g~~~~~~vfl~~d~qi  516 (567)
                      .|.+++||+|++|+||+.+++..|-+...    .+..++.+.--...+...-+.+.+-.+    |..... |+++++-+-
T Consensus         1 ~p~~~~ll~GpsGvGKT~la~~la~~l~~~~~~~~~~~d~s~~~~~~~~~~~~~~l~~~~~~~v~~~~~g-VVllDEidK   79 (171)
T PF07724_consen    1 RPKSNFLLAGPSGVGKTELAKALAELLFVGSERPLIRIDMSEYSEGDDVESSVSKLLGSPPGYVGAEEGG-VVLLDEIDK   79 (171)
T ss_dssp             S-SEEEEEESSTTSSHHHHHHHHHHHHT-SSCCEEEEEEGGGHCSHHHCSCHCHHHHHHTTCHHHHHHHT-EEEEETGGG
T ss_pred             CCEEEEEEECCCCCCHHHHHHHHHHHhccCCccchHHHhhhcccccchHHhhhhhhhhcccceeeccchh-hhhhHHHhh
Confidence            48899999999999999999988887774    677777653212111111122222222    111112 777787776


Q ss_pred             cch-----------hhhHHhh-hccCCccc
Q psy12736        517 VEE-----------GYQVFTI-QLSRGYNE  534 (567)
Q Consensus       517 ~~e-----------~fle~in-lL~~Gevp  534 (567)
                      ...           .+...+= +|..|.+.
T Consensus        80 a~~~~~~~~~v~~~~V~~~LL~~le~g~~~  109 (171)
T PF07724_consen   80 AHPSNSGGADVSGEGVQNSLLQLLEGGTLT  109 (171)
T ss_dssp             CSHTTTTCSHHHHHHHHHHHHHHHHHSEEE
T ss_pred             ccccccccchhhHHHHHHHHHHHhccccee
Confidence            677           7776666 77777665

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of ATPase AAA-2 domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=95.25  E-value=0.015  Score=61.21  Aligned_cols=35  Identities=20%  Similarity=0.366  Sum_probs=28.4

Q ss_pred             HHHHHHHhcCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        184 WILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       184 ~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .+.+.+...+..++++||||||||++++.++..++
T Consensus       113 ~l~~~~~~~~g~ili~G~tGSGKTT~l~al~~~i~  147 (343)
T TIGR01420       113 VLRELAERPRGLILVTGPTGSGKSTTLASMIDYIN  147 (343)
T ss_pred             HHHHHHhhcCcEEEEECCCCCCHHHHHHHHHHhhC
Confidence            34455556678899999999999999999888765

This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.

>cd01131 PilT Pilus retraction ATPase PilT

Probab=95.23  E-value=0.011  Score=57.23  Aligned_cols=23  Identities=26%  Similarity=0.560  Sum_probs=20.7

Q ss_pred             eEEeccCCCCchhhHHHHHhccC
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ++++||||||||+++..++..++
T Consensus         4 ilI~GptGSGKTTll~~ll~~~~   26 (198)
T cd01131           4 VLVTGPTGSGKSTTLAAMIDYIN   26 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhh
Confidence            68999999999999999888764

PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=95.22  E-value=0.095  Score=58.86  Aligned_cols=108  Identities=12%  Similarity=0.147  Sum_probs=66.3

Q ss_pred             CCce-EEeccCCCcHhHHHHHHHHHcC------------------------CeEEEEEecCCCChhhHHHHHHHHHHHhc
Q psy12736        447 RGHC-MVVGVEGGGKRSLVRLASFAAG------------------------YQVFTIQLSRGYNEASFKEDLKSLYNLLG  501 (567)
Q Consensus       447 ~Gh~-LLvG~~GsGr~sl~rlaa~i~~------------------------~~~~~i~~~k~y~~~~f~edLk~~~~~ag  501 (567)
                      .+|+ |+.|+.|+||+++++..|...+                        .+++++....+-+..+.++ +..-...+-
T Consensus        37 ~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~~~pC~~C~~C~~i~~g~~~dv~eidaas~~~vd~ir~-i~~~v~~~p  115 (559)
T PRK05563         37 ISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPDGEPCNECEICKAITNGSLMDVIEIDAASNNGVDEIRD-IRDKVKYAP  115 (559)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccHHHHHHhcCCCCCeEEeeccccCCHHHHHH-HHHHHhhCc
Confidence            4786 7799999999999998876543                        2456665554455554443 333333444


Q ss_pred             cCCCcEEEEEecCcccchhhhHHhh-hccCCccc-----cCcchhHHHHHHHhhccccceeeee
Q psy12736        502 VKNQATVFLFTAAEIVEEGYQVFTI-QLSRGYNE-----ASFKEDLKSLYNLLGVKNQATVFLF  559 (567)
Q Consensus       502 ~~~~~~vfl~~d~qi~~e~fle~in-lL~~Gevp-----~Lf~~eE~~~i~~~~~~~~~~~~~~  559 (567)
                      ..++.-|+++++.+...+   +..| ||.+=|-|     =++...+.+.|. ..++..+..+-+
T Consensus       116 ~~~~~kViIIDE~~~Lt~---~a~naLLKtLEepp~~~ifIlatt~~~ki~-~tI~SRc~~~~f  175 (559)
T PRK05563        116 SEAKYKVYIIDEVHMLST---GAFNALLKTLEEPPAHVIFILATTEPHKIP-ATILSRCQRFDF  175 (559)
T ss_pred             ccCCeEEEEEECcccCCH---HHHHHHHHHhcCCCCCeEEEEEeCChhhCc-HHHHhHheEEec
Confidence            567777888888665544   3456 65433322     145556667775 666666555544

>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=95.21  E-value=0.012  Score=60.02  Aligned_cols=27  Identities=26%  Similarity=0.401  Sum_probs=23.4

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .+-++||+||||||||.+.+.+-+.++
T Consensus        96 ~KSNILLiGPTGsGKTlLAqTLAk~Ln  122 (408)
T COG1219          96 SKSNILLIGPTGSGKTLLAQTLAKILN  122 (408)
T ss_pred             eeccEEEECCCCCcHHHHHHHHHHHhC
Confidence            467999999999999999988877664

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=95.19  E-value=0.01  Score=59.97  Aligned_cols=26  Identities=23%  Similarity=0.185  Sum_probs=21.8

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ...|++|.||||||||++++.+-+.+
T Consensus        41 ~~~~vll~GppGtGKTtlA~~ia~~l   66 (261)
T TIGR02881        41 QVLHMIFKGNPGTGKTTVARILGKLF   66 (261)
T ss_pred             CcceEEEEcCCCCCHHHHHHHHHHHH
Confidence            34689999999999999998876654

Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=95.18  E-value=0.038  Score=59.27  Aligned_cols=69  Identities=12%  Similarity=0.219  Sum_probs=48.8

Q ss_pred             CCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecC---CCChhhHHHHHHHHHHHhccCCCcEEEEEecCcc
Q psy12736        446 SRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSR---GYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEI  516 (567)
Q Consensus       446 p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k---~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~qi  516 (567)
                      |..++||.|++|+||++++|..|.-.+..++.+..+.   .|- .+-..-++.++..|. ...|.+++++|-+-
T Consensus       164 ~p~gvLL~GppGtGKT~lAkaia~~~~~~~i~v~~~~l~~~~~-g~~~~~i~~~f~~a~-~~~p~IlfiDEiD~  235 (389)
T PRK03992        164 PPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVQKFI-GEGARLVRELFELAR-EKAPSIIFIDEIDA  235 (389)
T ss_pred             CCCceEEECCCCCChHHHHHHHHHHhCCCEEEeehHHHhHhhc-cchHHHHHHHHHHHH-hcCCeEEEEechhh
Confidence            4456999999999999999999999998888875432   121 111234566776664 45688888887554

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=95.18  E-value=0.055  Score=59.90  Aligned_cols=64  Identities=22%  Similarity=0.307  Sum_probs=46.9

Q ss_pred             CceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCC----CChhhHHHHHHHHHHHhccCCCcEEEEEecC
Q psy12736        448 GHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRG----YNEASFKEDLKSLYNLLGVKNQATVFLFTAA  514 (567)
Q Consensus       448 Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~----y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~  514 (567)
                      .++||.|++|+||++++|..|.-++..++.+..+.-    .+..  ...++.++..|- ...|.+++++|-
T Consensus        89 ~giLL~GppGtGKT~la~alA~~~~~~~~~i~~~~~~~~~~g~~--~~~l~~~f~~a~-~~~p~Il~iDEi  156 (495)
T TIGR01241        89 KGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMFVGVG--ASRVRDLFEQAK-KNAPCIIFIDEI  156 (495)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHcCCCeeeccHHHHHHHHhccc--HHHHHHHHHHHH-hcCCCEEEEech
Confidence            359999999999999999999999999888764320    1111  245777777763 456788888764

HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.

>PRK08084 DNA replication initiation factor; Provisional

Probab=95.17  E-value=0.022  Score=56.65  Aligned_cols=45  Identities=13%  Similarity=0.084  Sum_probs=29.4

Q ss_pred             ccccCcchhhHHHHHHHHH--hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        172 ILVPTTDSTKLTWILSLMN--EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       172 i~VpT~dtvR~~~ll~~ll--~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      -+|+..... .-..+..+.  ..+.+++++||+|||||.+++.+.+..
T Consensus        23 ~f~~~~n~~-a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~   69 (235)
T PRK08084         23 SFYPGDNDS-LLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAEL   69 (235)
T ss_pred             ccccCccHH-HHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            344443333 333444443  244689999999999999998876654

>PRK14737 gmk guanylate kinase; Provisional

Probab=95.14  E-value=0.012  Score=56.29  Aligned_cols=28  Identities=14%  Similarity=0.211  Sum_probs=24.5

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhccCC
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      .++.++|+||+|+|||++++.+++..+.
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l~~~~~~   30 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQALLEEHPD   30 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhcCCc
Confidence            4678999999999999999999988654

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.13  E-value=0.13  Score=58.32  Aligned_cols=126  Identities=17%  Similarity=0.149  Sum_probs=69.8

Q ss_pred             EEecHHHHHHHHHHHHHHhcCC--CceEEeccCCCcHhHHHHHHHHHcCC--------------------------eEEE
Q psy12736        426 LVLFEDAREHLTRIHRALRLSR--GHCMVVGVEGGGKRSLVRLASFAAGY--------------------------QVFT  477 (567)
Q Consensus       426 lvlf~dai~hi~ri~RvL~~p~--Gh~LLvG~~GsGr~sl~rlaa~i~~~--------------------------~~~~  477 (567)
                      ++-.++++..+   .+.++..+  .++||.|+.|+||+++++..|...+|                          ++++
T Consensus        18 liGq~~i~~~L---~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~~~~~Cg~C~~C~~i~~g~h~D~~e   94 (620)
T PRK14948         18 LVGQEAIATTL---KNALISNRIAPAYLFTGPRGTGKTSSARILAKSLNCLNSDKPTPEPCGKCELCRAIAAGNALDVIE   94 (620)
T ss_pred             ccChHHHHHHH---HHHHHcCCCCceEEEECCCCCChHHHHHHHHHHhcCCCcCCCCCCCCcccHHHHHHhcCCCccEEE
Confidence            33334444444   44444432  24589999999999999988777655                          3444


Q ss_pred             EEecCCCChhhHHHHHHHHHHHhccCCCcEEEEEecCcccchhhhHHhh-hccCCccc-----cCcchhHHHHHHHhhcc
Q psy12736        478 IQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEGYQVFTI-QLSRGYNE-----ASFKEDLKSLYNLLGVK  551 (567)
Q Consensus       478 i~~~k~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~qi~~e~fle~in-lL~~Gevp-----~Lf~~eE~~~i~~~~~~  551 (567)
                      ++-....+..+.++-+..+ ..+...+..-|+++++.+-..+   +..| ||..=|-|     =++...+.+.+. ..++
T Consensus        95 i~~~~~~~vd~IReii~~a-~~~p~~~~~KViIIDEad~Lt~---~a~naLLK~LEePp~~tvfIL~t~~~~~ll-pTIr  169 (620)
T PRK14948         95 IDAASNTGVDNIRELIERA-QFAPVQARWKVYVIDECHMLST---AAFNALLKTLEEPPPRVVFVLATTDPQRVL-PTII  169 (620)
T ss_pred             EeccccCCHHHHHHHHHHH-hhChhcCCceEEEEECccccCH---HHHHHHHHHHhcCCcCeEEEEEeCChhhhh-HHHH
Confidence            5444445555444433322 2333445667788888776554   3345 54432222     234334455565 6666


Q ss_pred             ccceeeee
Q psy12736        552 NQATVFLF  559 (567)
Q Consensus       552 ~~~~~~~~  559 (567)
                      ..+..+-+
T Consensus       170 SRc~~~~f  177 (620)
T PRK14948        170 SRCQRFDF  177 (620)
T ss_pred             hheeEEEe
Confidence            66666543

>KOG0743|consensus

Probab=95.11  E-value=0.045  Score=58.40  Aligned_cols=57  Identities=19%  Similarity=0.377  Sum_probs=44.1

Q ss_pred             eEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCChhhHHHHHHHHHHHhccCCCcEEEEEec
Q psy12736        450 CMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTA  513 (567)
Q Consensus       450 ~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d  513 (567)
                      -||-|++|+||.|+.--.|--.+|.++-++++...+..    |||.+|..+  .++.+++ ++|
T Consensus       238 YLLYGPPGTGKSS~IaAmAn~L~ydIydLeLt~v~~n~----dLr~LL~~t--~~kSIiv-IED  294 (457)
T KOG0743|consen  238 YLLYGPPGTGKSSFIAAMANYLNYDIYDLELTEVKLDS----DLRHLLLAT--PNKSILL-IED  294 (457)
T ss_pred             ceeeCCCCCCHHHHHHHHHhhcCCceEEeeeccccCcH----HHHHHHHhC--CCCcEEE-Eee
Confidence            48999999999999876676778999999998665543    699999887  4555554 444

>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]

Probab=95.10  E-value=0.015  Score=62.32  Aligned_cols=36  Identities=25%  Similarity=0.281  Sum_probs=28.2

Q ss_pred             HHHHHHHhcCCCeEEeccCCCCchhhHHHHHhccCC
Q psy12736        184 WILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       184 ~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      .-+..--..++++|++||||||||++++++-.=+++
T Consensus       189 rAleiAAAGgHnLl~~GpPGtGKTmla~Rl~~lLPp  224 (490)
T COG0606         189 RALEIAAAGGHNLLLVGPPGTGKTMLASRLPGLLPP  224 (490)
T ss_pred             HHHHHHHhcCCcEEEecCCCCchHHhhhhhcccCCC
Confidence            334445578999999999999999999987554444

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=95.10  E-value=0.022  Score=51.55  Aligned_cols=37  Identities=22%  Similarity=0.379  Sum_probs=28.8

Q ss_pred             hhhHHHHHHHHHhcCCCeEEeccCCCCchhhHHHHHh
Q psy12736        179 STKLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLR  215 (567)
Q Consensus       179 tvR~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~  215 (567)
                      ..+..--++.+...+.||+++|++||||+.+++.+-.
T Consensus         7 ~~~l~~~l~~~a~~~~pvli~GE~GtGK~~~A~~lh~   43 (138)
T PF14532_consen    7 MRRLRRQLERLAKSSSPVLITGEPGTGKSLLARALHR   43 (138)
T ss_dssp             HHHHHHHHHHHHCSSS-EEEECCTTSSHHHHHHCCHH
T ss_pred             HHHHHHHHHHHhCCCCcEEEEcCCCCCHHHHHHHHHh
Confidence            3455566777888999999999999999998876544

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.09  E-value=0.072  Score=59.37  Aligned_cols=69  Identities=13%  Similarity=0.336  Sum_probs=45.4

Q ss_pred             CCce-EEeccCCCcHhHHHHHHHHHcCC------------------------eEEEEEecCCCChhhHHHHHHHHHHHh-
Q psy12736        447 RGHC-MVVGVEGGGKRSLVRLASFAAGY------------------------QVFTIQLSRGYNEASFKEDLKSLYNLL-  500 (567)
Q Consensus       447 ~Gh~-LLvG~~GsGr~sl~rlaa~i~~~------------------------~~~~i~~~k~y~~~~f~edLk~~~~~a-  500 (567)
                      -.|+ |+.|+.|+||+++++.-|...+|                        ++++++...+.+.    +++|.++..+ 
T Consensus        37 ~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~~C~~i~~~~~~d~~ei~~~~~~~v----d~ir~l~~~~~  112 (527)
T PRK14969         37 LHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSACLEIDSGRFVDLIEVDAASNTQV----DAMRELLDNAQ  112 (527)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCceeEeeccccCCH----HHHHHHHHHHh
Confidence            4687 89999999999999998876655                        2344443333344    4555554433 


Q ss_pred             --ccCCCcEEEEEecCcccch
Q psy12736        501 --GVKNQATVFLFTAAEIVEE  519 (567)
Q Consensus       501 --g~~~~~~vfl~~d~qi~~e  519 (567)
                        ...++.-|+++++.+-...
T Consensus       113 ~~p~~~~~kVvIIDEad~ls~  133 (527)
T PRK14969        113 YAPTRGRFKVYIIDEVHMLSK  133 (527)
T ss_pred             hCcccCCceEEEEcCcccCCH
Confidence              3456677888888665543

>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=95.09  E-value=0.012  Score=58.28  Aligned_cols=26  Identities=19%  Similarity=0.255  Sum_probs=22.4

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .-++||+.||||||||++.+.+-+..
T Consensus       150 APknVLFyGppGTGKTm~Akalane~  175 (368)
T COG1223         150 APKNVLFYGPPGTGKTMMAKALANEA  175 (368)
T ss_pred             CcceeEEECCCCccHHHHHHHHhccc
Confidence            35799999999999999998877654

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.06  E-value=0.17  Score=55.89  Aligned_cols=111  Identities=13%  Similarity=0.198  Sum_probs=66.3

Q ss_pred             CCce-EEeccCCCcHhHHHHHHHHHcCC------------------------eEEEEEecCCCChhhHHHHHHHHHHHhc
Q psy12736        447 RGHC-MVVGVEGGGKRSLVRLASFAAGY------------------------QVFTIQLSRGYNEASFKEDLKSLYNLLG  501 (567)
Q Consensus       447 ~Gh~-LLvG~~GsGr~sl~rlaa~i~~~------------------------~~~~i~~~k~y~~~~f~edLk~~~~~ag  501 (567)
                      -+|+ ||.|+.|+||++++++.|...+|                        ++++++.+.+-+..+.+ +++..+....
T Consensus        37 i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c~nc~~i~~g~~~d~~eidaas~~gvd~ir-~I~~~~~~~P  115 (486)
T PRK14953         37 VSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCENCVEIDKGSFPDLIEIDAASNRGIDDIR-ALRDAVSYTP  115 (486)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccHHHHHHhcCCCCcEEEEeCccCCCHHHHH-HHHHHHHhCc
Confidence            3576 68999999999999998776543                        24455444444554444 3555556666


Q ss_pred             cCCCcEEEEEecCcccchhhhHHhh-hccC--CccccCcchhHHHHHHHhhccccceeeee
Q psy12736        502 VKNQATVFLFTAAEIVEEGYQVFTI-QLSR--GYNEASFKEDLKSLYNLLGVKNQATVFLF  559 (567)
Q Consensus       502 ~~~~~~vfl~~d~qi~~e~fle~in-lL~~--Gevp~Lf~~eE~~~i~~~~~~~~~~~~~~  559 (567)
                      ..++.-|+++++.+.....-.+.+- .|..  +.+-=++...+.+.|. ..++..+..+-+
T Consensus       116 ~~~~~KVvIIDEad~Lt~~a~naLLk~LEepp~~~v~Il~tt~~~kl~-~tI~SRc~~i~f  175 (486)
T PRK14953        116 IKGKYKVYIIDEAHMLTKEAFNALLKTLEEPPPRTIFILCTTEYDKIP-PTILSRCQRFIF  175 (486)
T ss_pred             ccCCeeEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEECCHHHHH-HHHHHhceEEEc
Confidence            6778888999887765543322222 2322  1222344555666665 566655554443

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=95.05  E-value=0.017  Score=63.94  Aligned_cols=50  Identities=22%  Similarity=0.278  Sum_probs=33.7

Q ss_pred             CccccccCcchhhHHHHHHHHHhc---CCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        169 FGDILVPTTDSTKLTWILSLMNEI---KRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       169 ~~~i~VpT~dtvR~~~ll~~ll~~---~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ..++.|...-......+++..+..   ++-+||+||+|||||++|+-+.+.+.
T Consensus        18 ~~eLavhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~elg   70 (519)
T PF03215_consen   18 LDELAVHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKELG   70 (519)
T ss_pred             HHHhhccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHhC
Confidence            345666655445555555554433   24578899999999999988877653

>TIGR03819 heli_sec_ATPase helicase/secretion neighborhood ATPase

Probab=95.03  E-value=0.025  Score=59.46  Aligned_cols=40  Identities=23%  Similarity=0.433  Sum_probs=33.5

Q ss_pred             hHHHHHHHHHhcCCCeEEeccCCCCchhhHHHHHhccCCC
Q psy12736        181 KLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLSPD  220 (567)
Q Consensus       181 R~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~~~  220 (567)
                      ....++..+++.+.+++++|++|+|||++++.++..+++.
T Consensus       166 ~~~~~L~~~v~~~~~ili~G~tGsGKTTll~al~~~i~~~  205 (340)
T TIGR03819       166 GVARLLRAIVAARLAFLISGGTGSGKTTLLSALLALVAPD  205 (340)
T ss_pred             HHHHHHHHHHhCCCeEEEECCCCCCHHHHHHHHHccCCCC
Confidence            3456678889999999999999999999999888766543

Members of this protein family comprise a distinct clade of putative ATPase associated with an integral membrane complex likely to act in pilus formation, secretion, or conjugal transfer. The association of most members with a nearby gene for a DEAH-box helicase suggests a role in conjugal transfer.

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=95.02  E-value=0.1  Score=58.41  Aligned_cols=115  Identities=14%  Similarity=0.147  Sum_probs=62.2

Q ss_pred             HHHHhc-CCCce-EEeccCCCcHhHHHHHHHHHcCC------------------------eEEEEEecCCCChhhHHHHH
Q psy12736        440 HRALRL-SRGHC-MVVGVEGGGKRSLVRLASFAAGY------------------------QVFTIQLSRGYNEASFKEDL  493 (567)
Q Consensus       440 ~RvL~~-p~Gh~-LLvG~~GsGr~sl~rlaa~i~~~------------------------~~~~i~~~k~y~~~~f~edL  493 (567)
                      .+.++. ..+|+ |+.|+.|+||+++++..|....|                        ++++++-....+..+.++ +
T Consensus        29 ~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~~~~~~~Cg~C~sCr~i~~~~h~DiieIdaas~igVd~IRe-I  107 (605)
T PRK05896         29 VNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAINCLNPKDGDCCNSCSVCESINTNQSVDIVELDAASNNGVDEIRN-I  107 (605)
T ss_pred             HHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHHcCCCCceEEeccccccCHHHHHH-H
Confidence            334444 23564 68999999999999988776543                        334444333455554443 2


Q ss_pred             HHHHHHhccCCCcEEEEEecCcccchhhhHHhh-hccC-----CccccCcchhHHHHHHHhhccccceeeee
Q psy12736        494 KSLYNLLGVKNQATVFLFTAAEIVEEGYQVFTI-QLSR-----GYNEASFKEDLKSLYNLLGVKNQATVFLF  559 (567)
Q Consensus       494 k~~~~~ag~~~~~~vfl~~d~qi~~e~fle~in-lL~~-----Gevp~Lf~~eE~~~i~~~~~~~~~~~~~~  559 (567)
                      ...+......++.-|+++++.+....+   ..| ||..     +.+--++...+...|. ..++..+.++-+
T Consensus       108 i~~~~~~P~~~~~KVIIIDEad~Lt~~---A~NaLLKtLEEPp~~tvfIL~Tt~~~KLl-~TI~SRcq~ieF  175 (605)
T PRK05896        108 IDNINYLPTTFKYKVYIIDEAHMLSTS---AWNALLKTLEEPPKHVVFIFATTEFQKIP-LTIISRCQRYNF  175 (605)
T ss_pred             HHHHHhchhhCCcEEEEEechHhCCHH---HHHHHHHHHHhCCCcEEEEEECCChHhhh-HHHHhhhhhccc
Confidence            233333444445556888876655443   234 4332     1111234445566665 555555554443

>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ

Probab=95.02  E-value=0.018  Score=61.13  Aligned_cols=35  Identities=11%  Similarity=0.212  Sum_probs=28.8

Q ss_pred             HHHHHHHhcCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        184 WILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       184 ~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .+++.++..+-.++++||||||||++++.+++.+.
T Consensus       140 ~~~~~l~~~~GlilI~G~TGSGKTT~l~al~~~i~  174 (372)
T TIGR02525       140 DLFNSLLPAAGLGLICGETGSGKSTLAASIYQHCG  174 (372)
T ss_pred             HHHHHHHhcCCEEEEECCCCCCHHHHHHHHHHHHH
Confidence            35666666777899999999999999999887653

Members of this protein family are predicted ATPases associated with plasmid transfer loci in bacteria. This family is most similar to the DotB ATPase of a type-IV secretion-like system of obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii (TIGR02524).

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []

Probab=95.01  E-value=0.012  Score=55.49  Aligned_cols=25  Identities=20%  Similarity=0.389  Sum_probs=21.5

Q ss_pred             CeEEeccCCCCchhhHHHHHhccCC
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      +++|+|++|+|||++++.++..+..
T Consensus         1 ~i~iTG~pG~GKTTll~k~i~~l~~   25 (168)
T PF03266_consen    1 HIFITGPPGVGKTTLLKKVIEELKK   25 (168)
T ss_dssp             EEEEES-TTSSHHHHHHHHHHHHHH
T ss_pred             CEEEECcCCCCHHHHHHHHHHHhhc
Confidence            5899999999999999999988753

It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.

>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=95.01  E-value=0.018  Score=58.39  Aligned_cols=48  Identities=25%  Similarity=0.387  Sum_probs=34.0

Q ss_pred             cccCcchhhHHHHHHHHHhcCC-CeEEeccCCCCchhhHHHHHhccCCC
Q psy12736        173 LVPTTDSTKLTWILSLMNEIKR-PCIVVGDTGTSKTATMMNFLRSLSPD  220 (567)
Q Consensus       173 ~VpT~dtvR~~~ll~~ll~~~~-pvLl~GptGtGKT~~i~~~l~~l~~~  220 (567)
                      -|||.+-...--++..++...+ =||++||||||||+++..++..++..
T Consensus       104 ~i~~~e~LglP~i~~~~~~~~~GLILVTGpTGSGKSTTlAamId~iN~~  152 (353)
T COG2805         104 KIPTLEELGLPPIVRELAESPRGLILVTGPTGSGKSTTLAAMIDYINKH  152 (353)
T ss_pred             cCCCHHHcCCCHHHHHHHhCCCceEEEeCCCCCcHHHHHHHHHHHHhcc
Confidence            3555555555555666665544 57788999999999999998876543

>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]

Probab=95.01  E-value=0.052  Score=57.11  Aligned_cols=84  Identities=15%  Similarity=0.124  Sum_probs=54.9

Q ss_pred             HHHHHHhcC--CCeEEeccCCCCchhhHHHHHhccCCCcceeee-------------c----CCCCCceEEEEe------
Q psy12736        185 ILSLMNEIK--RPCIVVGDTGTSKTATMMNFLRSLSPDKYLVIA-------------E----LPPTPAKFHYIF------  239 (567)
Q Consensus       185 ll~~ll~~~--~pvLl~GptGtGKT~~i~~~l~~l~~~~~~~~~-------------e----gPp~gkk~v~iF------  239 (567)
                      .+..+++++  .+.+|-||||||||++.+-+-... +..|..++             |    .--.|++.| +|      
T Consensus        38 ~lrr~v~~~~l~SmIl~GPPG~GKTTlA~liA~~~-~~~f~~~sAv~~gvkdlr~i~e~a~~~~~~gr~ti-LflDEIHR  115 (436)
T COG2256          38 PLRRAVEAGHLHSMILWGPPGTGKTTLARLIAGTT-NAAFEALSAVTSGVKDLREIIEEARKNRLLGRRTI-LFLDEIHR  115 (436)
T ss_pred             hHHHHHhcCCCceeEEECCCCCCHHHHHHHHHHhh-CCceEEeccccccHHHHHHHHHHHHHHHhcCCceE-EEEehhhh
Confidence            345666644  489999999999999886555443 34455444             1    223488888 88      


Q ss_pred             -e-------ccchh--------------------hhhhccccccccccCCHHHHHHHHHH
Q psy12736        240 -N-------LRDLS--------------------RIIQGLTATEKIIFNTKEMFVRAWRN  271 (567)
Q Consensus       240 -N-------l~D~~--------------------R~~rg~f~~~~~~~~s~~sl~~I~~~  271 (567)
                       |       ++-+.                    -+++ +..++.+...+.+++..+...
T Consensus       116 fnK~QQD~lLp~vE~G~iilIGATTENPsF~ln~ALlS-R~~vf~lk~L~~~di~~~l~r  174 (436)
T COG2256         116 FNKAQQDALLPHVENGTIILIGATTENPSFELNPALLS-RARVFELKPLSSEDIKKLLKR  174 (436)
T ss_pred             cChhhhhhhhhhhcCCeEEEEeccCCCCCeeecHHHhh-hhheeeeecCCHHHHHHHHHH
Confidence             3       11110                    4455 677788888888888887776

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=94.99  E-value=0.025  Score=59.14  Aligned_cols=38  Identities=18%  Similarity=0.163  Sum_probs=31.4

Q ss_pred             hHHHHHHHHHhcCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        181 KLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       181 R~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .....+...+..+.|+||.||||||||++++.+-+.+.
T Consensus        31 ~~~~~~l~a~~~~~~vll~G~PG~gKT~la~~lA~~l~   68 (329)
T COG0714          31 EVIELALLALLAGGHVLLEGPPGVGKTLLARALARALG   68 (329)
T ss_pred             HHHHHHHHHHHcCCCEEEECCCCccHHHHHHHHHHHhC
Confidence            34445556677899999999999999999999888765

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=94.99  E-value=0.027  Score=60.22  Aligned_cols=38  Identities=24%  Similarity=0.320  Sum_probs=28.3

Q ss_pred             hHHHHHHHHHhcC--CCeEEeccCCCCchhhHHHHHhccC
Q psy12736        181 KLTWILSLMNEIK--RPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       181 R~~~ll~~ll~~~--~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      +....+...+..+  .+++++||+|||||++++.+++.+.
T Consensus        41 ~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~   80 (394)
T PRK00411         41 ELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELE   80 (394)
T ss_pred             HHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            3344444445433  5699999999999999999998764

>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=94.97  E-value=0.02  Score=53.44  Aligned_cols=31  Identities=16%  Similarity=0.345  Sum_probs=25.3

Q ss_pred             HHHHHhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        186 LSLMNEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       186 l~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +..+++. +-++|+|++|+|||++++.++...
T Consensus        29 l~~~l~~-k~~vl~G~SGvGKSSLiN~L~~~~   59 (161)
T PF03193_consen   29 LKELLKG-KTSVLLGQSGVGKSSLINALLPEA   59 (161)
T ss_dssp             HHHHHTT-SEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             HHHHhcC-CEEEEECCCCCCHHHHHHHHHhhc
Confidence            3345554 999999999999999999998753

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.

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=94.95  E-value=0.026  Score=57.24  Aligned_cols=34  Identities=29%  Similarity=0.415  Sum_probs=26.7

Q ss_pred             HHHHHhcCCCeEEeccCCCCchhhHHHHHhccCC
Q psy12736        186 LSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       186 l~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      .+.+...+--++++||||||||++++.++..+++
T Consensus        73 ~~~~~~~~GlilisG~tGSGKTT~l~all~~i~~  106 (264)
T cd01129          73 RKLLEKPHGIILVTGPTGSGKTTTLYSALSELNT  106 (264)
T ss_pred             HHHHhcCCCEEEEECCCCCcHHHHHHHHHhhhCC
Confidence            3333345557999999999999999999988754

It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.93  E-value=0.088  Score=57.46  Aligned_cols=23  Identities=26%  Similarity=0.365  Sum_probs=20.9

Q ss_pred             eEEeccCCCCchhhHHHHHhccC
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .||+||+|||||++++.+.+.+.
T Consensus        43 ~Lf~GP~GtGKTTlAriLAk~Ln   65 (484)
T PRK14956         43 YIFFGPRGVGKTTIARILAKRLN   65 (484)
T ss_pred             EEEECCCCCCHHHHHHHHHHhcC
Confidence            79999999999999999888765

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=94.92  E-value=0.15  Score=54.67  Aligned_cols=107  Identities=10%  Similarity=0.031  Sum_probs=58.8

Q ss_pred             Cce-EEeccCCCcHhHHHHHHHHHcCCe-----------------------EEEEEec-CCCChhhHHHHHHHHHHHhcc
Q psy12736        448 GHC-MVVGVEGGGKRSLVRLASFAAGYQ-----------------------VFTIQLS-RGYNEASFKEDLKSLYNLLGV  502 (567)
Q Consensus       448 Gh~-LLvG~~GsGr~sl~rlaa~i~~~~-----------------------~~~i~~~-k~y~~~~f~edLk~~~~~ag~  502 (567)
                      +|+ |+.|++|+||+++++..|....|+                       ++.+... +..+..+.|+-. ........
T Consensus        36 ~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~~~~Cg~C~~C~~~~~~~hpD~~~i~~~~~~i~i~~iR~l~-~~~~~~p~  114 (394)
T PRK07940         36 THAWLFTGPPGSGRSVAARAFAAALQCTDPDEPGCGECRACRTVLAGTHPDVRVVAPEGLSIGVDEVRELV-TIAARRPS  114 (394)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCCEEEeccccccCCHHHHHHHH-HHHHhCcc
Confidence            575 799999999999998876543332                       2333322 335555444322 22222334


Q ss_pred             CCCcEEEEEecCcccchhhhHHhh-hccCCc-----cccCcchhHHHHHHHhhccccceeeee
Q psy12736        503 KNQATVFLFTAAEIVEEGYQVFTI-QLSRGY-----NEASFKEDLKSLYNLLGVKNQATVFLF  559 (567)
Q Consensus       503 ~~~~~vfl~~d~qi~~e~fle~in-lL~~Ge-----vp~Lf~~eE~~~i~~~~~~~~~~~~~~  559 (567)
                      .++.-|++++|.+-.++..   .| ||..=|     +.-+......+.|. ..++..+..+-+
T Consensus       115 ~~~~kViiIDead~m~~~a---anaLLk~LEep~~~~~fIL~a~~~~~ll-pTIrSRc~~i~f  173 (394)
T PRK07940        115 TGRWRIVVIEDADRLTERA---ANALLKAVEEPPPRTVWLLCAPSPEDVL-PTIRSRCRHVAL  173 (394)
T ss_pred             cCCcEEEEEechhhcCHHH---HHHHHHHhhcCCCCCeEEEEECChHHCh-HHHHhhCeEEEC
Confidence            5666788888877666543   35 443212     22344444455664 566655555544

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=94.91  E-value=0.018  Score=52.27  Aligned_cols=25  Identities=20%  Similarity=0.498  Sum_probs=21.4

Q ss_pred             CeEEeccCCCCchhhHHHHHhccCC
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      ++.++||+|+|||++++.+.+.++.
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~~~~~   25 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLEEFDP   25 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHhcCCc
Confidence            4789999999999999998877643

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.

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=94.90  E-value=0.032  Score=54.93  Aligned_cols=27  Identities=11%  Similarity=0.260  Sum_probs=23.2

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..+.|++++||+|||||.+++.+.+..
T Consensus        40 ~~~~~~~l~G~~G~GKT~La~ai~~~~   66 (227)
T PRK08903         40 VADRFFYLWGEAGSGRSHLLQALVADA   66 (227)
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            356799999999999999999887654

>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C

Probab=94.90  E-value=0.015  Score=51.11  Aligned_cols=22  Identities=23%  Similarity=0.265  Sum_probs=19.8

Q ss_pred             eEEeccCCCCchhhHHHHHhcc
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l  217 (567)
                      |+|.|++|||||++++.+-+.+
T Consensus         1 I~i~G~~GsGKtTia~~L~~~~   22 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAERL   22 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHHH
Confidence            6899999999999999988775

...

>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model

Probab=94.90  E-value=0.035  Score=49.62  Aligned_cols=37  Identities=27%  Similarity=0.403  Sum_probs=25.2

Q ss_pred             ceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCC
Q psy12736        449 HCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYN  485 (567)
Q Consensus       449 h~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~  485 (567)
                      |+||.|++|.||+++++..|...+.++-.|+.+.+.-
T Consensus         1 HvLleg~PG~GKT~la~~lA~~~~~~f~RIq~tpdll   37 (131)
T PF07726_consen    1 HVLLEGVPGVGKTTLAKALARSLGLSFKRIQFTPDLL   37 (131)
T ss_dssp             -EEEES---HHHHHHHHHHHHHTT--EEEEE--TT--
T ss_pred             CEeeECCCccHHHHHHHHHHHHcCCceeEEEecCCCC
Confidence            8999999999999999999999999999998775433

AAA ATPases form a large, functionally diverse protein family belonging to the AAA+ superfamily of ring-shaped P-loop NTPases, which exert their activity through the energy-dependent unfolding of macromolecules. AAA ATPases contain a P-loop NTPase domain, which is the most abundant class of NTP-binding protein fold, and is found throughout all kingdoms of life []. P-loop NTPase domains act to hydrolyse the beta-gamma phosphate bond of bound nucleoside triphosphate. There are two classes of P-loop domains: the KG (kinase-GTPase) division, and the ASCE division, the latter including the AAA+ group as well as several other ATPases. There are at least six major clades of AAA domains (metalloproteases, meiotic proteins, D1 and D2 domains of ATPases with two AAA domains, proteasome subunits, and BSC1), as well as several minor clades, some of which consist of hypothetical proteins []. The domain organisation of AAA ATPases consists of a non-ATPase N-terminal domain that acts in substrate recognition, followed by one or two AAA domains (D1 and D2), one of which may be degenerate.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 2R44_A.

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=94.88  E-value=0.14  Score=57.83  Aligned_cols=124  Identities=19%  Similarity=0.243  Sum_probs=74.6

Q ss_pred             eEEecHHHHHHHHHHHHHHhcCC-Cc-eEEeccCCCcHhHHHHHHHHHcCCe----------------------------
Q psy12736        425 DLVLFEDAREHLTRIHRALRLSR-GH-CMVVGVEGGGKRSLVRLASFAAGYQ----------------------------  474 (567)
Q Consensus       425 ~lvlf~dai~hi~ri~RvL~~p~-Gh-~LLvG~~GsGr~sl~rlaa~i~~~~----------------------------  474 (567)
                      +++--+.+++++.+.   +...+ .| +||.|+.|+||+++++..|...+|+                            
T Consensus        25 dliGq~~~v~~L~~~---~~~gri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~~cg~c~~C~~i~~g~h~  101 (598)
T PRK09111         25 DLIGQEAMVRTLTNA---FETGRIAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTIDLCGVGEHCQAIMEGRHV  101 (598)
T ss_pred             HhcCcHHHHHHHHHH---HHcCCCCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccccCcccHHHHHHhcCCCC
Confidence            344445556665554   33322 34 6899999999999999888765543                            


Q ss_pred             -EEEEEecCCCChhhHHHHHHHHHHHh---ccCCCcEEEEEecCcccchhhhHHhh-hccC-----CccccCcchhHHHH
Q psy12736        475 -VFTIQLSRGYNEASFKEDLKSLYNLL---GVKNQATVFLFTAAEIVEEGYQVFTI-QLSR-----GYNEASFKEDLKSL  544 (567)
Q Consensus       475 -~~~i~~~k~y~~~~f~edLk~~~~~a---g~~~~~~vfl~~d~qi~~e~fle~in-lL~~-----Gevp~Lf~~eE~~~  544 (567)
                       ++++...+..+..    |+|.++..+   ...+..-|+++.+.+....   +..| ||.+     +.+-=+|...+.++
T Consensus       102 Dv~e~~a~s~~gvd----~IReIie~~~~~P~~a~~KVvIIDEad~Ls~---~a~naLLKtLEePp~~~~fIl~tte~~k  174 (598)
T PRK09111        102 DVLEMDAASHTGVD----DIREIIESVRYRPVSARYKVYIIDEVHMLST---AAFNALLKTLEEPPPHVKFIFATTEIRK  174 (598)
T ss_pred             ceEEecccccCCHH----HHHHHHHHHHhchhcCCcEEEEEEChHhCCH---HHHHHHHHHHHhCCCCeEEEEEeCChhh
Confidence             2333333444554    444444333   3455566777887666554   3455 5543     33334677778888


Q ss_pred             HHHhhccccceeeee
Q psy12736        545 YNLLGVKNQATVFLF  559 (567)
Q Consensus       545 i~~~~~~~~~~~~~~  559 (567)
                      +. ..++..+..+-+
T Consensus       175 ll-~tI~SRcq~~~f  188 (598)
T PRK09111        175 VP-VTVLSRCQRFDL  188 (598)
T ss_pred             hh-HHHHhheeEEEe
Confidence            76 677777766544

>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair

Probab=94.87  E-value=0.016  Score=56.78  Aligned_cols=24  Identities=21%  Similarity=0.224  Sum_probs=20.6

Q ss_pred             CeEEeccCCCCchhhHHHHHhccC
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      |+||.||||+|||+++.-+-+.+.
T Consensus        52 h~lf~GPPG~GKTTLA~IIA~e~~   75 (233)
T PF05496_consen   52 HMLFYGPPGLGKTTLARIIANELG   75 (233)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHCT
T ss_pred             eEEEECCCccchhHHHHHHHhccC
Confidence            799999999999999877766654

Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.

>PHA02244 ATPase-like protein

Probab=94.84  E-value=0.075  Score=56.03  Aligned_cols=89  Identities=10%  Similarity=0.173  Sum_probs=59.0

Q ss_pred             HHHHHHHhcCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecC-CCC-------hhhHHHHHHHHHHHhccCCCcEE
Q psy12736        437 TRIHRALRLSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSR-GYN-------EASFKEDLKSLYNLLGVKNQATV  508 (567)
Q Consensus       437 ~ri~RvL~~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k-~y~-------~~~f~edLk~~~~~ag~~~~~~v  508 (567)
                      .++.|++.. +-++||.|++|+||+++++..|...+..++.++..- .+.       ...|.+   .-+.+|-  .+.-+
T Consensus       110 ~ri~r~l~~-~~PVLL~GppGtGKTtLA~aLA~~lg~pfv~In~l~d~~~L~G~i~~~g~~~d---gpLl~A~--~~Ggv  183 (383)
T PHA02244        110 ADIAKIVNA-NIPVFLKGGAGSGKNHIAEQIAEALDLDFYFMNAIMDEFELKGFIDANGKFHE---TPFYEAF--KKGGL  183 (383)
T ss_pred             HHHHHHHhc-CCCEEEECCCCCCHHHHHHHHHHHhCCCEEEEecChHHHhhcccccccccccc---hHHHHHh--hcCCE
Confidence            366777665 568999999999999999999999999988876210 000       001211   1122221  23347


Q ss_pred             EEEecCcccchhhhHHhh-hccCC
Q psy12736        509 FLFTAAEIVEEGYQVFTI-QLSRG  531 (567)
Q Consensus       509 fl~~d~qi~~e~fle~in-lL~~G  531 (567)
                      ++++|-+...++-+.-+| +|..+
T Consensus       184 LiLDEId~a~p~vq~~L~~lLd~r  207 (383)
T PHA02244        184 FFIDEIDASIPEALIIINSAIANK  207 (383)
T ss_pred             EEEeCcCcCCHHHHHHHHHHhccC
Confidence            788888777788888888 88655

>TIGR03263 guanyl_kin guanylate kinase

Probab=94.84  E-value=0.017  Score=54.52  Aligned_cols=27  Identities=15%  Similarity=0.235  Sum_probs=23.2

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhccCC
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      |+.++++||+|||||++++.+....+.
T Consensus         1 g~ii~l~G~~GsGKsTl~~~L~~~~~~   27 (180)
T TIGR03263         1 GLLIVISGPSGVGKSTLVKALLEEDPN   27 (180)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHccCcc
Confidence            567899999999999999988886543

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.

>PF12774 AAA_6: Hydrolytic ATP binding site of dynein motor region D1; PDB: 3VKH_A 3VKG_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A

Probab=94.83  E-value=0.49  Score=46.93  Aligned_cols=117  Identities=18%  Similarity=0.178  Sum_probs=73.5

Q ss_pred             eEEecHHHHHHHHHHHHHHhcCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCChhhHHHHHHHHHHHhccCC
Q psy12736        425 DLVLFEDAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKN  504 (567)
Q Consensus       425 ~lvlf~dai~hi~ri~RvL~~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~~~~f~edLk~~~~~ag~~~  504 (567)
                      .+|+.+-.=.-..-|...|.+..|.+ +.|+.|+||++.+|-.|.+.|..++..+.+...+......-++.+.. +    
T Consensus        11 rlv~Tplt~r~~~~l~~al~~~~~~~-~~GpagtGKtetik~La~~lG~~~~vfnc~~~~~~~~l~ril~G~~~-~----   84 (231)
T PF12774_consen   11 RLVITPLTDRCFLTLTQALSLNLGGA-LSGPAGTGKTETIKDLARALGRFVVVFNCSEQMDYQSLSRILKGLAQ-S----   84 (231)
T ss_dssp             -----HHHHHHHHHHHHHHCTTTEEE-EESSTTSSHHHHHHHHHHCTT--EEEEETTSSS-HHHHHHHHHHHHH-H----
T ss_pred             CceechHHHHHHHHHHHHhccCCCCC-CcCCCCCCchhHHHHHHHHhCCeEEEecccccccHHHHHHHHHHHhh-c----
Confidence            56665555455556777787766665 79999999999999999999999999999988887644443333332 2    


Q ss_pred             CcEEEEEecCcccchhhhHHhhhccCCccccCcchhHHHHHHHhhccccceeeeeecc
Q psy12736        505 QATVFLFTAAEIVEEGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAA  562 (567)
Q Consensus       505 ~~~vfl~~d~qi~~e~fle~inlL~~Gevp~Lf~~eE~~~i~~~~~~~~~~~~~~~~~  562 (567)
                       ..+.+|++-+-.+.+.|-.|-             +.+..|. ..+++....+-+.|.
T Consensus        85 -GaW~cfdefnrl~~~vLS~i~-------------~~i~~i~-~al~~~~~~~~~~g~  127 (231)
T PF12774_consen   85 -GAWLCFDEFNRLSEEVLSVIS-------------QQIQSIQ-DALRAKQKSFTLEGQ  127 (231)
T ss_dssp             -T-EEEEETCCCSSHHHHHHHH-------------HHHHHHH-HHHHCTSSEEEETTC
T ss_pred             -CchhhhhhhhhhhHHHHHHHH-------------HHHHHHH-HhhcccccccccCCC
Confidence             367888888877776666543             3344454 555555554444443

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=94.83  E-value=0.063  Score=56.18  Aligned_cols=85  Identities=20%  Similarity=0.237  Sum_probs=57.1

Q ss_pred             CCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCChhh------HHHHHHH--HH-HHhcc--CCCcEEEEEecC
Q psy12736        446 SRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEAS------FKEDLKS--LY-NLLGV--KNQATVFLFTAA  514 (567)
Q Consensus       446 p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~~~~------f~edLk~--~~-~~ag~--~~~~~vfl~~d~  514 (567)
                      -+||+||.|++|+||+.+++..|...+.+++.|..+.....++      +...++.  .. ..-|-  .+..+++++++-
T Consensus        42 ~~~~vll~G~PG~gKT~la~~lA~~l~~~~~~i~~t~~l~p~d~~G~~~~~~~~~~~~~~~~~~gpl~~~~~~ill~DEI  121 (329)
T COG0714          42 AGGHVLLEGPPGVGKTLLARALARALGLPFVRIQCTPDLLPSDLLGTYAYAALLLEPGEFRFVPGPLFAAVRVILLLDEI  121 (329)
T ss_pred             cCCCEEEECCCCccHHHHHHHHHHHhCCCeEEEecCCCCCHHHhcCchhHhhhhccCCeEEEecCCcccccceEEEEecc
Confidence            4899999999999999999999999999999999998765432      2222110  00 00011  111136777776


Q ss_pred             cccchhhhHHhh-hccC
Q psy12736        515 EIVEEGYQVFTI-QLSR  530 (567)
Q Consensus       515 qi~~e~fle~in-lL~~  530 (567)
                      .-.++.+.-.+. .|..
T Consensus       122 nra~p~~q~aLl~~l~e  138 (329)
T COG0714         122 NRAPPEVQNALLEALEE  138 (329)
T ss_pred             ccCCHHHHHHHHHHHhC
Confidence            666776766666 6654

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=94.81  E-value=0.013  Score=55.66  Aligned_cols=32  Identities=22%  Similarity=0.141  Sum_probs=24.3

Q ss_pred             HHHHhcCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        187 SLMNEIKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       187 ~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ..++++++++++.||+|||||.++..+.+.+.
T Consensus        41 ~~~~~~~~~l~l~G~~G~GKThLa~ai~~~~~   72 (178)
T PF01695_consen   41 LEFIENGENLILYGPPGTGKTHLAVAIANEAI   72 (178)
T ss_dssp             H-S-SC--EEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             CCCcccCeEEEEEhhHhHHHHHHHHHHHHHhc
Confidence            45677899999999999999999998887653

They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.

>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=94.81  E-value=0.019  Score=49.98  Aligned_cols=23  Identities=26%  Similarity=0.406  Sum_probs=20.2

Q ss_pred             eEEeccCCCCchhhHHHHHhccC
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      |+++|++|+|||+++++++....
T Consensus         2 I~V~G~~g~GKTsLi~~l~~~~~   24 (119)
T PF08477_consen    2 IVVLGDSGVGKTSLIRRLCGGEF   24 (119)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS-
T ss_pred             EEEECcCCCCHHHHHHHHhcCCC
Confidence            78999999999999999997644

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.

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=94.78  E-value=0.16  Score=57.11  Aligned_cols=117  Identities=13%  Similarity=0.138  Sum_probs=71.8

Q ss_pred             HHHHHhcC-CCc-eEEeccCCCcHhHHHHHHHHHcCC------------------------eEEEEEecCCCChhhHHHH
Q psy12736        439 IHRALRLS-RGH-CMVVGVEGGGKRSLVRLASFAAGY------------------------QVFTIQLSRGYNEASFKED  492 (567)
Q Consensus       439 i~RvL~~p-~Gh-~LLvG~~GsGr~sl~rlaa~i~~~------------------------~~~~i~~~k~y~~~~f~ed  492 (567)
                      +.+.++.. -+| .|+.|+.|+||+++++..|...++                        ++..+.-..+.+..+.++ 
T Consensus        28 L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~~pC~~C~~C~~i~~~~~~dv~~idgas~~~vddIr~-  106 (563)
T PRK06647         28 LKHSIESNKIANAYIFSGPRGVGKTSSARAFARCLNCVNGPTPMPCGECSSCKSIDNDNSLDVIEIDGASNTSVQDVRQ-  106 (563)
T ss_pred             HHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhccccCCCCCCCccchHHHHHHcCCCCCeEEecCcccCCHHHHHH-
Confidence            33334432 346 589999999999999988776554                        233343222345554443 


Q ss_pred             HHHHHHHhccCCCcEEEEEecCcccchhhhHHhh-hccCCccc-----cCcchhHHHHHHHhhccccceeeeee
Q psy12736        493 LKSLYNLLGVKNQATVFLFTAAEIVEEGYQVFTI-QLSRGYNE-----ASFKEDLKSLYNLLGVKNQATVFLFT  560 (567)
Q Consensus       493 Lk~~~~~ag~~~~~~vfl~~d~qi~~e~fle~in-lL~~Gevp-----~Lf~~eE~~~i~~~~~~~~~~~~~~~  560 (567)
                      ++.-+......++.-|+++.+.+....   +..| ||..-|-|     =+|...+..+|. ..++..+.++-+.
T Consensus       107 l~e~~~~~p~~~~~KVvIIDEa~~Ls~---~a~naLLK~LEepp~~~vfI~~tte~~kL~-~tI~SRc~~~~f~  176 (563)
T PRK06647        107 IKEEIMFPPASSRYRVYIIDEVHMLSN---SAFNALLKTIEEPPPYIVFIFATTEVHKLP-ATIKSRCQHFNFR  176 (563)
T ss_pred             HHHHHHhchhcCCCEEEEEEChhhcCH---HHHHHHHHhhccCCCCEEEEEecCChHHhH-HHHHHhceEEEec
Confidence            222223344456677788888776655   3567 77665532     246677788886 7788777766554

>smart00072 GuKc Guanylate kinase homologues

Probab=94.78  E-value=0.02  Score=54.55  Aligned_cols=26  Identities=19%  Similarity=0.594  Sum_probs=23.8

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      +++++|+||+|+||+++++.++...+
T Consensus         2 ~r~ivl~Gpsg~GK~tl~~~L~~~~~   27 (184)
T smart00072        2 RRPIVLSGPSGVGKGTLLAELIQEIP   27 (184)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHhcCC
Confidence            67999999999999999999998864

Active enzymes catalyze ATP-dependent phosphorylation of GMP to GDP. Structure resembles that of adenylate kinase. So-called membrane-associated guanylate kinase homologues (MAGUKs) do not possess guanylate kinase activities; instead at least some possess protein-binding functions.

>KOG2004|consensus

Probab=94.77  E-value=0.097  Score=58.70  Aligned_cols=77  Identities=17%  Similarity=0.250  Sum_probs=54.6

Q ss_pred             HHHHHHHHHHHHhcCCCceE-EeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCChhhHH-----------HHHHHHHHH
Q psy12736        432 AREHLTRIHRALRLSRGHCM-VVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFK-----------EDLKSLYNL  499 (567)
Q Consensus       432 ai~hi~ri~RvL~~p~Gh~L-LvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~~~~f~-----------edLk~~~~~  499 (567)
                      .+|+|+ +++.-..-+|.+| ++|++|.||+|+.|=.|...|.++|++.+.---+..|-+           --+=++|++
T Consensus       423 ILEfiA-V~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~ALnRkFfRfSvGG~tDvAeIkGHRRTYVGAMPGkiIq~LK~  501 (906)
T KOG2004|consen  423 ILEFIA-VGKLRGSVQGKILCFVGPPGVGKTSIAKSIARALNRKFFRFSVGGMTDVAEIKGHRRTYVGAMPGKIIQCLKK  501 (906)
T ss_pred             HHHHHH-HHhhcccCCCcEEEEeCCCCCCcccHHHHHHHHhCCceEEEeccccccHHhhcccceeeeccCChHHHHHHHh
Confidence            355553 4444445678775 999999999999999999999999999887433333222           113368889


Q ss_pred             hccCCCcEEEE
Q psy12736        500 LGVKNQATVFL  510 (567)
Q Consensus       500 ag~~~~~~vfl  510 (567)
                      +|++| |++++
T Consensus       502 v~t~N-PliLi  511 (906)
T KOG2004|consen  502 VKTEN-PLILI  511 (906)
T ss_pred             hCCCC-ceEEe
Confidence            99765 66655

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=94.76  E-value=0.019  Score=44.55  Aligned_cols=25  Identities=16%  Similarity=0.306  Sum_probs=20.1

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +.-++++||+|+|||+++..+.--+
T Consensus        23 g~~tli~G~nGsGKSTllDAi~~~L   47 (62)
T PF13555_consen   23 GDVTLITGPNGSGKSTLLDAIQTVL   47 (62)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            3468999999999999998765433

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=94.72  E-value=0.03  Score=59.18  Aligned_cols=37  Identities=27%  Similarity=0.299  Sum_probs=27.7

Q ss_pred             HHHHHHHHHhcC--CCeEEeccCCCCchhhHHHHHhccC
Q psy12736        182 LTWILSLMNEIK--RPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       182 ~~~ll~~ll~~~--~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ....+...+..+  .+++++||+|||||++++.+++.+.
T Consensus        27 l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~   65 (365)
T TIGR02928        27 LAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELE   65 (365)
T ss_pred             HHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHH
Confidence            334444445443  5799999999999999999988764

Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=94.70  E-value=0.02  Score=59.08  Aligned_cols=33  Identities=27%  Similarity=0.333  Sum_probs=25.8

Q ss_pred             HHHHHhcC--CCeEEeccCCCCchhhHHHHHhccC
Q psy12736        186 LSLMNEIK--RPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       186 l~~ll~~~--~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      +..+++.+  .|++++||+|||||++++.+.+.+.
T Consensus        29 l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l~   63 (319)
T PRK00440         29 LKSYVKEKNMPHLLFAGPPGTGKTTAALALARELY   63 (319)
T ss_pred             HHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHc
Confidence            44445544  3699999999999999999988764

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=94.70  E-value=0.057  Score=57.31  Aligned_cols=66  Identities=12%  Similarity=0.243  Sum_probs=44.7

Q ss_pred             CceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecC---CCChhhHHHHHHHHHHHhccCCCcEEEEEecCc
Q psy12736        448 GHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSR---GYNEASFKEDLKSLYNLLGVKNQATVFLFTAAE  515 (567)
Q Consensus       448 Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k---~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~q  515 (567)
                      .++||.|++|+||+++++..|.-.+..++.+..+.   .|- .+-..-++.++..|. .+.|.+++++|-+
T Consensus       157 ~gvLL~GppGtGKT~lakaia~~l~~~~~~v~~~~l~~~~~-g~~~~~i~~~f~~a~-~~~p~il~iDEiD  225 (364)
T TIGR01242       157 KGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVRKYI-GEGARLVREIFELAK-EKAPSIIFIDEID  225 (364)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHhCCCCEEecchHHHHHHhh-hHHHHHHHHHHHHHH-hcCCcEEEhhhhh
Confidence            34999999999999999999999888887764221   110 111123556666554 4568888887643

Many proteins may score above the trusted cutoff because an internal

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.68  E-value=0.14  Score=55.06  Aligned_cols=113  Identities=16%  Similarity=0.219  Sum_probs=61.4

Q ss_pred             HHHHhcC-CCc-eEEeccCCCcHhHHHHHHHHHcCCe--------------------------------EEEEEecCCCC
Q psy12736        440 HRALRLS-RGH-CMVVGVEGGGKRSLVRLASFAAGYQ--------------------------------VFTIQLSRGYN  485 (567)
Q Consensus       440 ~RvL~~p-~Gh-~LLvG~~GsGr~sl~rlaa~i~~~~--------------------------------~~~i~~~k~y~  485 (567)
                      .+.++.. -.| .|+.|++|+||+++++..|....++                                +..++-....+
T Consensus        29 ~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~c~~c~~c~~~~~~~~~n~~~~~~~~~~~  108 (397)
T PRK14955         29 QNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEPCGECESCRDFDAGTSLNISEFDAASNNS  108 (397)
T ss_pred             HHHHHhCCcceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCCCCCCHHHHHHhcCCCCCeEeecccccCC
Confidence            4445542 346 5789999999999999888766552                                22232222223


Q ss_pred             hhhHHHHHHHHHHHh---ccCCCcEEEEEecCcccchhhhHHhh-hccC--CccccCcchhHHHHHHHhhccccceee
Q psy12736        486 EASFKEDLKSLYNLL---GVKNQATVFLFTAAEIVEEGYQVFTI-QLSR--GYNEASFKEDLKSLYNLLGVKNQATVF  557 (567)
Q Consensus       486 ~~~f~edLk~~~~~a---g~~~~~~vfl~~d~qi~~e~fle~in-lL~~--Gevp~Lf~~eE~~~i~~~~~~~~~~~~  557 (567)
                      .    ++++.+...+   ...+..-|+++.+.+-....-.+.+- .|..  +..-=+|..++..++. ..++..+.++
T Consensus       109 i----d~Ir~l~~~~~~~p~~~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~Il~t~~~~kl~-~tl~sR~~~v  181 (397)
T PRK14955        109 V----DDIRLLRENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTELHKIP-ATIASRCQRF  181 (397)
T ss_pred             H----HHHHHHHHHHhhchhcCCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEEEEeCChHHhH-HHHHHHHHHh
Confidence            3    4455544444   55666677888876655542222222 2221  1111234455666775 5565554433

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=94.66  E-value=0.036  Score=52.55  Aligned_cols=26  Identities=15%  Similarity=0.211  Sum_probs=23.9

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .|..++|+||+|+|||++++.++...
T Consensus         3 ~G~l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           3 KGLLIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhhc
Confidence            57889999999999999999999876

>TIGR00763 lon ATP-dependent protease La

Probab=94.66  E-value=0.15  Score=59.70  Aligned_cols=67  Identities=21%  Similarity=0.254  Sum_probs=46.5

Q ss_pred             CC-ceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCChhhHH-----------HHHHHHHHHhccCCCcEEEEEecC
Q psy12736        447 RG-HCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFK-----------EDLKSLYNLLGVKNQATVFLFTAA  514 (567)
Q Consensus       447 ~G-h~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~~~~f~-----------edLk~~~~~ag~~~~~~vfl~~d~  514 (567)
                      +| +++|+|++|+||+++++..|...+..++.+..+...+.++.+           ..+.+.+..|+. ..| |+++++-
T Consensus       346 ~~~~lll~GppG~GKT~lAk~iA~~l~~~~~~i~~~~~~~~~~i~g~~~~~~g~~~g~i~~~l~~~~~-~~~-villDEi  423 (775)
T TIGR00763       346 KGPILCLVGPPGVGKTSLGKSIAKALNRKFVRFSLGGVRDEAEIRGHRRTYVGAMPGRIIQGLKKAKT-KNP-LFLLDEI  423 (775)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHhcCCeEEEeCCCcccHHHHcCCCCceeCCCCchHHHHHHHhCc-CCC-EEEEech
Confidence            44 689999999999999999999989999888765332222221           234566777764 335 5677764


Q ss_pred             c
Q psy12736        515 E  515 (567)
Q Consensus       515 q  515 (567)
                      +
T Consensus       424 d  424 (775)
T TIGR00763       424 D  424 (775)
T ss_pred             h
Confidence            3

This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock.

>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]

Probab=94.65  E-value=0.019  Score=59.48  Aligned_cols=23  Identities=22%  Similarity=0.296  Sum_probs=0.0

Q ss_pred             CCeEEeccCCCCchhhHHHHHhc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      +-|||.||||||||++++..-++
T Consensus       186 KGVLLYGPPGTGKTLLAkAVA~~  208 (406)
T COG1222         186 KGVLLYGPPGTGKTLLAKAVANQ  208 (406)
T ss_pred             CceEeeCCCCCcHHHHHHHHHhc

>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional

Probab=94.63  E-value=0.067  Score=57.46  Aligned_cols=67  Identities=13%  Similarity=0.232  Sum_probs=47.1

Q ss_pred             CCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecC---CCChhhHHHHHHHHHHHhccCCCcEEEEEecC
Q psy12736        446 SRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSR---GYNEASFKEDLKSLYNLLGVKNQATVFLFTAA  514 (567)
Q Consensus       446 p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k---~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~  514 (567)
                      |..++||.|++|+||+++++..|.-.+..++.+..+.   .|- .+-...++.++..|. ...|.+++++|-
T Consensus       178 ~pkgvLL~GppGTGKT~LAkalA~~l~~~fi~i~~s~l~~k~~-ge~~~~lr~lf~~A~-~~~P~ILfIDEI  247 (398)
T PTZ00454        178 PPRGVLLYGPPGTGKTMLAKAVAHHTTATFIRVVGSEFVQKYL-GEGPRMVRDVFRLAR-ENAPSIIFIDEV  247 (398)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHhcCCCEEEEehHHHHHHhc-chhHHHHHHHHHHHH-hcCCeEEEEECH
Confidence            3456899999999999999999999998888875321   111 111234566666663 567888888873

>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein

Probab=94.59  E-value=0.025  Score=56.26  Aligned_cols=33  Identities=18%  Similarity=0.281  Sum_probs=28.3

Q ss_pred             HHHHHhcCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        186 LSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       186 l~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .+.|+.....+.++|++|||||+++..+|..+.
T Consensus         6 ~~~l~~~~fr~viIG~sGSGKT~li~~lL~~~~   38 (241)
T PF04665_consen    6 RNSLLKDPFRMVIIGKSGSGKTTLIKSLLYYLR   38 (241)
T ss_pred             hhHhcCCCceEEEECCCCCCHHHHHHHHHHhhc
Confidence            356677778899999999999999999998764

This is thought to be an ATPase involved in viral DNA packaging [].

>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX)

Probab=94.59  E-value=0.11  Score=55.84  Aligned_cols=69  Identities=16%  Similarity=0.243  Sum_probs=43.5

Q ss_pred             CCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEec----CCCChhhHHHHHHHHHHHhcc---CCCcEEEEEecCc
Q psy12736        447 RGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLS----RGYNEASFKEDLKSLYNLLGV---KNQATVFLFTAAE  515 (567)
Q Consensus       447 ~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~----k~y~~~~f~edLk~~~~~ag~---~~~~~vfl~~d~q  515 (567)
                      .||+||+|++|+||++++|..|...+..+..++.+    .+|--.+-..-|..++..+..   ...+-++++++-+
T Consensus       116 ~~~iLL~GP~GsGKT~lAraLA~~l~~pf~~~da~~L~~~gyvG~d~e~~L~~~~~~~~~~l~~a~~gIV~lDEId  191 (413)
T TIGR00382       116 KSNILLIGPTGSGKTLLAQTLARILNVPFAIADATTLTEAGYVGEDVENILLKLLQAADYDVEKAQKGIIYIDEID  191 (413)
T ss_pred             CceEEEECCCCcCHHHHHHHHHHhcCCCeEEechhhccccccccccHHHHHHHHHHhCcccHHhcccceEEecccc
Confidence            58999999999999999999998888777666533    234222222234444443321   2344466666655

A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.

>PRK06893 DNA replication initiation factor; Validated

Probab=94.58  E-value=0.045  Score=54.15  Aligned_cols=26  Identities=12%  Similarity=0.300  Sum_probs=20.9

Q ss_pred             cCCC-eEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRP-CIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~p-vLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ...| ++|+||+|||||.++...-+.+
T Consensus        37 ~~~~~l~l~G~~G~GKThL~~ai~~~~   63 (229)
T PRK06893         37 LQQPFFYIWGGKSSGKSHLLKAVSNHY   63 (229)
T ss_pred             cCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            3445 5899999999999998877653

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=94.56  E-value=0.02  Score=58.73  Aligned_cols=25  Identities=24%  Similarity=0.340  Sum_probs=20.9

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +.|+++.||||||||++++.+.+.+
T Consensus        58 ~~~vll~G~pGTGKT~lA~~ia~~l   82 (284)
T TIGR02880        58 TLHMSFTGNPGTGKTTVALRMAQIL   82 (284)
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHHH
Confidence            5689999999999999997665543

Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.

>PF05729 NACHT: NACHT domain

Probab=94.53  E-value=0.02  Score=52.59  Aligned_cols=26  Identities=19%  Similarity=0.419  Sum_probs=22.3

Q ss_pred             CCeEEeccCCCCchhhHHHHHhccCC
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      +.++++|++|+|||++++.+...+..
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~   26 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAE   26 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHh
Confidence            35899999999999999998877654

>PRK00300 gmk guanylate kinase; Provisional

Probab=94.51  E-value=0.02  Score=55.24  Aligned_cols=28  Identities=14%  Similarity=0.201  Sum_probs=24.5

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ..|.-+.++||+|||||++++.+...++
T Consensus         3 ~~g~~i~i~G~sGsGKstl~~~l~~~~~   30 (205)
T PRK00300          3 RRGLLIVLSGPSGAGKSTLVKALLERDP   30 (205)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhCc
Confidence            4678899999999999999998888765

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=94.49  E-value=0.025  Score=54.04  Aligned_cols=25  Identities=12%  Similarity=0.252  Sum_probs=21.6

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +..+.|+||+|||||++++.+...+
T Consensus         2 g~~i~l~G~sGsGKsTl~~~l~~~~   26 (186)
T PRK10078          2 GKLIWLMGPSGSGKDSLLAALRQRE   26 (186)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhccC
Confidence            5689999999999999999886554

>PF06068 TIP49: TIP49 C-terminus; InterPro: IPR010339 This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins

Probab=94.48  E-value=0.038  Score=57.81  Aligned_cols=51  Identities=29%  Similarity=0.341  Sum_probs=39.4

Q ss_pred             ccccccCcchhhHHHHHHHHHhc----CCCeEEeccCCCCchhhHHHHHhccCCC
Q psy12736        170 GDILVPTTDSTKLTWILSLMNEI----KRPCIVVGDTGTSKTATMMNFLRSLSPD  220 (567)
Q Consensus       170 ~~i~VpT~dtvR~~~ll~~ll~~----~~pvLl~GptGtGKT~~i~~~l~~l~~~  220 (567)
                      .+=+|=-.+.-+...++-.+++.    |+.+|++||||||||+++..+-+.|-++
T Consensus        23 ~~GlVGQ~~AReAagiiv~mIk~~K~aGr~iLiaGppGtGKTAlA~~ia~eLG~~   77 (398)
T PF06068_consen   23 ADGLVGQEKAREAAGIIVDMIKEGKIAGRAILIAGPPGTGKTALAMAIAKELGED   77 (398)
T ss_dssp             ETTEES-HHHHHHHHHHHHHHHTT--TT-EEEEEE-TTSSHHHHHHHHHHHCTTT
T ss_pred             cccccChHHHHHHHHHHHHHHhcccccCcEEEEeCCCCCCchHHHHHHHHHhCCC
Confidence            34567777778888888888864    6799999999999999999998887644

The N-terminal domain contains the AAA ATPase, central region IPR003959 from INTERPRO domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway []. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities. TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases [].; GO: 0003678 DNA helicase activity, 0005524 ATP binding; PDB: 2XSZ_E 2CQA_A 2C9O_C.

>CHL00181 cbbX CbbX; Provisional

Probab=94.48  E-value=0.021  Score=58.63  Aligned_cols=26  Identities=23%  Similarity=0.240  Sum_probs=22.0

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+.|++|.||||||||++++.+-..+
T Consensus        58 ~~~~ill~G~pGtGKT~lAr~la~~~   83 (287)
T CHL00181         58 PGLHMSFTGSPGTGKTTVALKMADIL   83 (287)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHH
Confidence            36789999999999999998886543

>PRK09183 transposase/IS protein; Provisional

Probab=94.46  E-value=0.023  Score=57.47  Aligned_cols=27  Identities=19%  Similarity=0.246  Sum_probs=23.7

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      +..+.+++++||+|||||.++..+...
T Consensus        99 i~~~~~v~l~Gp~GtGKThLa~al~~~  125 (259)
T PRK09183         99 IERNENIVLLGPSGVGKTHLAIALGYE  125 (259)
T ss_pred             hhcCCeEEEEeCCCCCHHHHHHHHHHH
Confidence            567899999999999999999987554

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.43  E-value=0.2  Score=56.58  Aligned_cols=107  Identities=18%  Similarity=0.242  Sum_probs=66.4

Q ss_pred             Cce-EEeccCCCcHhHHHHHHHHHcCCe------------------------EEEEEecCCCChhhHHHHHHHHHHHhcc
Q psy12736        448 GHC-MVVGVEGGGKRSLVRLASFAAGYQ------------------------VFTIQLSRGYNEASFKEDLKSLYNLLGV  502 (567)
Q Consensus       448 Gh~-LLvG~~GsGr~sl~rlaa~i~~~~------------------------~~~i~~~k~y~~~~f~edLk~~~~~ag~  502 (567)
                      .|+ |+.|+.|+||+++++.-|...+|+                        +++++-..+.+..+.++ |+.-+.....
T Consensus        38 ~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~~~c~~c~~c~~i~~g~~~d~~eid~~s~~~v~~ir~-l~~~~~~~p~  116 (576)
T PRK14965         38 AHAFLFTGARGVGKTSTARILAKALNCEQGLTAEPCNVCPPCVEITEGRSVDVFEIDGASNTGVDDIRE-LRENVKYLPS  116 (576)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCCCCCCccHHHHHHhcCCCCCeeeeeccCccCHHHHHH-HHHHHHhccc
Confidence            576 899999999999999887665442                        44554444556655443 4444444445


Q ss_pred             CCCcEEEEEecCcccchhhhHHhh-hccC-----CccccCcchhHHHHHHHhhccccceeeee
Q psy12736        503 KNQATVFLFTAAEIVEEGYQVFTI-QLSR-----GYNEASFKEDLKSLYNLLGVKNQATVFLF  559 (567)
Q Consensus       503 ~~~~~vfl~~d~qi~~e~fle~in-lL~~-----Gevp~Lf~~eE~~~i~~~~~~~~~~~~~~  559 (567)
                      .++.-|+++++.+....   +..| ||..     +.+.=+|...+.++|. .+++..+..+-+
T Consensus       117 ~~~~KVvIIdev~~Lt~---~a~naLLk~LEepp~~~~fIl~t~~~~kl~-~tI~SRc~~~~f  175 (576)
T PRK14965        117 RSRYKIFIIDEVHMLST---NAFNALLKTLEEPPPHVKFIFATTEPHKVP-ITILSRCQRFDF  175 (576)
T ss_pred             cCCceEEEEEChhhCCH---HHHHHHHHHHHcCCCCeEEEEEeCChhhhh-HHHHHhhhhhhc
Confidence            56666788888665554   2344 4432     3344456667777886 777766665544

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=94.43  E-value=0.074  Score=53.69  Aligned_cols=66  Identities=12%  Similarity=0.092  Sum_probs=39.3

Q ss_pred             CCceEEeccCCCcHhHHHHHHHHHc-------CCeEEEEEecCCCC--hhhHHHHHHHHHHHhccCCCcEEEEEecCcc
Q psy12736        447 RGHCMVVGVEGGGKRSLVRLASFAA-------GYQVFTIQLSRGYN--EASFKEDLKSLYNLLGVKNQATVFLFTAAEI  516 (567)
Q Consensus       447 ~Gh~LLvG~~GsGr~sl~rlaa~i~-------~~~~~~i~~~k~y~--~~~f~edLk~~~~~ag~~~~~~vfl~~d~qi  516 (567)
                      .+|+||.|++|+||++++|..|...       ...++.+..+.-.+  ..+-...++.++.+|.    +.|++++|.+-
T Consensus        42 ~~~vll~GppGtGKTtlA~~ia~~l~~~~~~~~~~~v~~~~~~l~~~~~g~~~~~~~~~~~~a~----~~VL~IDE~~~  116 (261)
T TIGR02881        42 VLHMIFKGNPGTGKTTVARILGKLFKEMNVLSKGHLIEVERADLVGEYIGHTAQKTREVIKKAL----GGVLFIDEAYS  116 (261)
T ss_pred             cceEEEEcCCCCCHHHHHHHHHHHHHhcCcccCCceEEecHHHhhhhhccchHHHHHHHHHhcc----CCEEEEechhh
Confidence            4699999999999999999998653       22344333211000  1111344566666652    23677776553

Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.

>KOG0989|consensus

Probab=94.41  E-value=0.039  Score=56.03  Aligned_cols=37  Identities=27%  Similarity=0.354  Sum_probs=28.3

Q ss_pred             HHHHHHHHh-cCCCeEEeccCCCCchhhHHHHHhccCC
Q psy12736        183 TWILSLMNE-IKRPCIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       183 ~~ll~~ll~-~~~pvLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      .-|.+.+.. ..-+.|+.||+|||||+++.-+-+.+..
T Consensus        46 ~~L~~a~~~~~lp~~LFyGPpGTGKTStalafar~L~~   83 (346)
T KOG0989|consen   46 QVLKNALLRRILPHYLFYGPPGTGKTSTALAFARALNC   83 (346)
T ss_pred             HHHHHHHhhcCCceEEeeCCCCCcHhHHHHHHHHHhcC
Confidence            345666666 4456788999999999999998877654

>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=94.36  E-value=0.03  Score=60.70  Aligned_cols=32  Identities=28%  Similarity=0.361  Sum_probs=25.6

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhccCCCcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSLSPDKY  222 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l~~~~~  222 (567)
                      +.+==+|++||||||||+++-.+|+.+.....
T Consensus       256 ~p~GliLvTGPTGSGKTTTLY~~L~~ln~~~~  287 (500)
T COG2804         256 RPQGLILVTGPTGSGKTTTLYAALSELNTPER  287 (500)
T ss_pred             CCCeEEEEeCCCCCCHHHHHHHHHHHhcCCCc
Confidence            33445788899999999999999998876543

>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function

Probab=94.35  E-value=0.024  Score=56.21  Aligned_cols=28  Identities=18%  Similarity=0.303  Sum_probs=24.7

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhccCC
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      .-.||||.|+.|||||++|+.++..+.+
T Consensus        51 pannvLL~G~rGtGKSSlVkall~~y~~   78 (249)
T PF05673_consen   51 PANNVLLWGARGTGKSSLVKALLNEYAD   78 (249)
T ss_pred             CCcceEEecCCCCCHHHHHHHHHHHHhh
Confidence            3569999999999999999999998754

>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional

Probab=94.32  E-value=0.039  Score=59.58  Aligned_cols=29  Identities=28%  Similarity=0.298  Sum_probs=24.9

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      +..+++++++||||||||.+++.+...+.
T Consensus       191 L~~~~~iil~GppGtGKT~lA~~la~~l~  219 (459)
T PRK11331        191 LTIKKNIILQGPPGVGKTFVARRLAYLLT  219 (459)
T ss_pred             HhcCCCEEEECCCCCCHHHHHHHHHHHhc
Confidence            44699999999999999999998776654

>smart00763 AAA_PrkA PrkA AAA domain

Probab=94.29  E-value=0.025  Score=59.32  Aligned_cols=28  Identities=21%  Similarity=0.286  Sum_probs=24.1

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhccCC
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      .++.++|+||||||||+++..+.+.+..
T Consensus        77 ~r~il~L~GPPGsGKStla~~La~~l~~  104 (361)
T smart00763       77 RKQILYLLGPVGGGKSSLVECLKRGLEE  104 (361)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            4688899999999999999998777643

This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.

>KOG0731|consensus

Probab=94.29  E-value=0.11  Score=59.16  Aligned_cols=64  Identities=25%  Similarity=0.516  Sum_probs=49.8

Q ss_pred             hcCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCChhhHHHHH--------HHHHHHhccCCCcEEEEEecCc
Q psy12736        444 RLSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDL--------KSLYNLLGVKNQATVFLFTAAE  515 (567)
Q Consensus       444 ~~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~~~~f~edL--------k~~~~~ag~~~~~~vfl~~d~q  515 (567)
                      +.|+| +||+|++|+||+.|+|-.|--+|-.++.+.      -+||-|-+        +.++..| -++.|+.+.+++-+
T Consensus       342 KiPkG-vLL~GPPGTGKTLLAKAiAGEAgVPF~svS------GSEFvE~~~g~~asrvr~lf~~a-r~~aP~iifideid  413 (774)
T KOG0731|consen  342 KIPKG-VLLVGPPGTGKTLLAKAIAGEAGVPFFSVS------GSEFVEMFVGVGASRVRDLFPLA-RKNAPSIIFIDEID  413 (774)
T ss_pred             cCcCc-eEEECCCCCcHHHHHHHHhcccCCceeeec------hHHHHHHhcccchHHHHHHHHHh-hccCCeEEEecccc
Confidence            34666 899999999999999999999999999985      44666554        4556665 47889888887643

>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=94.29  E-value=0.045  Score=56.64  Aligned_cols=52  Identities=33%  Similarity=0.431  Sum_probs=42.2

Q ss_pred             CccccccCcchhhHHHHHHHHHhc----CCCeEEeccCCCCchhhHHHHHhccCCC
Q psy12736        169 FGDILVPTTDSTKLTWILSLMNEI----KRPCIVVGDTGTSKTATMMNFLRSLSPD  220 (567)
Q Consensus       169 ~~~i~VpT~dtvR~~~ll~~ll~~----~~pvLl~GptGtGKT~~i~~~l~~l~~~  220 (567)
                      ..+-+|--.+.-+...++-.++++    |+-||++||||||||+++-.+-+.|-.+
T Consensus        37 ~~dG~VGQ~~AReAaGvIv~mik~gk~aGrgiLi~GppgTGKTAlA~gIa~eLG~d   92 (450)
T COG1224          37 IGDGLVGQEEAREAAGVIVKMIKQGKMAGRGILIVGPPGTGKTALAMGIARELGED   92 (450)
T ss_pred             cCCcccchHHHHHhhhHHHHHHHhCcccccEEEEECCCCCcHHHHHHHHHHHhCCC
Confidence            345567777777788888888875    5799999999999999999998887643

>PRK13531 regulatory ATPase RavA; Provisional

Probab=94.28  E-value=0.032  Score=60.74  Aligned_cols=31  Identities=13%  Similarity=0.156  Sum_probs=25.6

Q ss_pred             HHHHhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        187 SLMNEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       187 ~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      -..+..+.|||+.||||||||++++.+-...
T Consensus        33 l~aalag~hVLL~GpPGTGKT~LAraLa~~~   63 (498)
T PRK13531         33 LLAALSGESVFLLGPPGIAKSLIARRLKFAF   63 (498)
T ss_pred             HHHHccCCCEEEECCCChhHHHHHHHHHHHh
Confidence            3445689999999999999999998876543

>TIGR02533 type_II_gspE general secretory pathway protein E

Probab=94.26  E-value=0.062  Score=59.25  Aligned_cols=49  Identities=24%  Similarity=0.276  Sum_probs=0.0

Q ss_pred             HHHHHHHHHhcCCC-eEEeccCCCCchhhHHHHHhccCCCcceeee-cCCC
Q psy12736        182 LTWILSLMNEIKRP-CIVVGDTGTSKTATMMNFLRSLSPDKYLVIA-ELPP  230 (567)
Q Consensus       182 ~~~ll~~ll~~~~p-vLl~GptGtGKT~~i~~~l~~l~~~~~~~~~-egPp  230 (567)
                      ....+..++...+- ++++||||||||+++..+|+.++......+. |.|+
T Consensus       230 ~~~~l~~~~~~~~GlilitGptGSGKTTtL~a~L~~l~~~~~~iiTiEDpv  280 (486)
T TIGR02533       230 LLSRFERLIRRPHGIILVTGPTGSGKTTTLYAALSRLNTPERNILTVEDPV  280 (486)
T ss_pred             HHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHhccCCCCCcEEEEcCCe

This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis.

>PRK09087 hypothetical protein; Validated

Probab=94.22  E-value=0.046  Score=54.08  Aligned_cols=24  Identities=17%  Similarity=0.243  Sum_probs=20.4

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      +.++.|+||+|||||.+++.....
T Consensus        44 ~~~l~l~G~~GsGKThLl~~~~~~   67 (226)
T PRK09087         44 SPVVVLAGPVGSGKTHLASIWREK   67 (226)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHh
Confidence            445999999999999999976654

>PRK00131 aroK shikimate kinase; Reviewed

Probab=94.22  E-value=0.028  Score=52.44  Aligned_cols=26  Identities=15%  Similarity=0.192  Sum_probs=22.9

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+..++++|++|||||++.+.+-..+
T Consensus         3 ~~~~i~l~G~~GsGKstla~~La~~l   28 (175)
T PRK00131          3 KGPNIVLIGFMGAGKSTIGRLLAKRL   28 (175)
T ss_pred             CCCeEEEEcCCCCCHHHHHHHHHHHh
Confidence            56789999999999999998887765

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=94.21  E-value=0.025  Score=48.91  Aligned_cols=22  Identities=18%  Similarity=0.339  Sum_probs=18.6

Q ss_pred             eEEeccCCCCchhhHHHHHhcc
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l  217 (567)
                      |.+.||+|+|||.+++.+.+.+
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l   22 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDL   22 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHH
Confidence            5789999999999999976543

All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity

>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop

Probab=94.21  E-value=0.052  Score=48.34  Aligned_cols=42  Identities=24%  Similarity=0.308  Sum_probs=33.3

Q ss_pred             hhhHHHHHHHHHhcCCCeEEeccCCCCchhhHHHHHhccCCC
Q psy12736        179 STKLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLSPD  220 (567)
Q Consensus       179 tvR~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~~~  220 (567)
                      |.+...-+...++.+.=|+|.|+-|+|||++++.+.+.+..+
T Consensus         1 T~~la~~l~~~l~~g~vi~L~GdLGaGKTtf~r~l~~~lg~~   42 (123)
T PF02367_consen    1 TIRLAKKLAQILKPGDVILLSGDLGAGKTTFVRGLARALGID   42 (123)
T ss_dssp             HHHHHHHHHHHHSS-EEEEEEESTTSSHHHHHHHHHHHTT--
T ss_pred             CHHHHHHHHHhCCCCCEEEEECCCCCCHHHHHHHHHHHcCCC
Confidence            455666677778899999999999999999999999987543

They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=94.20  E-value=0.05  Score=56.92  Aligned_cols=44  Identities=16%  Similarity=0.296  Sum_probs=34.0

Q ss_pred             ccccCcchhhHHHHHHHHHhcCCCeEEeccCCCCchhhHHHHHh
Q psy12736        172 ILVPTTDSTKLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLR  215 (567)
Q Consensus       172 i~VpT~dtvR~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~  215 (567)
                      ++-......+....+..+...+.|||++|++||||+.+++.+-.
T Consensus         8 liG~S~~~~~~~~~i~~~a~~~~pVlI~GE~GtGK~~lA~~iH~   51 (326)
T PRK11608          8 LLGEANSFLEVLEQVSRLAPLDKPVLIIGERGTGKELIASRLHY   51 (326)
T ss_pred             cEECCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHH
Confidence            34444455566667777888999999999999999999986543

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=94.18  E-value=0.045  Score=61.98  Aligned_cols=38  Identities=18%  Similarity=0.322  Sum_probs=32.2

Q ss_pred             HHHHHHHhcCCCeEEeccCCCCchhhHHHHHhccCCCc
Q psy12736        184 WILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLSPDK  221 (567)
Q Consensus       184 ~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~~~~  221 (567)
                      -.+...+.++++++++||+|||||++++.+.+.++...
T Consensus        28 ~~l~~a~~~~~~~ll~G~pG~GKT~la~~la~~l~~~~   65 (608)
T TIGR00764        28 EIIKKAAKQKRNVLLIGEPGVGKSMLAKAMAELLPDEE   65 (608)
T ss_pred             HHHHHHHHcCCCEEEECCCCCCHHHHHHHHHHHcCchh
Confidence            35666677889999999999999999999998887553

Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.

>PF00270 DEAD: DEAD/DEAH box helicase; InterPro: IPR011545 Members of this family include the DEAD and DEAH box helicases

Probab=94.15  E-value=0.05  Score=50.26  Aligned_cols=31  Identities=13%  Similarity=0.114  Sum_probs=24.4

Q ss_pred             HHHHHHHHhcCCCeEEeccCCCCchhhHHHHH
Q psy12736        183 TWILSLMNEIKRPCIVVGDTGTSKTATMMNFL  214 (567)
Q Consensus       183 ~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l  214 (567)
                      ...+..++ .++++++.||||+|||....-.+
T Consensus         5 ~~~~~~i~-~~~~~li~aptGsGKT~~~~~~~   35 (169)
T PF00270_consen    5 QEAIEAII-SGKNVLISAPTGSGKTLAYILPA   35 (169)
T ss_dssp             HHHHHHHH-TTSEEEEECSTTSSHHHHHHHHH
T ss_pred             HHHHHHHH-cCCCEEEECCCCCccHHHHHHHH
Confidence            34555566 68899999999999999887543

Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0008026 ATP-dependent helicase activity; PDB: 3RRM_A 3RRN_A 3PEW_A 2KBE_A 3PEY_A 3FHO_A 2ZJA_A 2ZJ8_A 2ZJ5_A 2ZJ2_A ....

>PRK08118 topology modulation protein; Reviewed

Probab=94.14  E-value=0.03  Score=52.59  Aligned_cols=25  Identities=20%  Similarity=0.397  Sum_probs=21.0

Q ss_pred             CCeEEeccCCCCchhhHHHHHhccC
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      +.++++||+|||||++++.+-+.+.
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~l~   26 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEKLN   26 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3589999999999999988877653

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=94.13  E-value=0.028  Score=57.86  Aligned_cols=25  Identities=16%  Similarity=0.215  Sum_probs=22.0

Q ss_pred             CCeEEeccCCCCchhhHHHHHhccC
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .|++++||+|||||++++.+.+.+.
T Consensus        31 ~~~ll~Gp~G~GKT~la~~ia~~~~   55 (305)
T TIGR00635        31 DHLLLYGPPGLGKTTLAHIIANEMG   55 (305)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhC
Confidence            4699999999999999999887654

RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=94.11  E-value=0.03  Score=60.04  Aligned_cols=25  Identities=20%  Similarity=0.251  Sum_probs=22.0

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+.+||+||||||||++++.+.+.+
T Consensus       165 p~gvLL~GppGtGKT~lAkaia~~~  189 (389)
T PRK03992        165 PKGVLLYGPPGTGKTLLAKAVAHET  189 (389)
T ss_pred             CCceEEECCCCCChHHHHHHHHHHh
Confidence            4679999999999999999987764

>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP

Probab=94.10  E-value=0.039  Score=53.65  Aligned_cols=26  Identities=23%  Similarity=0.505  Sum_probs=23.9

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      +.++++.||.|+|||++++.+++.+.
T Consensus        20 ~~~~~l~G~rg~GKTsLl~~~~~~~~   45 (234)
T PF01637_consen   20 SQHILLYGPRGSGKTSLLKEFINELK   45 (234)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHCT
T ss_pred             CcEEEEEcCCcCCHHHHHHHHHHHhh
Confidence            68999999999999999999999874

; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.

>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional

Probab=94.10  E-value=0.03  Score=60.12  Aligned_cols=26  Identities=23%  Similarity=0.235  Sum_probs=22.9

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..+.+||.||+|||||++++.+.+.+
T Consensus       178 ~pkgvLL~GppGTGKT~LAkalA~~l  203 (398)
T PTZ00454        178 PPRGVLLYGPPGTGKTMLAKAVAHHT  203 (398)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHhc
Confidence            46889999999999999999887754

>TIGR03689 pup_AAA proteasome ATPase

Probab=94.09  E-value=0.028  Score=61.91  Aligned_cols=37  Identities=11%  Similarity=-0.080  Sum_probs=29.7

Q ss_pred             CcccchhhhHHhh--hccCCccccCcchhHHHHHHHhhccc
Q psy12736        514 AEIVEEGYQVFTI--QLSRGYNEASFKEDLKSLYNLLGVKN  552 (567)
Q Consensus       514 ~qi~~e~fle~in--lL~~Gevp~Lf~~eE~~~i~~~~~~~  552 (567)
                      .+|..+-+++.++  .-.+-+.|+-=.+||+..|.  +.+.
T Consensus       464 ~~~~~~~l~~a~~~e~~~~~~~~~~~~~~~w~~~~--~~~~  502 (512)
T TIGR03689       464 VGLRIEHLLAAVLDEFRESEDLPNTTNPDDWARIS--GKKG  502 (512)
T ss_pred             cCcCHHHHHHHHHHhhcccccCCCCCCHHHHhhhh--CCCC
Confidence            3666778888888  77788999999999999984  5553

In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=94.09  E-value=0.03  Score=59.46  Aligned_cols=25  Identities=20%  Similarity=0.251  Sum_probs=22.0

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+.+||+||+|||||++++.+.+.+
T Consensus       156 p~gvLL~GppGtGKT~lakaia~~l  180 (364)
T TIGR01242       156 PKGVLLYGPPGTGKTLLAKAVAHET  180 (364)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHhC
Confidence            4569999999999999999988765

Many proteins may score above the trusted cutoff because an internal

>PRK08727 hypothetical protein; Validated

Probab=94.08  E-value=0.056  Score=53.66  Aligned_cols=26  Identities=19%  Similarity=0.166  Sum_probs=21.8

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ...+++++||+|||||.++..+....
T Consensus        40 ~~~~l~l~G~~G~GKThL~~a~~~~~   65 (233)
T PRK08727         40 SSDWLYLSGPAGTGKTHLALALCAAA   65 (233)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            34579999999999999999876654

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=94.05  E-value=0.028  Score=59.60  Aligned_cols=30  Identities=23%  Similarity=0.232  Sum_probs=25.4

Q ss_pred             HHHhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        188 LMNEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       188 ~ll~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .++..+..++|+||||+|||+++..+...+
T Consensus       132 ~~~~~g~ii~lvGptGvGKTTtiakLA~~~  161 (374)
T PRK14722        132 ALMERGGVFALMGPTGVGKTTTTAKLAARC  161 (374)
T ss_pred             ccccCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            345578999999999999999999987653

>PRK07261 topology modulation protein; Provisional

Probab=94.03  E-value=0.034  Score=52.45  Aligned_cols=23  Identities=13%  Similarity=0.307  Sum_probs=19.7

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .++++|++|||||++++.+...+
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~   24 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHY   24 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHh
Confidence            47899999999999999876554

>PRK10865 protein disaggregation chaperone; Provisional

Probab=94.00  E-value=0.22  Score=58.78  Aligned_cols=107  Identities=18%  Similarity=0.182  Sum_probs=61.7

Q ss_pred             eEEecHHHHHHHHHHHHHHh-------cCCCceEEeccCCCcHhHHHHHHHHHc---CCeEEEEEecCCCChhhHHHHH-
Q psy12736        425 DLVLFEDAREHLTRIHRALR-------LSRGHCMVVGVEGGGKRSLVRLASFAA---GYQVFTIQLSRGYNEASFKEDL-  493 (567)
Q Consensus       425 ~lvlf~dai~hi~ri~RvL~-------~p~Gh~LLvG~~GsGr~sl~rlaa~i~---~~~~~~i~~~k~y~~~~f~edL-  493 (567)
                      .++=-+.|+++|++--+..+       .|.|++||+|++|+||+++++..|...   +..++.+..+. |........| 
T Consensus       569 ~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l~~~~~~~i~id~se-~~~~~~~~~Li  647 (857)
T PRK10865        569 RVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFMFDSDDAMVRIDMSE-FMEKHSVSRLV  647 (857)
T ss_pred             eEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHhhcCCCcEEEEEhHH-hhhhhhHHHHh
Confidence            45556788888887655432       344889999999999999998777543   33465555432 1111000000 


Q ss_pred             -----------HHHHHHhccCCCcEEEEEecCcccchhhhHHhh-hccCCc
Q psy12736        494 -----------KSLYNLLGVKNQATVFLFTAAEIVEEGYQVFTI-QLSRGY  532 (567)
Q Consensus       494 -----------k~~~~~ag~~~~~~vfl~~d~qi~~e~fle~in-lL~~Ge  532 (567)
                                 ...+..+.......|++++|-+-.++.....+= +|..|.
T Consensus       648 G~~pgy~g~~~~g~l~~~v~~~p~~vLllDEieka~~~v~~~Ll~ile~g~  698 (857)
T PRK10865        648 GAPPGYVGYEEGGYLTEAVRRRPYSVILLDEVEKAHPDVFNILLQVLDDGR  698 (857)
T ss_pred             CCCCcccccchhHHHHHHHHhCCCCeEEEeehhhCCHHHHHHHHHHHhhCc
Confidence                       011222211222368888887766766666555 666654

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=94.00  E-value=0.034  Score=52.54  Aligned_cols=25  Identities=28%  Similarity=0.309  Sum_probs=21.0

Q ss_pred             CCeEEeccCCCCchhhHHHHHhccC
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .-++++||+|||||++++.+...+.
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~~~   26 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARARLA   26 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcC
Confidence            4578999999999999998776653

Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=93.99  E-value=0.32  Score=51.93  Aligned_cols=35  Identities=17%  Similarity=0.129  Sum_probs=26.7

Q ss_pred             CCceEEeccCCCcHhHHHHHHHHHc-----CCeEEEEEec
Q psy12736        447 RGHCMVVGVEGGGKRSLVRLASFAA-----GYQVFTIQLS  481 (567)
Q Consensus       447 ~Gh~LLvG~~GsGr~sl~rlaa~i~-----~~~~~~i~~~  481 (567)
                      .+++++.|++|+||+++++-++.-.     +..++.++..
T Consensus        55 ~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~   94 (394)
T PRK00411         55 PLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQ   94 (394)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECC
Confidence            4679999999999999999776543     4556666543

>PRK12377 putative replication protein; Provisional

Probab=93.99  E-value=0.054  Score=54.32  Aligned_cols=32  Identities=16%  Similarity=0.069  Sum_probs=25.8

Q ss_pred             HHHHhcCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        187 SLMNEIKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       187 ~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      +.+.....+++|.||+|||||.++..+.+.+.
T Consensus        95 ~~~~~~~~~l~l~G~~GtGKThLa~AIa~~l~  126 (248)
T PRK12377         95 DELMTGCTNFVFSGKPGTGKNHLAAAIGNRLL  126 (248)
T ss_pred             HHHHhcCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            33444567899999999999999999887764

>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []

Probab=93.97  E-value=0.32  Score=49.34  Aligned_cols=55  Identities=20%  Similarity=0.262  Sum_probs=36.5

Q ss_pred             HHHHHHHHHhc---CCCceEEeccCCCcHhHHHHHHHHH---c-CC-eEEEEEecCCCChhhH
Q psy12736        435 HLTRIHRALRL---SRGHCMVVGVEGGGKRSLVRLASFA---A-GY-QVFTIQLSRGYNEASF  489 (567)
Q Consensus       435 hi~ri~RvL~~---p~Gh~LLvG~~GsGr~sl~rlaa~i---~-~~-~~~~i~~~k~y~~~~f  489 (567)
                      ++.+|...|..   +.+.+.++|+||+||++|++-++.-   . .+ -++-+..++..+..+.
T Consensus         4 ~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~   66 (287)
T PF00931_consen    4 EIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQL   66 (287)
T ss_dssp             HHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHH
T ss_pred             HHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeecccccccccccccccccccccccccccc
Confidence            45566666665   4556789999999999999887754   1 23 2455677776665443

This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.

>PRK08084 DNA replication initiation factor; Provisional

Probab=93.97  E-value=0.25  Score=49.13  Aligned_cols=23  Identities=26%  Similarity=0.374  Sum_probs=19.7

Q ss_pred             CceEEeccCCCcHhHHHHHHHHH
Q psy12736        448 GHCMVVGVEGGGKRSLVRLASFA  470 (567)
Q Consensus       448 Gh~LLvG~~GsGr~sl~rlaa~i  470 (567)
                      .+++|.|++|+||+.|++.++..
T Consensus        46 ~~l~l~Gp~G~GKThLl~a~~~~   68 (235)
T PRK08084         46 GYIYLWSREGAGRSHLLHAACAE   68 (235)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            47899999999999999976653

>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=93.94  E-value=0.032  Score=53.96  Aligned_cols=23  Identities=35%  Similarity=0.469  Sum_probs=19.4

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      -++++||||+|||+++..+-..+
T Consensus         3 vi~lvGptGvGKTTt~aKLAa~~   25 (196)
T PF00448_consen    3 VIALVGPTGVGKTTTIAKLAARL   25 (196)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCchHhHHHHHHHHH
Confidence            47899999999999998876544

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 ....

>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication

Probab=93.94  E-value=0.077  Score=52.19  Aligned_cols=45  Identities=16%  Similarity=0.144  Sum_probs=28.9

Q ss_pred             cccCcchhhHHHHHHHHHhc-C---CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        173 LVPTTDSTKLTWILSLMNEI-K---RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       173 ~VpT~dtvR~~~ll~~ll~~-~---~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +|+...........+.+..+ +   .|+++.||+|+|||.+++.+.+..
T Consensus        10 fv~g~~N~~a~~~~~~ia~~~~~~~~~l~l~G~~G~GKTHLL~Ai~~~~   58 (219)
T PF00308_consen   10 FVVGESNELAYAAAKAIAENPGERYNPLFLYGPSGLGKTHLLQAIANEA   58 (219)
T ss_dssp             S--TTTTHHHHHHHHHHHHSTTTSSSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCcCCcHHHHHHHHHHHHhcCCCCCCceEEECCCCCCHHHHHHHHHHHH
Confidence            44444344444444444443 2   379999999999999999886654

DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.

>KOG0727|consensus

Probab=93.93  E-value=0.032  Score=55.00  Aligned_cols=25  Identities=24%  Similarity=0.258  Sum_probs=21.9

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      --+-||+.||||||||++++..-++
T Consensus       188 pprgvllygppg~gktml~kava~~  212 (408)
T KOG0727|consen  188 PPRGVLLYGPPGTGKTMLAKAVANH  212 (408)
T ss_pred             CCcceEEeCCCCCcHHHHHHHHhhc
Confidence            4567999999999999999988765

>PRK08116 hypothetical protein; Validated

Probab=93.93  E-value=0.059  Score=54.72  Aligned_cols=27  Identities=22%  Similarity=0.164  Sum_probs=23.3

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .+.+++|.|++|||||.++..+.+.+.
T Consensus       113 ~~~gl~l~G~~GtGKThLa~aia~~l~  139 (268)
T PRK08116        113 ENVGLLLWGSVGTGKTYLAACIANELI  139 (268)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHHH
Confidence            456799999999999999999888764

>PF12846 AAA_10: AAA-like domain

Probab=93.91  E-value=0.032  Score=56.71  Aligned_cols=25  Identities=32%  Similarity=0.599  Sum_probs=22.3

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +.|++++|+||+|||++++.++..+
T Consensus         1 n~h~~i~G~tGsGKT~~~~~l~~~~   25 (304)
T PF12846_consen    1 NPHTLILGKTGSGKTTLLKNLLEQL   25 (304)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHH
Confidence            5799999999999999999888654

>KOG0743|consensus

Probab=93.90  E-value=0.032  Score=59.49  Aligned_cols=29  Identities=28%  Similarity=0.434  Sum_probs=24.4

Q ss_pred             CCeEEeccCCCCchhhHHHHHhccCCCcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSLSPDKY  222 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l~~~~~  222 (567)
                      +--||.||||||||++|..+.+.|.-+.|
T Consensus       236 RGYLLYGPPGTGKSS~IaAmAn~L~ydIy  264 (457)
T KOG0743|consen  236 RGYLLYGPPGTGKSSFIAAMANYLNYDIY  264 (457)
T ss_pred             ccceeeCCCCCCHHHHHHHHHhhcCCceE
Confidence            45799999999999999998887765544

>CHL00195 ycf46 Ycf46; Provisional

Probab=93.90  E-value=0.032  Score=61.34  Aligned_cols=26  Identities=27%  Similarity=0.312  Sum_probs=22.4

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..+.+||+||+|||||.+++.+...+
T Consensus       258 ~pkGILL~GPpGTGKTllAkaiA~e~  283 (489)
T CHL00195        258 TPRGLLLVGIQGTGKSLTAKAIANDW  283 (489)
T ss_pred             CCceEEEECCCCCcHHHHHHHHHHHh
Confidence            45679999999999999998887754

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=93.89  E-value=0.15  Score=58.31  Aligned_cols=68  Identities=19%  Similarity=0.267  Sum_probs=47.5

Q ss_pred             cCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCCh--hhHHHHHHHHHHHhccCCCcEEEEEecC
Q psy12736        445 LSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNE--ASFKEDLKSLYNLLGVKNQATVFLFTAA  514 (567)
Q Consensus       445 ~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~~--~~f~edLk~~~~~ag~~~~~~vfl~~d~  514 (567)
                      .|.| +||+|++|+||+++++..|.-++..++.+..+.-...  ..-...++.++..| ....|.+++++|-
T Consensus       184 ~~~g-ill~G~~G~GKt~~~~~~a~~~~~~f~~is~~~~~~~~~g~~~~~~~~~f~~a-~~~~P~IifIDEi  253 (644)
T PRK10733        184 IPKG-VLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVGVGASRVRDMFEQA-KKAAPCIIFIDEI  253 (644)
T ss_pred             CCCc-EEEECCCCCCHHHHHHHHHHHcCCCEEEEehHHhHHhhhcccHHHHHHHHHHH-HhcCCcEEEehhH
Confidence            3555 9999999999999999999999999988865421100  00113456666666 3457888888764

>PRK06620 hypothetical protein; Validated

Probab=93.89  E-value=0.062  Score=52.68  Aligned_cols=52  Identities=10%  Similarity=0.144  Sum_probs=0.0

Q ss_pred             ceeecCCCCCccccccCcchhhHHHHHHHHHhcC-----CCeEEeccCCCCchhhHH
Q psy12736        160 SYVHDGDKSFGDILVPTTDSTKLTWILSLMNEIK-----RPCIVVGDTGTSKTATMM  211 (567)
Q Consensus       160 ~~~~~~~~~~~~i~VpT~dtvR~~~ll~~ll~~~-----~pvLl~GptGtGKT~~i~  211 (567)
                      ++..++.-.|.+.+|-.....-+..+...--.-+     .+++|+||+|||||.+++
T Consensus         6 ~~~~~~~~tfd~Fvvg~~N~~a~~~~~~~~~~~~~~~~~~~l~l~Gp~G~GKThLl~   62 (214)
T PRK06620          6 RFTTSSKYHPDEFIVSSSNDQAYNIIKNWQCGFGVNPYKFTLLIKGPSSSGKTYLTK   62 (214)
T ss_pred             CCCCCCCCCchhhEecccHHHHHHHHHHHHHccccCCCcceEEEECCCCCCHHHHHH

>KOG0733|consensus

Probab=93.88  E-value=0.15  Score=56.36  Aligned_cols=68  Identities=21%  Similarity=0.402  Sum_probs=53.3

Q ss_pred             cCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEE---ecCCCC-hhhHHHHHHHHHHHhccCCCcEEEEEecCcc
Q psy12736        445 LSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQ---LSRGYN-EASFKEDLKSLYNLLGVKNQATVFLFTAAEI  516 (567)
Q Consensus       445 ~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~---~~k~y~-~~~f~edLk~~~~~ag~~~~~~vfl~~d~qi  516 (567)
                      -|+| +||-|++|+||++|++-.|--.+..+++|.   +-.+|+ .+  .+-++.++.+| ..+-|++++++|-+-
T Consensus       222 PprG-vLlHGPPGCGKT~lA~AiAgel~vPf~~isApeivSGvSGES--EkkiRelF~~A-~~~aPcivFiDeIDA  293 (802)
T KOG0733|consen  222 PPRG-VLLHGPPGCGKTSLANAIAGELGVPFLSISAPEIVSGVSGES--EKKIRELFDQA-KSNAPCIVFIDEIDA  293 (802)
T ss_pred             CCCc-eeeeCCCCccHHHHHHHHhhhcCCceEeecchhhhcccCccc--HHHHHHHHHHH-hccCCeEEEeecccc
Confidence            3444 899999999999999999999999999985   334443 44  36789999988 467888888876543

>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]

Probab=93.87  E-value=0.058  Score=57.22  Aligned_cols=38  Identities=34%  Similarity=0.352  Sum_probs=28.8

Q ss_pred             HHHHHHHHHhcCC--CeEEeccCCCCchhhHHHHHhccCC
Q psy12736        182 LTWILSLMNEIKR--PCIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       182 ~~~ll~~ll~~~~--pvLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      ....+...+.++.  ++++.|+||||||++++..++++..
T Consensus        29 l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~   68 (366)
T COG1474          29 LASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEE   68 (366)
T ss_pred             HHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHh
Confidence            3444555565544  4799999999999999999988753

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

Probab=93.86  E-value=0.034  Score=50.72  Aligned_cols=22  Identities=18%  Similarity=0.380  Sum_probs=19.3

Q ss_pred             CCeEEeccCCCCchhhHHHHHh
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLR  215 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~  215 (567)
                      +.++++|++|||||++++.+..
T Consensus         2 krimliG~~g~GKTTL~q~L~~   23 (143)
T PF10662_consen    2 KRIMLIGPSGSGKTTLAQALNG   23 (143)
T ss_pred             ceEEEECCCCCCHHHHHHHHcC
Confidence            5689999999999999987655

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

>TIGR02688 conserved hypothetical protein TIGR02688

Probab=93.84  E-value=0.057  Score=57.74  Aligned_cols=38  Identities=26%  Similarity=0.265  Sum_probs=30.9

Q ss_pred             chhhHHHHHHH--HHhcCCCeEEeccCCCCchhhHHHHHh
Q psy12736        178 DSTKLTWILSL--MNEIKRPCIVVGDTGTSKTATMMNFLR  215 (567)
Q Consensus       178 dtvR~~~ll~~--ll~~~~pvLl~GptGtGKT~~i~~~l~  215 (567)
                      +-.+...|..+  ++..+.|+++.||+|||||.+...+-.
T Consensus       192 ~r~k~~~L~rl~~fve~~~Nli~lGp~GTGKThla~~l~~  231 (449)
T TIGR02688       192 ARQKLLLLARLLPLVEPNYNLIELGPKGTGKSYIYNNLSP  231 (449)
T ss_pred             hHHHHHHHHhhHHHHhcCCcEEEECCCCCCHHHHHHHHhH
Confidence            34566667776  899999999999999999988887543

Members of this family are uncharacterized proteins sporadically distributed in bacteria and archaea, about 470 amino acids in length. Several members of this family appear in public databases with annotation as ATP-dependent protease La, despite the lack of similarity to families TIGR00763 (ATP-dependent protease La) or pfam02190 (ATP-dependent protease La (LON) domain). This protein is repeatedly found downstream of another uncharacterized protein of about 880 amino acids in length, described by model TIGR02687.

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=93.83  E-value=0.043  Score=58.09  Aligned_cols=31  Identities=35%  Similarity=0.412  Sum_probs=0.0

Q ss_pred             HHHHHHHHhc-----CCCeEEeccCCCCchhhHHHH
Q psy12736        183 TWILSLMNEI-----KRPCIVVGDTGTSKTATMMNF  213 (567)
Q Consensus       183 ~~ll~~ll~~-----~~pvLl~GptGtGKT~~i~~~  213 (567)
                      ..++..++.+     ++-+.|+||||+|||+++..+
T Consensus       188 ~~~~~~~~~~~~~~~~~vi~LVGPTGVGKTTTlAKL  223 (407)
T COG1419         188 RKLLLSLIENLIVEQKRVIALVGPTGVGKTTTLAKL  223 (407)
T ss_pred             HHHHHhhccccccccCcEEEEECCCCCcHHHHHHHH

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=93.80  E-value=0.041  Score=51.95  Aligned_cols=26  Identities=19%  Similarity=0.257  Sum_probs=22.5

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ++-++++|++|||||++.+.+...+.
T Consensus         2 ~~~i~l~G~~gsGKst~a~~l~~~~~   27 (175)
T cd00227           2 GRIIILNGGSSAGKSSIARALQSVLA   27 (175)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhhC
Confidence            56789999999999999999877653

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>PRK10436 hypothetical protein; Provisional

Probab=93.79  E-value=0.066  Score=58.52  Aligned_cols=33  Identities=27%  Similarity=0.438  Sum_probs=26.7

Q ss_pred             HHHHhcCCCeEEeccCCCCchhhHHHHHhccCC
Q psy12736        187 SLMNEIKRPCIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       187 ~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      +.+-..+--+|++||||||||+++..+|+.+..
T Consensus       212 ~~~~~~~GliLvtGpTGSGKTTtL~a~l~~~~~  244 (462)
T PRK10436        212 QALQQPQGLILVTGPTGSGKTVTLYSALQTLNT  244 (462)
T ss_pred             HHHHhcCCeEEEECCCCCChHHHHHHHHHhhCC
Confidence            334456668999999999999999999988754

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=93.79  E-value=0.15  Score=59.39  Aligned_cols=66  Identities=20%  Similarity=0.334  Sum_probs=49.8

Q ss_pred             CCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEec----CCCChhhHHHHHHHHHHHhccCCCcEEEEEecC
Q psy12736        446 SRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLS----RGYNEASFKEDLKSLYNLLGVKNQATVFLFTAA  514 (567)
Q Consensus       446 p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~----k~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~  514 (567)
                      |..++||.|++|+||++++|..|...+..++.+..+    +.++.  -.+.++.++..|. .+.|.+++++|-
T Consensus       211 ~~~giLL~GppGtGKT~laraia~~~~~~~i~i~~~~i~~~~~g~--~~~~l~~lf~~a~-~~~p~il~iDEi  280 (733)
T TIGR01243       211 PPKGVLLYGPPGTGKTLLAKAVANEAGAYFISINGPEIMSKYYGE--SEERLREIFKEAE-ENAPSIIFIDEI  280 (733)
T ss_pred             CCceEEEECCCCCChHHHHHHHHHHhCCeEEEEecHHHhcccccH--HHHHHHHHHHHHH-hcCCcEEEeehh
Confidence            445689999999999999999999999888887632    22332  3456888887774 466778888774

This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.

>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3

Probab=93.78  E-value=0.062  Score=50.17  Aligned_cols=25  Identities=24%  Similarity=0.416  Sum_probs=22.6

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +.++++.||||||||.++-.++.++
T Consensus        25 ~~~~ll~~~tGsGKT~~~~~~~~~l   49 (184)
T PF04851_consen   25 ERRVLLNAPTGSGKTIIALALILEL   49 (184)
T ss_dssp             CSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcChhhhhhhhcc
Confidence            7999999999999999999877665

1.21.3 from EC), the Res subunit of type III endonucleases (3.1.21.5 from EC), and the B subunit of excinuclease ABC (uvrB) [, , ].; GO: 0003677 DNA binding, 0005524 ATP binding, 0016787 hydrolase activity; PDB: 2Y3T_B 2W74_B 2FWR_A 2FZ4_A 3UWX_B 3H1T_A 3B6E_A 2FDC_A 1D9Z_A 1T5L_B ....

>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=93.76  E-value=0.043  Score=43.46  Aligned_cols=22  Identities=18%  Similarity=0.415  Sum_probs=19.6

Q ss_pred             eEEeccCCCCchhhHHHHHhcc
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +.++|++|||||++.+.+...+
T Consensus         2 i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6789999999999999887775

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.

>PRK06835 DNA replication protein DnaC; Validated

Probab=93.76  E-value=0.061  Score=56.21  Aligned_cols=32  Identities=22%  Similarity=0.232  Sum_probs=25.8

Q ss_pred             HHHHhcCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        187 SLMNEIKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       187 ~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      +..-..+.+++|+||+|||||.++..+.+.+.
T Consensus       177 ~~f~~~~~~Lll~G~~GtGKThLa~aIa~~l~  208 (329)
T PRK06835        177 ENFDKNNENLLFYGNTGTGKTFLSNCIAKELL  208 (329)
T ss_pred             HHHhccCCcEEEECCCCCcHHHHHHHHHHHHH
Confidence            33334679999999999999999998877653

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=93.75  E-value=0.22  Score=55.14  Aligned_cols=69  Identities=12%  Similarity=0.211  Sum_probs=54.3

Q ss_pred             hcCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCC---hhhHHHHHHHHHHHhccCCCcEEEEEecC
Q psy12736        444 RLSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYN---EASFKEDLKSLYNLLGVKNQATVFLFTAA  514 (567)
Q Consensus       444 ~~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~---~~~f~edLk~~~~~ag~~~~~~vfl~~d~  514 (567)
                      ..|...+||.|++|+||+.|++..|.-.+..++.+..+ .|.   ..+--.-++.++..|- +..|.++++++-
T Consensus       273 ~~~~~giLl~GpPGtGKT~lAkava~~~~~~fi~v~~~-~l~sk~vGesek~ir~~F~~A~-~~~p~iiFiDEi  344 (494)
T COG0464         273 LRPPKGVLLYGPPGTGKTLLAKAVALESRSRFISVKGS-ELLSKWVGESEKNIRELFEKAR-KLAPSIIFIDEI  344 (494)
T ss_pred             CCCCCeeEEECCCCCCHHHHHHHHHhhCCCeEEEeeCH-HHhccccchHHHHHHHHHHHHH-cCCCcEEEEEch
Confidence            35666899999999999999999999999999999755 221   2233467888888885 678888888753

>KOG0060|consensus

Probab=93.71  E-value=0.036  Score=60.67  Aligned_cols=28  Identities=25%  Similarity=0.334  Sum_probs=23.2

Q ss_pred             HHHHHhcCCCeEEeccCCCCchhhHHHH
Q psy12736        186 LSLMNEIKRPCIVVGDTGTSKTATMMNF  213 (567)
Q Consensus       186 l~~ll~~~~pvLl~GptGtGKT~~i~~~  213 (567)
                      +..=+..|+++|+|||+|||||++.+-+
T Consensus       454 Ls~~V~~g~~LLItG~sG~GKtSLlRvl  481 (659)
T KOG0060|consen  454 LSLEVPSGQNLLITGPSGCGKTSLLRVL  481 (659)
T ss_pred             eeeEecCCCeEEEECCCCCchhHHHHHH
Confidence            4444678999999999999999988654

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=93.70  E-value=0.35  Score=52.87  Aligned_cols=126  Identities=13%  Similarity=0.175  Sum_probs=67.1

Q ss_pred             EEecHHHHHHHHHHHHHHhcC-CCc-eEEeccCCCcHhHHHHHHHHHcCC-------------------------eEEEE
Q psy12736        426 LVLFEDAREHLTRIHRALRLS-RGH-CMVVGVEGGGKRSLVRLASFAAGY-------------------------QVFTI  478 (567)
Q Consensus       426 lvlf~dai~hi~ri~RvL~~p-~Gh-~LLvG~~GsGr~sl~rlaa~i~~~-------------------------~~~~i  478 (567)
                      ++-.+++++++.   +.++.. -+| .|+.|++|+||+++++..|....+                         .+..+
T Consensus        19 iiGq~~~v~~L~---~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~~i~~~~~~d~~~i   95 (451)
T PRK06305         19 ILGQDAVVAVLK---NALRFNRAAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCKEISSGTSLDVLEI   95 (451)
T ss_pred             hcCcHHHHHHHH---HHHHcCCCceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHHHHhcCCCCceEEe
Confidence            333344444443   334432 246 589999999999999988765433                         23333


Q ss_pred             EecCCCChhhHHHHHHHHHHHhc---cCCCcEEEEEecCcccchhhhHHhh-hccC--CccccCcchhHHHHHHHhhccc
Q psy12736        479 QLSRGYNEASFKEDLKSLYNLLG---VKNQATVFLFTAAEIVEEGYQVFTI-QLSR--GYNEASFKEDLKSLYNLLGVKN  552 (567)
Q Consensus       479 ~~~k~y~~~~f~edLk~~~~~ag---~~~~~~vfl~~d~qi~~e~fle~in-lL~~--Gevp~Lf~~eE~~~i~~~~~~~  552 (567)
                      +-....+..    +++.+.....   ..+..-++++.+.+-....-.+.+- .|..  +.+.=+|..++...|. ..++.
T Consensus        96 ~g~~~~gid----~ir~i~~~l~~~~~~~~~kvvIIdead~lt~~~~n~LLk~lEep~~~~~~Il~t~~~~kl~-~tI~s  170 (451)
T PRK06305         96 DGASHRGIE----DIRQINETVLFTPSKSRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQHVKFFLATTEIHKIP-GTILS  170 (451)
T ss_pred             eccccCCHH----HHHHHHHHHHhhhhcCCCEEEEEecHHhhCHHHHHHHHHHhhcCCCCceEEEEeCChHhcc-hHHHH
Confidence            322223343    3443333222   3356677788875544432222222 2222  3333456666777776 67777


Q ss_pred             cceeeee
Q psy12736        553 QATVFLF  559 (567)
Q Consensus       553 ~~~~~~~  559 (567)
                      .+.++-+
T Consensus       171 Rc~~v~f  177 (451)
T PRK06305        171 RCQKMHL  177 (451)
T ss_pred             hceEEeC
Confidence            7666554

>cd01870 RhoA_like RhoA-like subfamily

Probab=93.69  E-value=0.047  Score=50.86  Aligned_cols=24  Identities=25%  Similarity=0.491  Sum_probs=21.3

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +.++++|++|+|||+++..++...
T Consensus         2 ~ki~iiG~~~~GKTsl~~~~~~~~   25 (175)
T cd01870           2 KKLVIVGDGACGKTCLLIVFSKDQ   25 (175)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCC
Confidence            568999999999999999988754

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

>PRK14738 gmk guanylate kinase; Provisional

Probab=93.69  E-value=0.037  Score=53.82  Aligned_cols=25  Identities=16%  Similarity=0.268  Sum_probs=21.5

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .++.++|+||+|||||++++.+...
T Consensus        12 ~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738         12 KPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHhc
Confidence            4678899999999999999887654

>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional

Probab=93.64  E-value=0.11  Score=56.36  Aligned_cols=66  Identities=14%  Similarity=0.220  Sum_probs=45.4

Q ss_pred             CCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecC---CCChhhHHHHHHHHHHHhccCCCcEEEEEec
Q psy12736        446 SRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSR---GYNEASFKEDLKSLYNLLGVKNQATVFLFTA  513 (567)
Q Consensus       446 p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k---~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d  513 (567)
                      |..++||.|++|+||++++|..|...+..++.+.-+.   .|.- +-...++.++..|. .+.|.+++++|
T Consensus       216 ~p~gVLL~GPPGTGKT~LAraIA~el~~~fi~V~~seL~~k~~G-e~~~~vr~lF~~A~-~~~P~ILfIDE  284 (438)
T PTZ00361        216 PPKGVILYGPPGTGKTLLAKAVANETSATFLRVVGSELIQKYLG-DGPKLVRELFRVAE-ENAPSIVFIDE  284 (438)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhhCCCEEEEecchhhhhhcc-hHHHHHHHHHHHHH-hCCCcEEeHHH
Confidence            3446899999999999999999999888887775332   1211 11233666666664 45787777765

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=93.64  E-value=0.27  Score=48.07  Aligned_cols=27  Identities=30%  Similarity=0.332  Sum_probs=22.6

Q ss_pred             cCCCceEEeccCCCcHhHHHHHHHHHc
Q psy12736        445 LSRGHCMVVGVEGGGKRSLVRLASFAA  471 (567)
Q Consensus       445 ~p~Gh~LLvG~~GsGr~sl~rlaa~i~  471 (567)
                      ...++++|.|++|+||+++++..+.-+
T Consensus        36 ~~~~~lll~G~~G~GKT~la~~~~~~~   62 (226)
T TIGR03420        36 KGDRFLYLWGESGSGKSHLLQAACAAA   62 (226)
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            456789999999999999998877544

Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=93.62  E-value=0.12  Score=55.51  Aligned_cols=35  Identities=17%  Similarity=0.296  Sum_probs=31.6

Q ss_pred             CCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEec
Q psy12736        447 RGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLS  481 (567)
Q Consensus       447 ~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~  481 (567)
                      .+|+||+|++|+||++++|..|...+..++.+..+
T Consensus        50 ~~~ILliGp~G~GKT~LAr~LAk~l~~~fi~vD~t   84 (443)
T PRK05201         50 PKNILMIGPTGVGKTEIARRLAKLANAPFIKVEAT   84 (443)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHhCChheeecch
Confidence            48999999999999999999999999999998654

>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=93.62  E-value=0.044  Score=47.73  Aligned_cols=20  Identities=10%  Similarity=0.273  Sum_probs=18.9

Q ss_pred             eEEeccCCCCchhhHHHHHh
Q psy12736        196 CIVVGDTGTSKTATMMNFLR  215 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~  215 (567)
                      |+++|++|+|||++++.++.
T Consensus         2 V~iiG~~~~GKSTlin~l~~   21 (116)
T PF01926_consen    2 VAIIGRPNVGKSTLINALTG   21 (116)
T ss_dssp             EEEEESTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhc
Confidence            78999999999999999986

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 ....

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=93.62  E-value=0.07  Score=54.22  Aligned_cols=37  Identities=16%  Similarity=0.216  Sum_probs=30.0

Q ss_pred             HHHHHHHHHhcC--CCeEEeccCCCCchhhHHHHHhccC
Q psy12736        182 LTWILSLMNEIK--RPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       182 ~~~ll~~ll~~~--~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ...++..+.+++  +++++.||+|+|||++++.+...+.
T Consensus        98 ~~~~l~~l~~~~~~~~~~i~g~~g~GKttl~~~l~~~~~  136 (270)
T TIGR02858        98 ADKLLPYLVRNNRVLNTLIISPPQCGKTTLLRDLARILS  136 (270)
T ss_pred             HHHHHHHHHhCCCeeEEEEEcCCCCCHHHHHHHHhCccC
Confidence            445566666666  7999999999999999999887664

Members of this protein are the stage III sporulation protein AA, encoded by one of several genes in the spoIIIA locus. It seems that this protein is found in a species if and only if that species is capable of endospore formation.

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=93.61  E-value=0.039  Score=57.65  Aligned_cols=26  Identities=15%  Similarity=0.188  Sum_probs=22.6

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ..+++++||+|||||++++.+.+.+.
T Consensus        51 ~~~~ll~GppG~GKT~la~~ia~~l~   76 (328)
T PRK00080         51 LDHVLLYGPPGLGKTTLANIIANEMG   76 (328)
T ss_pred             CCcEEEECCCCccHHHHHHHHHHHhC
Confidence            35799999999999999998877654

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=93.59  E-value=0.068  Score=61.67  Aligned_cols=40  Identities=23%  Similarity=0.214  Sum_probs=29.9

Q ss_pred             hhhHHHHHHHHHhcCCC--e-EEeccCCCCchhhHHHHHhccC
Q psy12736        179 STKLTWILSLMNEIKRP--C-IVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       179 tvR~~~ll~~ll~~~~p--v-Ll~GptGtGKT~~i~~~l~~l~  218 (567)
                      .-+....+...+....|  + ++.|+||||||++++.+++.+.
T Consensus       764 IeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELq  806 (1164)
T PTZ00112        764 IKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQ  806 (1164)
T ss_pred             HHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHH
Confidence            34455666766764443  4 5999999999999999988764

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=93.58  E-value=0.042  Score=50.07  Aligned_cols=23  Identities=26%  Similarity=0.434  Sum_probs=20.4

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .++++||+|+|||+++..++...
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~   23 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNI   23 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHH
Confidence            37899999999999999998765

This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.

>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB

Probab=93.57  E-value=0.072  Score=59.93  Aligned_cols=35  Identities=26%  Similarity=0.412  Sum_probs=27.8

Q ss_pred             HHHHHHhcCCCeEEeccCCCCchhhHHHHHhccCC
Q psy12736        185 ILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       185 ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      +.+.+-..+--+|++||||||||+++..+++.++.
T Consensus       308 l~~~~~~~~Glilv~G~tGSGKTTtl~a~l~~~~~  342 (564)
T TIGR02538       308 FLEAIHKPQGMVLVTGPTGSGKTVSLYTALNILNT  342 (564)
T ss_pred             HHHHHHhcCCeEEEECCCCCCHHHHHHHHHHhhCC
Confidence            44444455667899999999999999999988754

This model describes a protein of type IV pilus biogenesis designated PilB in Pseudomonas aeruginosa but PilF in Neisseria gonorrhoeae; the more common usage, reflected here, is PilB. This protein is an ATPase involved in protein export for pilin assembly and is closely related to GspE (TIGR02533) of type II secretion, also called the main terminal branch of the general secretion pathway. Note that type IV pilus systems are often divided into type IV-A and IV-B, with the latter group including bundle-forming pilus, mannose-sensitive hemagglutinin, etc. Members of this family are found in type IV-A systems.

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=93.54  E-value=0.59  Score=49.07  Aligned_cols=123  Identities=14%  Similarity=0.183  Sum_probs=63.9

Q ss_pred             EEecHHHHHHHHHHHHHHhcC-CCc-eEEeccCCCcHhHHHHHHHHHcCC------------------------eEEEEE
Q psy12736        426 LVLFEDAREHLTRIHRALRLS-RGH-CMVVGVEGGGKRSLVRLASFAAGY------------------------QVFTIQ  479 (567)
Q Consensus       426 lvlf~dai~hi~ri~RvL~~p-~Gh-~LLvG~~GsGr~sl~rlaa~i~~~------------------------~~~~i~  479 (567)
                      ++-.+.+++++.+.   +... .+| .||.|++|+||+++++..+....+                        ++..++
T Consensus        16 iig~~~~~~~l~~~---~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~~~~~~~   92 (355)
T TIGR02397        16 VIGQEHIVQTLKNA---IKNGRIAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEINSGSSLDVIEID   92 (355)
T ss_pred             ccCcHHHHHHHHHH---HHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEee
Confidence            33444555554433   3332 245 588999999999999877655332                        233443


Q ss_pred             ecCCCChhhHHHHHHHHHHHh---ccCCCcEEEEEecCcccchhhhHHhh-hccC-----CccccCcchhHHHHHHHhhc
Q psy12736        480 LSRGYNEASFKEDLKSLYNLL---GVKNQATVFLFTAAEIVEEGYQVFTI-QLSR-----GYNEASFKEDLKSLYNLLGV  550 (567)
Q Consensus       480 ~~k~y~~~~f~edLk~~~~~a---g~~~~~~vfl~~d~qi~~e~fle~in-lL~~-----Gevp~Lf~~eE~~~i~~~~~  550 (567)
                      -...-+..    +++.++..+   ...+..-|+++++.+-....   ..| +|..     +.+-=++...+.+++. ..+
T Consensus        93 ~~~~~~~~----~~~~l~~~~~~~p~~~~~~vviidea~~l~~~---~~~~Ll~~le~~~~~~~lIl~~~~~~~l~-~~l  164 (355)
T TIGR02397        93 AASNNGVD----DIREILDNVKYAPSSGKYKVYIIDEVHMLSKS---AFNALLKTLEEPPEHVVFILATTEPHKIP-ATI  164 (355)
T ss_pred             ccccCCHH----HHHHHHHHHhcCcccCCceEEEEeChhhcCHH---HHHHHHHHHhCCccceeEEEEeCCHHHHH-HHH
Confidence            33222332    344444443   34455567777776544332   233 3322     1122245555666665 566


Q ss_pred             cccceeeee
Q psy12736        551 KNQATVFLF  559 (567)
Q Consensus       551 ~~~~~~~~~  559 (567)
                      +..+.++-+
T Consensus       165 ~sr~~~~~~  173 (355)
T TIGR02397       165 LSRCQRFDF  173 (355)
T ss_pred             HhheeEEEc
Confidence            665555444

This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.

>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]

Probab=93.54  E-value=0.077  Score=54.96  Aligned_cols=51  Identities=20%  Similarity=0.261  Sum_probs=39.2

Q ss_pred             cccccCcchhhHHHHHHHHHhcCCCeEEeccCCCCchhhHHHHHhccCCCc
Q psy12736        171 DILVPTTDSTKLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLSPDK  221 (567)
Q Consensus       171 ~i~VpT~dtvR~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~~~~  221 (567)
                      +.+---+=+.....++...+....++|++|-||||||++++.++...+..+
T Consensus       151 dli~~gt~~~~~a~~L~~av~~r~NILisGGTGSGKTTlLNal~~~i~~~e  201 (355)
T COG4962         151 DLIIFGTMIRRAAKFLRRAVGIRCNILISGGTGSGKTTLLNALSGFIDSDE  201 (355)
T ss_pred             HHHHcCCcCHHHHHHHHHHHhhceeEEEeCCCCCCHHHHHHHHHhcCCCcc
Confidence            333333444556677788889999999999999999999999888766544

>PRK07952 DNA replication protein DnaC; Validated

Probab=93.52  E-value=0.51  Score=47.25  Aligned_cols=76  Identities=16%  Similarity=0.218  Sum_probs=45.1

Q ss_pred             CCceEEeccCCCcHhHHHHHHHHHc---CCeEEEEEecCCCChhhHHHHHHHHHHHhc---------cCCCcEEEEEecC
Q psy12736        447 RGHCMVVGVEGGGKRSLVRLASFAA---GYQVFTIQLSRGYNEASFKEDLKSLYNLLG---------VKNQATVFLFTAA  514 (567)
Q Consensus       447 ~Gh~LLvG~~GsGr~sl~rlaa~i~---~~~~~~i~~~k~y~~~~f~edLk~~~~~ag---------~~~~~~vfl~~d~  514 (567)
                      .++++|.|.+|+||+.|+.-.|.-.   +..+.-+.      ..+|.+.++..+..+.         +. +.-+++++|-
T Consensus        99 ~~~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it------~~~l~~~l~~~~~~~~~~~~~~l~~l~-~~dlLvIDDi  171 (244)
T PRK07952         99 IASFIFSGKPGTGKNHLAAAICNELLLRGKSVLIIT------VADIMSAMKDTFSNSETSEEQLLNDLS-NVDLLVIDEI  171 (244)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE------HHHHHHHHHHHHhhccccHHHHHHHhc-cCCEEEEeCC
Confidence            3578999999999999987655432   56665553      4566666665443221         12 3446777876


Q ss_pred             cccchhh--hHHhh-hcc
Q psy12736        515 EIVEEGY--QVFTI-QLS  529 (567)
Q Consensus       515 qi~~e~f--le~in-lL~  529 (567)
                      +....+-  .+.++ |++
T Consensus       172 g~~~~s~~~~~~l~~Ii~  189 (244)
T PRK07952        172 GVQTESRYEKVIINQIVD  189 (244)
T ss_pred             CCCCCCHHHHHHHHHHHH
Confidence            6543322  22455 554

>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants

Probab=93.51  E-value=0.047  Score=49.85  Aligned_cols=23  Identities=22%  Similarity=0.339  Sum_probs=0.0

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +++++|++|||||++.+.+-..+
T Consensus         1 ~i~l~G~~GsGKstla~~la~~l   23 (154)
T cd00464           1 NIVLIGMMGAGKTTVGRLLAKAL   23 (154)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHh

Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.

>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional

Probab=93.50  E-value=0.042  Score=59.61  Aligned_cols=26  Identities=23%  Similarity=0.220  Sum_probs=22.6

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..+.+||+||||||||++++.+.+.+
T Consensus       216 ~p~gVLL~GPPGTGKT~LAraIA~el  241 (438)
T PTZ00361        216 PPKGVILYGPPGTGKTLLAKAVANET  241 (438)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhh
Confidence            45679999999999999999887764

>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=93.46  E-value=0.041  Score=51.97  Aligned_cols=25  Identities=20%  Similarity=0.262  Sum_probs=21.2

Q ss_pred             CCeEEeccCCCCchhhHHHHHhccC
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ..+||+||+|||||.+++.+-+.+.
T Consensus         4 ~~~ll~GpsGvGKT~la~~la~~l~   28 (171)
T PF07724_consen    4 SNFLLAGPSGVGKTELAKALAELLF   28 (171)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhc
Confidence            3689999999999999988777654

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of ATPase AAA-2 domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=93.43  E-value=0.18  Score=52.00  Aligned_cols=110  Identities=14%  Similarity=0.053  Sum_probs=76.5

Q ss_pred             CCc-eEEeccCCCcHhHHHHHHHHHcC------------------------CeEEEEEecCCCChhhHHHHHHHHHHHhc
Q psy12736        447 RGH-CMVVGVEGGGKRSLVRLASFAAG------------------------YQVFTIQLSRGYNEASFKEDLKSLYNLLG  501 (567)
Q Consensus       447 ~Gh-~LLvG~~GsGr~sl~rlaa~i~~------------------------~~~~~i~~~k~y~~~~f~edLk~~~~~ag  501 (567)
                      ..| .||.|++|+||++++..-|.-..                        .++.+++.+...+.+--.+.+|.+.....
T Consensus        23 ~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~lel~~s~~~~~~i~~~~vr~~~~~~~  102 (325)
T COG0470          23 LPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFLELNPSDLRKIDIIVEQVRELAEFLS  102 (325)
T ss_pred             CCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceEEecccccCCCcchHHHHHHHHHHhc
Confidence            457 79999999999999776665443                        47788887776664434566777766554


Q ss_pred             cC---CCcEEEEEecCcccchhhhHHhh-hccCCc-----cccCcchhHHHHHHHhhccccceeeeee
Q psy12736        502 VK---NQATVFLFTAAEIVEEGYQVFTI-QLSRGY-----NEASFKEDLKSLYNLLGVKNQATVFLFT  560 (567)
Q Consensus       502 ~~---~~~~vfl~~d~qi~~e~fle~in-lL~~Ge-----vp~Lf~~eE~~~i~~~~~~~~~~~~~~~  560 (567)
                      ..   +..-|+++++.+-..+   ...| ++.+=|     .+-++...+...|. .++|..+..+-+.
T Consensus       103 ~~~~~~~~kviiidead~mt~---~A~nallk~lEep~~~~~~il~~n~~~~il-~tI~SRc~~i~f~  166 (325)
T COG0470         103 ESPLEGGYKVVIIDEADKLTE---DAANALLKTLEEPPKNTRFILITNDPSKIL-PTIRSRCQRIRFK  166 (325)
T ss_pred             cCCCCCCceEEEeCcHHHHhH---HHHHHHHHHhccCCCCeEEEEEcCChhhcc-chhhhcceeeecC
Confidence            43   5667777777655444   5667 776555     44567777888887 8888888877664

>PRK08939 primosomal protein DnaI; Reviewed

Probab=93.43  E-value=0.074  Score=55.06  Aligned_cols=27  Identities=19%  Similarity=0.252  Sum_probs=24.0

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .+++++|.||+|||||.++..+.+.+.
T Consensus       155 ~~~gl~L~G~~G~GKThLa~Aia~~l~  181 (306)
T PRK08939        155 KVKGLYLYGDFGVGKSYLLAAIANELA  181 (306)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            467899999999999999999888764

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=93.43  E-value=0.17  Score=54.17  Aligned_cols=35  Identities=17%  Similarity=0.296  Sum_probs=31.9

Q ss_pred             CCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEec
Q psy12736        447 RGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLS  481 (567)
Q Consensus       447 ~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~  481 (567)
                      .+|+||+|++|+||++++|..|...+..++.++.+
T Consensus        47 p~~ILLiGppG~GKT~lAraLA~~l~~~fi~vdat   81 (441)
T TIGR00390        47 PKNILMIGPTGVGKTEIARRLAKLANAPFIKVEAT   81 (441)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHhCCeEEEeecc
Confidence            37999999999999999999999999999998744

This model represents the ATPase subunit of HslVU, while the proteasome-related peptidase subunit is HslV. Residues 54-61 of the model contain a P-loop ATP-binding motif. Cys-287 of E. coli (position 308 in the seed alignment), studied in PubMed:98389714, is Ser in other members of the seed alignment.

>PRK13948 shikimate kinase; Provisional

Probab=93.42  E-value=0.17  Score=48.35  Aligned_cols=56  Identities=20%  Similarity=0.108  Sum_probs=42.3

Q ss_pred             cCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEe-------------cCCCChhhHHHHHHHHHHHh
Q psy12736        445 LSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQL-------------SRGYNEASFKEDLKSLYNLL  500 (567)
Q Consensus       445 ~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~-------------~k~y~~~~f~edLk~~~~~a  500 (567)
                      .|..+++|+|..||||+++.+..|...++.++....             -+.++...|++--..++...
T Consensus         8 ~~~~~I~LiG~~GsGKSTvg~~La~~lg~~~iD~D~~ie~~~g~si~~if~~~Ge~~fR~~E~~~l~~l   76 (182)
T PRK13948          8 RPVTWVALAGFMGTGKSRIGWELSRALMLHFIDTDRYIERVTGKSIPEIFRHLGEAYFRRCEAEVVRRL   76 (182)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHcCCCEEECCHHHHHHHhCCHHHHHHHhCHHHHHHHHHHHHHHH
Confidence            356789999999999999999999988998887641             13456667776555555544

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=93.38  E-value=0.047  Score=50.65  Aligned_cols=23  Identities=17%  Similarity=0.384  Sum_probs=0.0

Q ss_pred             eEEeccCCCCchhhHHHHHhccC
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ++++||+|||||++.+.+-..+.
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l~   23 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRLG   23 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhcC

This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.

>PRK14530 adenylate kinase; Provisional

Probab=93.38  E-value=0.051  Score=53.10  Aligned_cols=25  Identities=16%  Similarity=0.349  Sum_probs=21.9

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +..++++||||||||++.+.+.+.+
T Consensus         3 ~~~I~i~G~pGsGKsT~~~~La~~~   27 (215)
T PRK14530          3 QPRILLLGAPGAGKGTQSSNLAEEF   27 (215)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            5579999999999999999887765

>cd00046 DEXDc DEAD-like helicases superfamily

Probab=93.35  E-value=0.054  Score=47.42  Aligned_cols=24  Identities=25%  Similarity=0.344  Sum_probs=20.6

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ++++++||||+|||.++..++..+
T Consensus         1 ~~~~i~~~~G~GKT~~~~~~~~~~   24 (144)
T cd00046           1 RDVLLAAPTGSGKTLAALLPILEL   24 (144)
T ss_pred             CCEEEECCCCCchhHHHHHHHHHH
Confidence            468999999999999998877654

A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=93.33  E-value=0.033  Score=54.03  Aligned_cols=28  Identities=21%  Similarity=0.420  Sum_probs=22.8

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      +..|.-|.++||+|||||++++ +++.|.
T Consensus        25 v~~Gevv~iiGpSGSGKSTlLR-clN~LE   52 (240)
T COG1126          25 VEKGEVVVIIGPSGSGKSTLLR-CLNGLE   52 (240)
T ss_pred             EcCCCEEEEECCCCCCHHHHHH-HHHCCc
Confidence            4578889999999999999985 566653

>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=93.33  E-value=0.038  Score=49.49  Aligned_cols=27  Identities=19%  Similarity=0.282  Sum_probs=22.6

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|..+.++|++|||||++++.+....
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            468889999999999999998665543

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 ....

>KOG2228|consensus

Probab=93.31  E-value=0.41  Score=49.49  Aligned_cols=26  Identities=23%  Similarity=0.340  Sum_probs=23.5

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .-+..|+++||.|+|||+++...|..
T Consensus        47 gEsnsviiigprgsgkT~li~~~Ls~   72 (408)
T KOG2228|consen   47 GESNSVIIIGPRGSGKTILIDTRLSD   72 (408)
T ss_pred             cCCCceEEEccCCCCceEeeHHHHhh
Confidence            46789999999999999999998876

>PHA00729 NTP-binding motif containing protein

Probab=93.31  E-value=0.044  Score=53.91  Aligned_cols=24  Identities=21%  Similarity=0.473  Sum_probs=21.5

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+++++|+||||||+++..+...+
T Consensus        18 ~nIlItG~pGvGKT~LA~aLa~~l   41 (226)
T PHA00729         18 VSAVIFGKQGSGKTTYALKVARDV   41 (226)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHH
Confidence            479999999999999999988765

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=93.28  E-value=0.074  Score=58.40  Aligned_cols=23  Identities=35%  Similarity=0.445  Sum_probs=20.4

Q ss_pred             eEEeccCCCCchhhHHHHHhccC
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      +||+||+|||||++++-+.+.+.
T Consensus        39 ~Lf~GPpGtGKTTlA~~lA~~l~   61 (472)
T PRK14962         39 YIFAGPRGTGKTTVARILAKSLN   61 (472)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Confidence            79999999999999998877654

>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor

Probab=93.28  E-value=0.6  Score=43.92  Aligned_cols=98  Identities=18%  Similarity=0.190  Sum_probs=58.8

Q ss_pred             HHHHHHHHHHHHHhcCCCceEEeccCCCcHhHHHHHHHHHc---CCeEEEEEecCCCChhhHHHHHH-------------
Q psy12736        431 DAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVRLASFAA---GYQVFTIQLSRGYNEASFKEDLK-------------  494 (567)
Q Consensus       431 dai~hi~ri~RvL~~p~Gh~LLvG~~GsGr~sl~rlaa~i~---~~~~~~i~~~k~y~~~~f~edLk-------------  494 (567)
                      .++.++.+..|-+.....++||.|..|+||..++|..-..+   +..++.++.+ .++.+.....|-             
T Consensus         6 ~~m~~~~~~~~~~a~~~~pVlI~GE~GtGK~~lA~~IH~~s~r~~~pfi~vnc~-~~~~~~~e~~LFG~~~~~~~~~~~~   84 (168)
T PF00158_consen    6 PAMKRLREQAKRAASSDLPVLITGETGTGKELLARAIHNNSPRKNGPFISVNCA-ALPEELLESELFGHEKGAFTGARSD   84 (168)
T ss_dssp             HHHHHHHHHHHHHTTSTS-EEEECSTTSSHHHHHHHHHHCSTTTTS-EEEEETT-TS-HHHHHHHHHEBCSSSSTTTSSE
T ss_pred             HHHHHHHHHHHHHhCCCCCEEEEcCCCCcHHHHHHHHHHhhhcccCCeEEEehh-hhhcchhhhhhhccccccccccccc
Confidence            34555655555555666999999999999999999876654   3568888876 344443333332             


Q ss_pred             --HHHHHhccCCCcEEEEEecCcccchhhhHHhh-hccCCcc
Q psy12736        495 --SLYNLLGVKNQATVFLFTAAEIVEEGYQVFTI-QLSRGYN  533 (567)
Q Consensus       495 --~~~~~ag~~~~~~vfl~~d~qi~~e~fle~in-lL~~Gev  533 (567)
                        .++..|   +..+ +++++-+-.....-+.+- +|.+|.+
T Consensus        85 ~~G~l~~A---~~Gt-L~Ld~I~~L~~~~Q~~Ll~~l~~~~~  122 (168)
T PF00158_consen   85 KKGLLEQA---NGGT-LFLDEIEDLPPELQAKLLRVLEEGKF  122 (168)
T ss_dssp             BEHHHHHT---TTSE-EEEETGGGS-HHHHHHHHHHHHHSEE
T ss_pred             cCCceeec---cceE-EeecchhhhHHHHHHHHHHHHhhchh
Confidence              233333   2333 555665555666666665 7776654

These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....

>PRK05541 adenylylsulfate kinase; Provisional

Probab=93.27  E-value=0.044  Score=51.69  Aligned_cols=28  Identities=18%  Similarity=0.163  Sum_probs=24.1

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ..+.-++++|++|||||++++.+...+.
T Consensus         5 ~~~~~I~i~G~~GsGKst~a~~l~~~l~   32 (176)
T PRK05541          5 PNGYVIWITGLAGSGKTTIAKALYERLK   32 (176)
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            4677899999999999999998877764

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=93.27  E-value=0.055  Score=51.16  Aligned_cols=22  Identities=18%  Similarity=0.448  Sum_probs=19.6

Q ss_pred             eEEeccCCCCchhhHHHHHhcc
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ++++||||||||++.+.+..++
T Consensus         2 i~i~G~pGsGKst~a~~la~~~   23 (183)
T TIGR01359         2 VFVLGGPGSGKGTQCAKIVENF   23 (183)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            6899999999999999887765

This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=93.24  E-value=0.043  Score=47.54  Aligned_cols=24  Identities=25%  Similarity=0.414  Sum_probs=20.7

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHH
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFL  214 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l  214 (567)
                      ..+.-+.++||+|||||++++-++
T Consensus        13 ~~ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          13 YGKVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             cCCEEEEEEcCCCCCHHHHHHHhh
Confidence            356779999999999999998865

It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=93.23  E-value=0.057  Score=54.45  Aligned_cols=27  Identities=26%  Similarity=0.321  Sum_probs=24.4

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..+..+|++|+||||||.+..+++.+.
T Consensus        21 p~g~~~lI~G~pGsGKT~f~~qfl~~~   47 (260)
T COG0467          21 PRGSVVLITGPPGTGKTIFALQFLYEG   47 (260)
T ss_pred             cCCcEEEEEcCCCCcHHHHHHHHHHHH
Confidence            468899999999999999999999864

>PRK06762 hypothetical protein; Provisional

Probab=93.21  E-value=0.053  Score=50.50  Aligned_cols=23  Identities=26%  Similarity=0.427  Sum_probs=20.1

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      =++++|++|||||++.+.+.+.+
T Consensus         4 li~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          4 LIIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            36899999999999999887765

>KOG0742|consensus

Probab=93.21  E-value=0.071  Score=56.07  Aligned_cols=51  Identities=14%  Similarity=0.190  Sum_probs=37.8

Q ss_pred             CCCCccccccCcchhhHHHHHHHHHhc------CCCeEEeccCCCCchhhHHHHHhc
Q psy12736        166 DKSFGDILVPTTDSTKLTWILSLMNEI------KRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       166 ~~~~~~i~VpT~dtvR~~~ll~~ll~~------~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ..++.+++.++.=-.|...|...--+-      -+++|+.||||||||+..+.+-++
T Consensus       351 k~pl~~ViL~psLe~Rie~lA~aTaNTK~h~apfRNilfyGPPGTGKTm~ArelAr~  407 (630)
T KOG0742|consen  351 KDPLEGVILHPSLEKRIEDLAIATANTKKHQAPFRNILFYGPPGTGKTMFARELARH  407 (630)
T ss_pred             CCCcCCeecCHHHHHHHHHHHHHhcccccccchhhheeeeCCCCCCchHHHHHHHhh
Confidence            347888888877666666655443321      258999999999999999998765

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=93.21  E-value=0.055  Score=58.32  Aligned_cols=25  Identities=32%  Similarity=0.472  Sum_probs=22.0

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..++||+||||||||++++.+-+.+
T Consensus       108 ~~~iLl~Gp~GtGKT~lAr~lA~~l  132 (412)
T PRK05342        108 KSNILLIGPTGSGKTLLAQTLARIL  132 (412)
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHHh
Confidence            4789999999999999999887655

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

Probab=93.20  E-value=0.058  Score=50.58  Aligned_cols=23  Identities=22%  Similarity=0.449  Sum_probs=20.8

Q ss_pred             CCeEEeccCCCCchhhHHHHHhc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      +.|+++|++|+|||+++++++..
T Consensus         2 ~kv~l~G~~g~GKTtl~~~~~~~   24 (180)
T cd04137           2 RKIAVLGSRSVGKSSLTVQFVEG   24 (180)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            56899999999999999999864

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

>PRK13949 shikimate kinase; Provisional

Probab=93.20  E-value=0.15  Score=48.08  Aligned_cols=51  Identities=22%  Similarity=0.328  Sum_probs=38.2

Q ss_pred             ceEEeccCCCcHhHHHHHHHHHcCCeEEEEEec-------------CCCChhhHHHHHHHHHHH
Q psy12736        449 HCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLS-------------RGYNEASFKEDLKSLYNL  499 (567)
Q Consensus       449 h~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~-------------k~y~~~~f~edLk~~~~~  499 (567)
                      +++|+|.+||||+++.|..|...++.++....-             +..+...|++-...++.+
T Consensus         3 ~I~liG~~GsGKstl~~~La~~l~~~~id~D~~i~~~~~~~~~~~~~~~g~~~fr~~e~~~l~~   66 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALARELGLSFIDLDFFIENRFHKTVGDIFAERGEAVFRELERNMLHE   66 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCCeecccHHHHHHHCccHHHHHHHhCHHHHHHHHHHHHHH
Confidence            579999999999999999999889887776411             234556676666666555

>KOG0991|consensus

Probab=93.20  E-value=0.052  Score=53.12  Aligned_cols=28  Identities=36%  Similarity=0.585  Sum_probs=0.0

Q ss_pred             CeEEeccCCCCchhhHHHHHhccCCCcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSLSPDKY  222 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l~~~~~  222 (567)
                      |+++.||||||||+.+.-+-+.+-...|
T Consensus        50 ~liisGpPG~GKTTsi~~LAr~LLG~~~   77 (333)
T KOG0991|consen   50 NLIISGPPGTGKTTSILCLARELLGDSY   77 (333)
T ss_pred             ceEeeCCCCCchhhHHHHHHHHHhChhh

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=93.18  E-value=0.057  Score=53.70  Aligned_cols=25  Identities=24%  Similarity=0.384  Sum_probs=22.5

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .+..+|+.||||||||++..+++..
T Consensus        20 ~gs~~lI~G~pGsGKT~la~~~l~~   44 (237)
T TIGR03877        20 ERNVVLLSGGPGTGKSIFSQQFLWN   44 (237)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            5778999999999999999998875

Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.

>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs

Probab=93.18  E-value=0.055  Score=51.18  Aligned_cols=21  Identities=33%  Similarity=0.581  Sum_probs=19.2

Q ss_pred             eEEeccCCCCchhhHHHHHhc
Q psy12736        196 CIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~  216 (567)
                      +++.||||||||+++.+++..
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~   22 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYA   22 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHH
Confidence            689999999999999998875

A related protein is found in archaea.

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=93.18  E-value=0.065  Score=49.12  Aligned_cols=23  Identities=17%  Similarity=0.429  Sum_probs=20.3

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .++++|++|+|||+++++++..-
T Consensus         2 ki~~vG~~~vGKTsli~~l~~~~   24 (168)
T cd04119           2 KVISMGNSGVGKSCIIKRYCEGR   24 (168)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            47899999999999999998754

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.

>PRK13947 shikimate kinase; Provisional

Probab=93.15  E-value=0.29  Score=45.64  Aligned_cols=31  Identities=13%  Similarity=0.337  Sum_probs=27.8

Q ss_pred             ceEEeccCCCcHhHHHHHHHHHcCCeEEEEE
Q psy12736        449 HCMVVGVEGGGKRSLVRLASFAAGYQVFTIQ  479 (567)
Q Consensus       449 h~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~  479 (567)
                      |++|+|++||||+++++..|...++.++...
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~lg~~~id~d   33 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTLSFGFIDTD   33 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCEEECc
Confidence            6899999999999999999999999887653

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=93.14  E-value=0.084  Score=53.98  Aligned_cols=58  Identities=16%  Similarity=0.147  Sum_probs=42.2

Q ss_pred             CCeEEeccCCCCchhhHHHHHhccCCCcceeeecCCCCCceEEEEeeccchhhhhhccccccccccCCHHHHHHHHHHhh
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSLSPDKYLVIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNEF  273 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l~~~~~~~~~egPp~gkk~v~iFNl~D~~R~~rg~f~~~~~~~~s~~sl~~I~~~il  273 (567)
                      -++|++|+||.|||+++++|.+.-+...      .+ .   ..              .+-|+++..|...+..++|.++|
T Consensus        62 p~lLivG~snnGKT~Ii~rF~~~hp~~~------d~-~---~~--------------~~PVv~vq~P~~p~~~~~Y~~IL  117 (302)
T PF05621_consen   62 PNLLIVGDSNNGKTMIIERFRRLHPPQS------DE-D---AE--------------RIPVVYVQMPPEPDERRFYSAIL  117 (302)
T ss_pred             CceEEecCCCCcHHHHHHHHHHHCCCCC------CC-C---Cc--------------cccEEEEecCCCCChHHHHHHHH
Confidence            4799999999999999999988644321      00 1   11              34566777888888888888888


Q ss_pred             hh
Q psy12736        274 TR  275 (567)
Q Consensus       274 ~~  275 (567)
                      ..
T Consensus       118 ~~  119 (302)
T PF05621_consen  118 EA  119 (302)
T ss_pred             HH
Confidence            74

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>PF06414 Zeta_toxin: Zeta toxin; InterPro: IPR010488 This entry represents a domain originally identified in bacterial zeta toxin proteins, where it comprises the whole protein []

Probab=93.14  E-value=0.076  Score=51.26  Aligned_cols=23  Identities=22%  Similarity=0.447  Sum_probs=19.0

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      =+++.|++|+|||+++..++..+
T Consensus        17 ~~i~aG~~GsGKSt~~~~~~~~~   39 (199)
T PF06414_consen   17 LIIIAGQPGSGKSTLARQLLEEF   39 (199)
T ss_dssp             EEEEES-TTSTTHHHHHHHHHHT
T ss_pred             EEEEeCCCCCCHHHHHHHhhhhc
Confidence            35677999999999999998876

It has subsequently been found in a number of other proteins, such as polynucleotide kinase and 2',3'-cyclic-nucleotide 3'-phosphodiesterase. It appears to function as a kinase domain [, ].; GO: 0005524 ATP binding, 0016301 kinase activity; PDB: 2P5T_H 1GVN_B 3Q8X_D.

>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model

Probab=93.13  E-value=0.039  Score=49.34  Aligned_cols=24  Identities=29%  Similarity=0.378  Sum_probs=17.5

Q ss_pred             CeEEeccCCCCchhhHHHHHhccC
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ||||.|+||+|||++++.+-+.+.
T Consensus         1 HvLleg~PG~GKT~la~~lA~~~~   24 (131)
T PF07726_consen    1 HVLLEGVPGVGKTTLAKALARSLG   24 (131)
T ss_dssp             -EEEES---HHHHHHHHHHHHHTT
T ss_pred             CEeeECCCccHHHHHHHHHHHHcC
Confidence            799999999999999998877653

AAA ATPases form a large, functionally diverse protein family belonging to the AAA+ superfamily of ring-shaped P-loop NTPases, which exert their activity through the energy-dependent unfolding of macromolecules. AAA ATPases contain a P-loop NTPase domain, which is the most abundant class of NTP-binding protein fold, and is found throughout all kingdoms of life []. P-loop NTPase domains act to hydrolyse the beta-gamma phosphate bond of bound nucleoside triphosphate. There are two classes of P-loop domains: the KG (kinase-GTPase) division, and the ASCE division, the latter including the AAA+ group as well as several other ATPases. There are at least six major clades of AAA domains (metalloproteases, meiotic proteins, D1 and D2 domains of ATPases with two AAA domains, proteasome subunits, and BSC1), as well as several minor clades, some of which consist of hypothetical proteins []. The domain organisation of AAA ATPases consists of a non-ATPase N-terminal domain that acts in substrate recognition, followed by one or two AAA domains (D1 and D2), one of which may be degenerate.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 2R44_A.

>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=93.11  E-value=0.24  Score=50.74  Aligned_cols=100  Identities=19%  Similarity=0.251  Sum_probs=62.4

Q ss_pred             cccChHHHHHHHHHHHHHHhhhhcccCcceEEecHHHHHHHHHHHHH-----HhcCCCceEEeccCCCcHhHHHHHHHHH
Q psy12736        396 DLLDYSAVGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRA-----LRLSRGHCMVVGVEGGGKRSLVRLASFA  470 (567)
Q Consensus       396 ~v~d~~~l~~~~~~~l~~yn~~~~~~~~~~lvlf~dai~hi~ri~Rv-----L~~p~Gh~LLvG~~GsGr~sl~rlaa~i  470 (567)
                      +++...++++.+.+|.--= +.  .++.+..    ..-.|-.||.--     .....+|+||+|++||||+-|++--|.+
T Consensus        48 ~lPtP~eik~~Ld~YVIGQ-e~--AKKvLsV----AVYNHYKRl~~~~~~~dvEL~KSNILLiGPTGsGKTlLAqTLAk~  120 (408)
T COG1219          48 ELPTPKEIKAHLDEYVIGQ-EQ--AKKVLSV----AVYNHYKRLNNKEDNDDVELSKSNILLIGPTGSGKTLLAQTLAKI  120 (408)
T ss_pred             cCCChHHHHHHhhhheecc-hh--hhceeee----eehhHHHHHhccCCCCceeeeeccEEEECCCCCcHHHHHHHHHHH
Confidence            3566666665554443100 01  0333333    345677777532     2234689999999999999999988888


Q ss_pred             cCCeEEEEEe----cCCCChhhHHHHHHHHHHHhcc
Q psy12736        471 AGYQVFTIQL----SRGYNEASFKEDLKSLYNLLGV  502 (567)
Q Consensus       471 ~~~~~~~i~~----~k~y~~~~f~edLk~~~~~ag~  502 (567)
                      .+-.+---..    -.+|--.+-.+-|.++++.|--
T Consensus       121 LnVPFaiADATtLTEAGYVGEDVENillkLlqaady  156 (408)
T COG1219         121 LNVPFAIADATTLTEAGYVGEDVENILLKLLQAADY  156 (408)
T ss_pred             hCCCeeeccccchhhccccchhHHHHHHHHHHHccc
Confidence            8876543322    2467666666677788887743

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

Probab=93.10  E-value=0.067  Score=48.68  Aligned_cols=22  Identities=27%  Similarity=0.540  Sum_probs=19.9

Q ss_pred             CeEEeccCCCCchhhHHHHHhc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .++++|++|+|||+++++++.+
T Consensus         3 ki~iiG~~~vGKTsl~~~~~~~   24 (162)
T cd04138           3 KLVVVGAGGVGKSALTIQLIQN   24 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999999865

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.

>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX)

Probab=93.10  E-value=0.059  Score=57.93  Aligned_cols=25  Identities=32%  Similarity=0.472  Sum_probs=21.9

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +.++||+||||||||.+++.+-..+
T Consensus       116 ~~~iLL~GP~GsGKT~lAraLA~~l  140 (413)
T TIGR00382       116 KSNILLIGPTGSGKTLLAQTLARIL  140 (413)
T ss_pred             CceEEEECCCCcCHHHHHHHHHHhc
Confidence            4589999999999999999887655

A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=93.09  E-value=0.47  Score=50.34  Aligned_cols=126  Identities=12%  Similarity=0.172  Sum_probs=63.9

Q ss_pred             EEecHHHHHHHHHHHHHHhc--CCCceEEeccCCCcHhHHHHHHHHHcCC------------eEEEEEecCCCChhhHHH
Q psy12736        426 LVLFEDAREHLTRIHRALRL--SRGHCMVVGVEGGGKRSLVRLASFAAGY------------QVFTIQLSRGYNEASFKE  491 (567)
Q Consensus       426 lvlf~dai~hi~ri~RvL~~--p~Gh~LLvG~~GsGr~sl~rlaa~i~~~------------~~~~i~~~k~y~~~~f~e  491 (567)
                      ++-.+++++.+.+   .+..  ...+.|+.|++|+||+++++..|...++            .+++++-...-+.    +
T Consensus        19 iig~~~~~~~l~~---~i~~~~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~----~   91 (367)
T PRK14970         19 VVGQSHITNTLLN---AIENNHLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFELDAASNNSV----D   91 (367)
T ss_pred             cCCcHHHHHHHHH---HHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEeccccCCCH----H
Confidence            3444455544433   3333  2346789999999999999877765433            2333321111122    4


Q ss_pred             HHHHHHHHhc---cCCCcEEEEEecCcccchhhhHHhh-hccC--CccccCcchhHHHHHHHhhccccceeeee
Q psy12736        492 DLKSLYNLLG---VKNQATVFLFTAAEIVEEGYQVFTI-QLSR--GYNEASFKEDLKSLYNLLGVKNQATVFLF  559 (567)
Q Consensus       492 dLk~~~~~ag---~~~~~~vfl~~d~qi~~e~fle~in-lL~~--Gevp~Lf~~eE~~~i~~~~~~~~~~~~~~  559 (567)
                      +++.++..+.   ..++.-++++++.+-..+.-++.+. .|..  +..-=++...+...+. ..++..+.++-+
T Consensus        92 ~i~~l~~~~~~~p~~~~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~kl~-~~l~sr~~~v~~  164 (367)
T PRK14970         92 DIRNLIDQVRIPPQTGKYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKII-PTILSRCQIFDF  164 (367)
T ss_pred             HHHHHHHHHhhccccCCcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeCCcccCC-HHHHhcceeEec
Confidence            5666665443   3455667778876544432222222 2321  1111234455555654 555555544433

>PRK07952 DNA replication protein DnaC; Validated

Probab=93.05  E-value=0.13  Score=51.51  Aligned_cols=26  Identities=23%  Similarity=0.239  Sum_probs=22.8

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ..+++|+|++|||||.++..+.+.+.
T Consensus        99 ~~~~~l~G~~GtGKThLa~aia~~l~  124 (244)
T PRK07952         99 IASFIFSGKPGTGKNHLAAAICNELL  124 (244)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHH
Confidence            35899999999999999999888764

>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=93.04  E-value=0.06  Score=51.26  Aligned_cols=30  Identities=20%  Similarity=0.367  Sum_probs=20.4

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhccCCCc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSLSPDK  221 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l~~~~  221 (567)
                      .+..|||+||+|+|||++...+..+-....
T Consensus         2 k~~~vlL~Gps~SGKTaLf~~L~~~~~~~T   31 (181)
T PF09439_consen    2 KRPTVLLVGPSGSGKTALFSQLVNGKTVPT   31 (181)
T ss_dssp             ---EEEEE-STTSSHHHHHHHHHHSS---B
T ss_pred             CCceEEEEcCCCCCHHHHHHHHhcCCcCCe
Confidence            356799999999999999999887633333

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.

>PRK06921 hypothetical protein; Provisional

Probab=93.03  E-value=0.099  Score=53.04  Aligned_cols=27  Identities=22%  Similarity=0.303  Sum_probs=23.9

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .+.+++|+||+|||||.++..+.+.+.
T Consensus       116 ~~~~l~l~G~~G~GKThLa~aia~~l~  142 (266)
T PRK06921        116 RKNSIALLGQPGSGKTHLLTAAANELM  142 (266)
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHh
Confidence            578899999999999999999888754

>KOG0734|consensus

Probab=93.03  E-value=0.054  Score=58.69  Aligned_cols=24  Identities=25%  Similarity=0.315  Sum_probs=20.5

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      -+-|||+||||||||++.+..-..
T Consensus       337 PKGVLLvGPPGTGKTlLARAvAGE  360 (752)
T KOG0734|consen  337 PKGVLLVGPPGTGKTLLARAVAGE  360 (752)
T ss_pred             CCceEEeCCCCCchhHHHHHhhcc
Confidence            467999999999999999887554

>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli []

Probab=93.02  E-value=0.087  Score=51.17  Aligned_cols=36  Identities=22%  Similarity=0.223  Sum_probs=26.2

Q ss_pred             chhhHHHHHHHHHhcCCCeEEeccCCCCchhhHHHHH
Q psy12736        178 DSTKLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFL  214 (567)
Q Consensus       178 dtvR~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l  214 (567)
                      -|......++.+. +..-|.+.||+|||||.+.-..-
T Consensus         5 ~~~~Q~~~~~al~-~~~~v~~~G~AGTGKT~LA~a~A   40 (205)
T PF02562_consen    5 KNEEQKFALDALL-NNDLVIVNGPAGTGKTFLALAAA   40 (205)
T ss_dssp             -SHHHHHHHHHHH-H-SEEEEE--TTSSTTHHHHHHH
T ss_pred             CCHHHHHHHHHHH-hCCeEEEECCCCCcHHHHHHHHH
Confidence            3566777888888 67789999999999999987653

; GO: 0005524 ATP binding; PDB: 3B85_A.

>KOG2028|consensus

Probab=93.00  E-value=0.28  Score=51.11  Aligned_cols=62  Identities=18%  Similarity=0.335  Sum_probs=40.7

Q ss_pred             CceEEeccCCCcHhHHHHHHHHHcCCe-EEEEEecCCC-ChhhHHHHHHHHHHHhc----cCCCcEEEEEec
Q psy12736        448 GHCMVVGVEGGGKRSLVRLASFAAGYQ-VFTIQLSRGY-NEASFKEDLKSLYNLLG----VKNQATVFLFTA  513 (567)
Q Consensus       448 Gh~LLvG~~GsGr~sl~rlaa~i~~~~-~~~i~~~k~y-~~~~f~edLk~~~~~ag----~~~~~~vfl~~d  513 (567)
                      -.++|-|++|+||+||+|+.+.-+.-. .+-|+++..- +.    .|+|.++.++-    .-.+.+++.+++
T Consensus       163 pSmIlWGppG~GKTtlArlia~tsk~~SyrfvelSAt~a~t----~dvR~ife~aq~~~~l~krkTilFiDE  230 (554)
T KOG2028|consen  163 PSMILWGPPGTGKTTLARLIASTSKKHSYRFVELSATNAKT----NDVRDIFEQAQNEKSLTKRKTILFIDE  230 (554)
T ss_pred             CceEEecCCCCchHHHHHHHHhhcCCCceEEEEEeccccch----HHHHHHHHHHHHHHhhhcceeEEEeHH
Confidence            357999999999999999998876543 3334444322 33    36666666553    334566666654

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=93.00  E-value=0.5  Score=49.02  Aligned_cols=116  Identities=12%  Similarity=0.127  Sum_probs=66.5

Q ss_pred             HHHHHhcC-CCce-EEeccCCCcHhHHHHHHHHHcCC--------eEEEEEe--cCCCChhhHHHHHHHHHHHhccCCCc
Q psy12736        439 IHRALRLS-RGHC-MVVGVEGGGKRSLVRLASFAAGY--------QVFTIQL--SRGYNEASFKEDLKSLYNLLGVKNQA  506 (567)
Q Consensus       439 i~RvL~~p-~Gh~-LLvG~~GsGr~sl~rlaa~i~~~--------~~~~i~~--~k~y~~~~f~edLk~~~~~ag~~~~~  506 (567)
                      +.+.+.+. -.|+ |+.|+.|+||+++++..|...-|        ++..+..  .+.++..+-++-...+ ......++.
T Consensus        16 l~~~~~~~~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~ir~~~~~~-~~~p~~~~~   94 (313)
T PRK05564         16 IKNSIIKNRFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDDIRNIIEEV-NKKPYEGDK   94 (313)
T ss_pred             HHHHHHcCCCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHHHHHHHHHH-hcCcccCCc
Confidence            44445543 4577 89999999999999877664322        3334433  3445555544433322 234456666


Q ss_pred             EEEEEecCcccchhhhHHhh-hccCC-cccc----CcchhHHHHHHHhhccccceeeee
Q psy12736        507 TVFLFTAAEIVEEGYQVFTI-QLSRG-YNEA----SFKEDLKSLYNLLGVKNQATVFLF  559 (567)
Q Consensus       507 ~vfl~~d~qi~~e~fle~in-lL~~G-evp~----Lf~~eE~~~i~~~~~~~~~~~~~~  559 (567)
                      -|+++.+.+-.+++   .-| ||.+= |.|.    ++..++.+.+. .+++..+.++-+
T Consensus        95 kv~iI~~ad~m~~~---a~naLLK~LEepp~~t~~il~~~~~~~ll-~TI~SRc~~~~~  149 (313)
T PRK05564         95 KVIIIYNSEKMTEQ---AQNAFLKTIEEPPKGVFIILLCENLEQIL-DTIKSRCQIYKL  149 (313)
T ss_pred             eEEEEechhhcCHH---HHHHHHHHhcCCCCCeEEEEEeCChHhCc-HHHHhhceeeeC
Confidence            77777775444442   334 44322 2222    44446666775 777777766655

>cd00876 Ras Ras family

Probab=92.97  E-value=0.074  Score=48.30  Aligned_cols=22  Identities=27%  Similarity=0.620  Sum_probs=19.7

Q ss_pred             CeEEeccCCCCchhhHHHHHhc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .++++|++|+|||+++++++..
T Consensus         1 ki~i~G~~~~GKTsli~~l~~~   22 (160)
T cd00876           1 KVVVLGAGGVGKSAITIQFVKG   22 (160)
T ss_pred             CEEEECCCCCCHHHHHHHHHhC
Confidence            3789999999999999999865

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

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=92.97  E-value=0.12  Score=56.36  Aligned_cols=24  Identities=21%  Similarity=0.347  Sum_probs=21.1

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .|++++||+|||||.+++.+.+.+
T Consensus       131 n~l~lyG~~G~GKTHLl~ai~~~l  154 (440)
T PRK14088        131 NPLFIYGGVGLGKTHLLQSIGNYV  154 (440)
T ss_pred             CeEEEEcCCCCcHHHHHHHHHHHH
Confidence            589999999999999999777654

>PRK14532 adenylate kinase; Provisional

Probab=92.97  E-value=0.065  Score=51.02  Aligned_cols=25  Identities=12%  Similarity=0.173  Sum_probs=0.0

Q ss_pred             CCeEEeccCCCCchhhHHHHHhccC
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .+++++||||||||++.+.+-+.+.
T Consensus         1 ~~i~~~G~pGsGKsT~a~~la~~~g   25 (188)
T PRK14532          1 MNLILFGPPAAGKGTQAKRLVEERG   25 (188)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHcC

>PRK10536 hypothetical protein; Provisional

Probab=92.97  E-value=0.096  Score=52.55  Aligned_cols=37  Identities=16%  Similarity=0.141  Sum_probs=27.4

Q ss_pred             hhhHHHHHHHHHhcCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        179 STKLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       179 tvR~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      +.....++..+. .+.-|+++||+|||||.++..+...
T Consensus        61 n~~Q~~~l~al~-~~~lV~i~G~aGTGKT~La~a~a~~   97 (262)
T PRK10536         61 NEAQAHYLKAIE-SKQLIFATGEAGCGKTWISAAKAAE   97 (262)
T ss_pred             CHHHHHHHHHHh-cCCeEEEECCCCCCHHHHHHHHHHH
Confidence            344455555444 4679999999999999999887653

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=92.95  E-value=0.067  Score=48.86  Aligned_cols=22  Identities=23%  Similarity=0.392  Sum_probs=18.8

Q ss_pred             eEEeccCCCCchhhHHHHHhcc
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ++++|++|||||++.+.+...+
T Consensus         2 i~l~G~~GsGKST~a~~l~~~~   23 (150)
T cd02021           2 IVVMGVSGSGKSTVGKALAERL   23 (150)
T ss_pred             EEEEcCCCCCHHHHHHHHHhhc
Confidence            6899999999999998876653

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

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

Probab=92.94  E-value=0.074  Score=49.50  Aligned_cols=23  Identities=35%  Similarity=0.462  Sum_probs=20.3

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .++++|++|+|||+++++++.+-
T Consensus         2 ki~vvG~~~vGKTsli~~~~~~~   24 (166)
T cd00877           2 KLVLVGDGGTGKTTFVKRHLTGE   24 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            47899999999999999998653

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

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=92.94  E-value=0.062  Score=50.72  Aligned_cols=26  Identities=27%  Similarity=0.373  Sum_probs=22.4

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..++++++|++|+|||++.+.+...+
T Consensus         3 ~~~~I~liG~~GaGKStl~~~La~~l   28 (172)
T PRK05057          3 EKRNIFLVGPMGAGKSTIGRQLAQQL   28 (172)
T ss_pred             CCCEEEEECCCCcCHHHHHHHHHHHc
Confidence            35689999999999999999887664

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=92.89  E-value=0.28  Score=55.33  Aligned_cols=24  Identities=25%  Similarity=0.360  Sum_probs=20.6

Q ss_pred             CeEEeccCCCCchhhHHHHHhccC
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ..||+||+|||||++++.+.+.+.
T Consensus        40 A~LFtGP~GvGKTTLAriLAkaLn   63 (700)
T PRK12323         40 AYLFTGTRGVGKTTLSRILAKSLN   63 (700)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhc
Confidence            469999999999999998877654

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=92.88  E-value=0.11  Score=54.39  Aligned_cols=29  Identities=24%  Similarity=0.265  Sum_probs=24.0

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhccCC
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      ....|+|+.|++|||||++++.+-.-++.
T Consensus        27 ~~~~~vLl~G~pG~gKT~lar~la~llP~   55 (334)
T PRK13407         27 PGIGGVLVFGDRGTGKSTAVRALAALLPL   55 (334)
T ss_pred             cCCCcEEEEcCCCCCHHHHHHHHHHHCCC
Confidence            33479999999999999999988666653

>PRK14531 adenylate kinase; Provisional

Probab=92.87  E-value=0.064  Score=51.07  Aligned_cols=25  Identities=16%  Similarity=0.286  Sum_probs=21.0

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+.++++||||||||++.+.+-+.+
T Consensus         2 ~~~i~i~G~pGsGKsT~~~~la~~~   26 (183)
T PRK14531          2 KQRLLFLGPPGAGKGTQAARLCAAH   26 (183)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            3469999999999999998876654

>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=92.86  E-value=0.14  Score=44.69  Aligned_cols=31  Identities=23%  Similarity=0.441  Sum_probs=26.7

Q ss_pred             eEEeccCCCcHhHHHHHHHHHcCCeEEEEEe
Q psy12736        450 CMVVGVEGGGKRSLVRLASFAAGYQVFTIQL  480 (567)
Q Consensus       450 ~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~  480 (567)
                      +++.|++||||+|+++..|-..|+.++.+.-
T Consensus         2 I~I~G~~gsGKST~a~~La~~~~~~~i~~d~   32 (121)
T PF13207_consen    2 IIISGPPGSGKSTLAKELAERLGFPVISMDD   32 (121)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHTCEEEEEHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCeEEEecc
Confidence            5799999999999999999888988877643

...

>PF00071 Ras: Ras family; InterPro: IPR001806 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=92.85  E-value=0.082  Score=48.43  Aligned_cols=26  Identities=31%  Similarity=0.587  Sum_probs=21.4

Q ss_pred             eEEeccCCCCchhhHHHHHhccCCCc
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSLSPDK  221 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l~~~~  221 (567)
                      ++++|+.|+|||++++.+...--+..
T Consensus         2 i~vvG~~~vGKtsl~~~~~~~~~~~~   27 (162)
T PF00071_consen    2 IVVVGDSGVGKTSLINRLINGEFPEN   27 (162)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSSTTSS
T ss_pred             EEEECCCCCCHHHHHHHHHhhccccc
Confidence            78999999999999999987643333

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 ....

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=92.85  E-value=0.065  Score=50.70  Aligned_cols=24  Identities=17%  Similarity=0.358  Sum_probs=20.0

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .-++++||+|||||++++.+...+
T Consensus         4 ~ii~i~G~~GsGKsTl~~~l~~~~   27 (188)
T TIGR01360         4 KIIFIVGGPGSGKGTQCEKIVEKY   27 (188)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            346789999999999999887654

Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=92.83  E-value=0.11  Score=57.76  Aligned_cols=48  Identities=21%  Similarity=0.346  Sum_probs=37.2

Q ss_pred             CCCCccccccCcchhhHHHHHHHHHhcCCCeEEeccCCCCchhhHHHH
Q psy12736        166 DKSFGDILVPTTDSTKLTWILSLMNEIKRPCIVVGDTGTSKTATMMNF  213 (567)
Q Consensus       166 ~~~~~~i~VpT~dtvR~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~  213 (567)
                      ...|.+++--.....+....++.+...+.|||+.|++||||+.+++.+
T Consensus       200 ~~~f~~~ig~s~~~~~~~~~~~~~A~~~~pvlI~GE~GtGK~~lA~ai  247 (520)
T PRK10820        200 DSAFSQIVAVSPKMRQVVEQARKLAMLDAPLLITGDTGTGKDLLAYAC  247 (520)
T ss_pred             cccccceeECCHHHHHHHHHHHHHhCCCCCEEEECCCCccHHHHHHHH
Confidence            345666665555555566677777889999999999999999999885

>PF00735 Septin: Septin; InterPro: IPR000038 Septins constitute a eukaryotic family of guanine nucleotide-binding proteins, most of which polymerise to form filaments []

Probab=92.81  E-value=0.057  Score=55.20  Aligned_cols=23  Identities=30%  Similarity=0.465  Sum_probs=21.1

Q ss_pred             CCeEEeccCCCCchhhHHHHHhc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .++|++|++|+|||++|+.+++.
T Consensus         5 fnImVvG~sG~GKTTFIntL~~~   27 (281)
T PF00735_consen    5 FNIMVVGESGLGKTTFINTLFNS   27 (281)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHTS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhc
Confidence            47899999999999999999875

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.

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=92.80  E-value=0.13  Score=55.46  Aligned_cols=51  Identities=16%  Similarity=0.178  Sum_probs=32.4

Q ss_pred             CCCCccccccCcchhhHHHHHHHHHhc----CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        166 DKSFGDILVPTTDSTKLTWILSLMNEI----KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       166 ~~~~~~i~VpT~dtvR~~~ll~~ll~~----~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ...|.+ +|++.+..-....+..+..+    ..|++|+||+|||||.+++.+.+.+
T Consensus       106 ~~tfd~-fi~g~~n~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKThL~~ai~~~l  160 (405)
T TIGR00362       106 KYTFDN-FVVGKSNRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLHAIGNEI  160 (405)
T ss_pred             CCcccc-cccCCcHHHHHHHHHHHHhCcCccCCeEEEECCCCCcHHHHHHHHHHHH
Confidence            334444 34454444333444444442    3589999999999999998877654

DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).

>TIGR03689 pup_AAA proteasome ATPase

Probab=92.80  E-value=0.21  Score=55.19  Aligned_cols=69  Identities=9%  Similarity=0.278  Sum_probs=42.6

Q ss_pred             CCCceEEeccCCCcHhHHHHHHHHHcCCe--------EEEEEec-----CCCChhhHHHHHHHHHHHhc---cCCCcEEE
Q psy12736        446 SRGHCMVVGVEGGGKRSLVRLASFAAGYQ--------VFTIQLS-----RGYNEASFKEDLKSLYNLLG---VKNQATVF  509 (567)
Q Consensus       446 p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~--------~~~i~~~-----k~y~~~~f~edLk~~~~~ag---~~~~~~vf  509 (567)
                      |..++||.|++|+||++++|..|.-.+..        .+.+.+.     ..|- .+....++.++..|.   ..++|+++
T Consensus       215 ~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~fl~v~~~eLl~kyv-Gete~~ir~iF~~Ar~~a~~g~p~II  293 (512)
T TIGR03689       215 PPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYFLNIKGPELLNKYV-GETERQIRLIFQRAREKASDGRPVIV  293 (512)
T ss_pred             CCcceEEECCCCCcHHHHHHHHHHhhccccccccCCceeEEeccchhhccccc-chHHHHHHHHHHHHHHHhhcCCCceE
Confidence            44569999999999999999988765443        2222221     1221 122334555555442   34678999


Q ss_pred             EEecCc
Q psy12736        510 LFTAAE  515 (567)
Q Consensus       510 l~~d~q  515 (567)
                      +++|-+
T Consensus       294 fIDEiD  299 (512)
T TIGR03689       294 FFDEMD  299 (512)
T ss_pred             EEehhh
Confidence            887754

In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=92.79  E-value=0.069  Score=49.23  Aligned_cols=23  Identities=13%  Similarity=0.252  Sum_probs=20.1

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +++++|++|+|||++++++....
T Consensus         1 ~i~~vG~~~~GKstLi~~l~~~~   23 (167)
T cd04160           1 SVLILGLDNAGKTTFLEQLKTLF   23 (167)
T ss_pred             CEEEEecCCCCHHHHHHHHhhhc
Confidence            47899999999999999987643

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.

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=92.79  E-value=0.4  Score=52.77  Aligned_cols=23  Identities=22%  Similarity=0.306  Sum_probs=19.4

Q ss_pred             CCeEEeccCCCCchhhHHHHHhc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ++.||+||+|+|||++++-+-+.
T Consensus        36 ha~Lf~Gp~G~GKTT~ArilAk~   58 (491)
T PRK14964         36 QSILLVGASGVGKTTCARIISLC   58 (491)
T ss_pred             ceEEEECCCCccHHHHHHHHHHH
Confidence            46999999999999988776553

>cd01918 HprK_C HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria

Probab=92.76  E-value=0.065  Score=49.34  Aligned_cols=25  Identities=12%  Similarity=0.319  Sum_probs=22.8

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .++-||++||+|+|||++...++++
T Consensus        13 ~g~gvLi~G~sG~GKStlal~L~~~   37 (149)
T cd01918          13 GGIGVLITGPSGIGKSELALELIKR   37 (149)
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHc
Confidence            4788999999999999999988875

It catalyzes both the ATP-dependent phosphorylation of Ser-46 of HPr and its dephosphorylation by phosphorolysis. The latter reaction uses inorganic phosphate as substrate and produces pyrophosphate. Phosphoenolpyruvate carboxykinase (PEPCK) and the C-terminal catalytic domain of HprK/P are structurally similar with conserved active site residues suggesting these two phosphotransferases have related functions. The HprK/P N-terminal domain is structurally similar to the N-terminal domains of the MurE and MurF amino acid ligases.

>TIGR00602 rad24 checkpoint protein rad24

Probab=92.76  E-value=0.46  Score=53.98  Aligned_cols=53  Identities=23%  Similarity=0.332  Sum_probs=35.2

Q ss_pred             eEEecHHHHHHHHHHHHHHhc--CCCc-eEEeccCCCcHhHHHHHHHHHcCCeEEE
Q psy12736        425 DLVLFEDAREHLTRIHRALRL--SRGH-CMVVGVEGGGKRSLVRLASFAAGYQVFT  477 (567)
Q Consensus       425 ~lvlf~dai~hi~ri~RvL~~--p~Gh-~LLvG~~GsGr~sl~rlaa~i~~~~~~~  477 (567)
                      +++..++.++-+.++.+-...  ..|+ ++|.|++|+||++++++.|...++++.+
T Consensus        85 el~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l~~~~~E  140 (637)
T TIGR00602        85 ELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKELGIQVQE  140 (637)
T ss_pred             HhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHhhhHHHH
Confidence            344555555544444333222  2344 7899999999999999999888876533

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=92.76  E-value=0.11  Score=55.26  Aligned_cols=24  Identities=25%  Similarity=0.379  Sum_probs=21.4

Q ss_pred             CeEEeccCCCCchhhHHHHHhccC
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .+|++||+|||||++++.+.+.+.
T Consensus        40 ~~L~~Gp~G~GKTtla~~la~~l~   63 (363)
T PRK14961         40 AWLLSGTRGVGKTTIARLLAKSLN   63 (363)
T ss_pred             EEEEecCCCCCHHHHHHHHHHHhc
Confidence            369999999999999999988764

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=92.74  E-value=0.14  Score=56.06  Aligned_cols=55  Identities=15%  Similarity=0.228  Sum_probs=0.0

Q ss_pred             ecCCCCCccccccCcchhhHHHHHHHHHhcC---CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        163 HDGDKSFGDILVPTTDSTKLTWILSLMNEIK---RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       163 ~~~~~~~~~i~VpT~dtvR~~~ll~~ll~~~---~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .++...|.+-+|-.....-+.......-..+   .|++++||+|||||.+++.+.+.+
T Consensus       115 l~~~~tfd~fv~g~~n~~a~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ai~~~~  172 (450)
T PRK00149        115 LNPKYTFDNFVVGKSNRLAHAAALAVAENPGKAYNPLFIYGGVGLGKTHLLHAIGNYI  172 (450)
T ss_pred             CCCCCcccccccCCCcHHHHHHHHHHHhCcCccCCeEEEECCCCCCHHHHHHHHHHHH

>COG5008 PilU Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=92.74  E-value=0.098  Score=52.19  Aligned_cols=51  Identities=25%  Similarity=0.341  Sum_probs=38.3

Q ss_pred             ccccCcchhhHHHHHHHHHh-cCCCeEEeccCCCCchhhHHHHHhccCCCcc
Q psy12736        172 ILVPTTDSTKLTWILSLMNE-IKRPCIVVGDTGTSKTATMMNFLRSLSPDKY  222 (567)
Q Consensus       172 i~VpT~dtvR~~~ll~~ll~-~~~pvLl~GptGtGKT~~i~~~l~~l~~~~~  222 (567)
                      ..|||.+....--+++-+.- .+-=|++||+||||||+.+..++...+...+
T Consensus       105 ~~IPt~eeL~LPevlk~la~~kRGLviiVGaTGSGKSTtmAaMi~yRN~~s~  156 (375)
T COG5008         105 TKIPTFEELKLPEVLKDLALAKRGLVIIVGATGSGKSTTMAAMIGYRNKNST  156 (375)
T ss_pred             ccCCcHHhcCCcHHHHHhhcccCceEEEECCCCCCchhhHHHHhcccccCCC
Confidence            46788777777777776654 4456889999999999999998875544443

>PRK12377 putative replication protein; Provisional

Probab=92.73  E-value=0.5  Score=47.42  Aligned_cols=109  Identities=14%  Similarity=0.119  Sum_probs=59.2

Q ss_pred             CCceEEeccCCCcHhHHHHHHHHHc---CCeEEEEEecCCCChhhHHHHHHHHHHHhc-----c--CCCcEEEEEecCcc
Q psy12736        447 RGHCMVVGVEGGGKRSLVRLASFAA---GYQVFTIQLSRGYNEASFKEDLKSLYNLLG-----V--KNQATVFLFTAAEI  516 (567)
Q Consensus       447 ~Gh~LLvG~~GsGr~sl~rlaa~i~---~~~~~~i~~~k~y~~~~f~edLk~~~~~ag-----~--~~~~~vfl~~d~qi  516 (567)
                      .++++|.|++|+||+.|+...|...   ++.+.-+.      ..++.++|+..+....     +  -.+.-+++++|-+.
T Consensus       101 ~~~l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i~------~~~l~~~l~~~~~~~~~~~~~l~~l~~~dLLiIDDlg~  174 (248)
T PRK12377        101 CTNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVT------VPDVMSRLHESYDNGQSGEKFLQELCKVDLLVLDEIGI  174 (248)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEE------HHHHHHHHHHHHhccchHHHHHHHhcCCCEEEEcCCCC
Confidence            4689999999999999988766543   45554443      4466666666543211     0  12444677777633


Q ss_pred             c--chhhhHHhh-hccCC---ccccCc----chhHHHH-----HHHhhcccc-ceeeeeecc
Q psy12736        517 V--EEGYQVFTI-QLSRG---YNEASF----KEDLKSL-----YNLLGVKNQ-ATVFLFTAA  562 (567)
Q Consensus       517 ~--~e~fle~in-lL~~G---evp~Lf----~~eE~~~-----i~~~~~~~~-~~~~~~~~~  562 (567)
                      .  .+.-.+.+. +++.-   ..|-++    +.+|+.+     |+ ..++.. +...-+++.
T Consensus       175 ~~~s~~~~~~l~~ii~~R~~~~~ptiitSNl~~~~l~~~~~~ri~-dRl~~~~~~~v~~~g~  235 (248)
T PRK12377        175 QRETKNEQVVLNQIIDRRTASMRSVGMLTNLNHEAMSTLLGERVM-DRMTMNGGRWVNFNWE  235 (248)
T ss_pred             CCCCHHHHHHHHHHHHHHHhcCCCEEEEcCCCHHHHHHHhhHHHH-HHHhhCCCeEEEeCCc
Confidence            2  233344444 54422   233333    2455544     43 556543 344555554

>cd04117 Rab15 Rab15 subfamily

Probab=92.70  E-value=0.081  Score=48.88  Aligned_cols=22  Identities=27%  Similarity=0.584  Sum_probs=19.9

Q ss_pred             CeEEeccCCCCchhhHHHHHhc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .++++|++|+|||+++.+++..
T Consensus         2 ki~vvG~~~~GKTsli~~~~~~   23 (161)
T cd04117           2 RLLLIGDSGVGKTCLLCRFTDN   23 (161)
T ss_pred             EEEEECcCCCCHHHHHHHHhcC
Confidence            4899999999999999999865

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

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=92.69  E-value=0.32  Score=55.78  Aligned_cols=24  Identities=25%  Similarity=0.414  Sum_probs=20.1

Q ss_pred             CeEEeccCCCCchhhHHHHHhccC
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .+||+||+|||||+++..+.+.+.
T Consensus        40 AyLFtGPpGvGKTTlAriLAKaLn   63 (830)
T PRK07003         40 AYLFTGTRGVGKTTLSRIFAKALN   63 (830)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhc
Confidence            469999999999999988776553

>PF01580 FtsK_SpoIIIE: FtsK/SpoIIIE family; InterPro: IPR002543 The FtsK/SpoIIIE domain is found extensively in a wide variety of proteins from prokaryotes and plasmids [] some of which contain up to three copies

Probab=92.68  E-value=0.073  Score=51.48  Aligned_cols=26  Identities=27%  Similarity=0.479  Sum_probs=20.4

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ..|+|++|.||+|||++++.++..+-
T Consensus        38 ~~h~li~G~tgsGKS~~l~~ll~~l~   63 (205)
T PF01580_consen   38 NPHLLIAGATGSGKSTLLRTLLLSLA   63 (205)
T ss_dssp             S-SEEEE--TTSSHHHHHHHHHHHHH
T ss_pred             CceEEEEcCCCCCccHHHHHHHHHHH
Confidence            44999999999999999999887754

The domain contains a putative ATP binding P-loop motif. A mutation in FtsK causes a temperature sensitive block in cell division and it is involved in peptidoglycan synthesis or modification []. The SpoIIIE protein is implicated in intercellular chromosomal DNA transfer []. ; GO: 0000166 nucleotide binding, 0003677 DNA binding, 0005524 ATP binding, 0007049 cell cycle, 0007059 chromosome segregation, 0051301 cell division, 0016021 integral to membrane; PDB: 2IUS_E 2IUU_A 2IUT_A.

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=92.67  E-value=0.082  Score=48.80  Aligned_cols=22  Identities=23%  Similarity=0.625  Sum_probs=19.8

Q ss_pred             CeEEeccCCCCchhhHHHHHhc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .++++|++|+|||+++++++..
T Consensus         4 ki~i~G~~~vGKSsli~~~~~~   25 (166)
T cd01869           4 KLLLIGDSGVGKSCLLLRFADD   25 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4899999999999999998864

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

>PRK10646 ADP-binding protein; Provisional

Probab=92.66  E-value=0.14  Score=47.30  Aligned_cols=43  Identities=21%  Similarity=0.205  Sum_probs=37.3

Q ss_pred             cchhhHHHHHHHHHhcCCCeEEeccCCCCchhhHHHHHhccCC
Q psy12736        177 TDSTKLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       177 ~dtvR~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      .+|.+....+...++.+.-|+|.|+=|+|||++++.+.+.+-.
T Consensus        12 ~~t~~l~~~la~~l~~g~vi~L~GdLGaGKTtf~rgl~~~Lg~   54 (153)
T PRK10646         12 QATLDLGARVAKACDGATVIYLYGDLGAGKTTFSRGFLQALGH   54 (153)
T ss_pred             HHHHHHHHHHHHhCCCCcEEEEECCCCCCHHHHHHHHHHHcCC
Confidence            4677778888888888888999999999999999999998753

>TIGR01817 nifA Nif-specific regulatory protein

Probab=92.65  E-value=0.13  Score=57.55  Aligned_cols=55  Identities=9%  Similarity=0.102  Sum_probs=0.0

Q ss_pred             cceeecCCCCCccccccCcchhhHHHHHHHHHhcCCCeEEeccCCCCchhhHHHH
Q psy12736        159 RSYVHDGDKSFGDILVPTTDSTKLTWILSLMNEIKRPCIVVGDTGTSKTATMMNF  213 (567)
Q Consensus       159 ~~~~~~~~~~~~~i~VpT~dtvR~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~  213 (567)
                      |...-.+...+..++-......+..-.++.+...+.||||+||+||||+.+++.+
T Consensus       185 ~~~~~~~~~~~~~liG~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~lA~~i  239 (534)
T TIGR01817       185 PEIARRRSGKEDGIIGKSPAMRQVVDQARVVARSNSTVLLRGESGTGKELIAKAI  239 (534)
T ss_pred             ccccccccCccCceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCccHHHHHHHH

This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=92.63  E-value=0.086  Score=49.25  Aligned_cols=32  Identities=16%  Similarity=0.209  Sum_probs=0.0

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHHHhccCCCc
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNFLRSLSPDK  221 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~l~~l~~~~  221 (567)
                      +..|-.++++||+|||||++.+..-+-.+++.
T Consensus        26 v~~Ge~iaitGPSG~GKStllk~va~Lisp~~   57 (223)
T COG4619          26 VRAGEFIAITGPSGCGKSTLLKIVASLISPTS   57 (223)
T ss_pred             ecCCceEEEeCCCCccHHHHHHHHHhccCCCC

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=92.63  E-value=0.23  Score=50.34  Aligned_cols=91  Identities=15%  Similarity=0.263  Sum_probs=54.7

Q ss_pred             HHHHHHHHHhcCCCceEEeccCCCcHhHHHH-HHHHHcC--CeEEEEEecCCCC-------------hhhHHHHHHHHHH
Q psy12736        435 HLTRIHRALRLSRGHCMVVGVEGGGKRSLVR-LASFAAG--YQVFTIQLSRGYN-------------EASFKEDLKSLYN  498 (567)
Q Consensus       435 hi~ri~RvL~~p~Gh~LLvG~~GsGr~sl~r-laa~i~~--~~~~~i~~~k~y~-------------~~~f~edLk~~~~  498 (567)
                      ++..+.+.+..++|.+++.|++||||+|+.+ +..++..  ..++.|+-...|.             -..|.+-++.++ 
T Consensus        68 ~~~~l~~~~~~~~GlilisG~tGSGKTT~l~all~~i~~~~~~iitiEdp~E~~~~~~~q~~v~~~~~~~~~~~l~~~l-  146 (264)
T cd01129          68 NLEIFRKLLEKPHGIILVTGPTGSGKTTTLYSALSELNTPEKNIITVEDPVEYQIPGINQVQVNEKAGLTFARGLRAIL-  146 (264)
T ss_pred             HHHHHHHHHhcCCCEEEEECCCCCcHHHHHHHHHhhhCCCCCeEEEECCCceecCCCceEEEeCCcCCcCHHHHHHHHh-
Confidence            3445566778899999999999999999987 5577753  3455553221111             013445555544 


Q ss_pred             HhccCCCcEEEEEecCcccchh-hhHHhhhccCCc
Q psy12736        499 LLGVKNQATVFLFTAAEIVEEG-YQVFTIQLSRGY  532 (567)
Q Consensus       499 ~ag~~~~~~vfl~~d~qi~~e~-fle~inlL~~Ge  532 (567)
                          ...|-++++.+-  .+++ +...++..++|.
T Consensus       147 ----R~~PD~i~vgEi--R~~e~a~~~~~aa~tGh  175 (264)
T cd01129         147 ----RQDPDIIMVGEI--RDAETAEIAVQAALTGH  175 (264)
T ss_pred             ----ccCCCEEEeccC--CCHHHHHHHHHHHHcCC
Confidence                335777777653  4433 444556444454

It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.

>PRK08233 hypothetical protein; Provisional

Probab=92.63  E-value=0.077  Score=49.90  Aligned_cols=25  Identities=16%  Similarity=0.199  Sum_probs=20.8

Q ss_pred             CCeEEeccCCCCchhhHHHHHhccC
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .-|.+.|++|||||++.+.+...+.
T Consensus         4 ~iI~I~G~~GsGKtTla~~L~~~l~   28 (182)
T PRK08233          4 KIITIAAVSGGGKTTLTERLTHKLK   28 (182)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhCC
Confidence            3467789999999999998887764

>PF13173 AAA_14: AAA domain

Probab=92.63  E-value=0.32  Score=43.30  Aligned_cols=89  Identities=12%  Similarity=0.179  Sum_probs=53.0

Q ss_pred             CceEEeccCCCcHhHHHHHHH-HHc-CCeEEEEEecCCCChhhHHH-HHHHHHHHhccCCCcEEEEEecCcccchhhhHH
Q psy12736        448 GHCMVVGVEGGGKRSLVRLAS-FAA-GYQVFTIQLSRGYNEASFKE-DLKSLYNLLGVKNQATVFLFTAAEIVEEGYQVF  524 (567)
Q Consensus       448 Gh~LLvG~~GsGr~sl~rlaa-~i~-~~~~~~i~~~k~y~~~~f~e-dLk~~~~~ag~~~~~~vfl~~d~qi~~e~fle~  524 (567)
                      .-++|.|+.|+||+++++-.+ ... ..+++.+.....-. ....+ ++.+.+.+. ..+++..+++++-|-.+ .+.+.
T Consensus         3 ~~~~l~G~R~vGKTtll~~~~~~~~~~~~~~yi~~~~~~~-~~~~~~~~~~~~~~~-~~~~~~~i~iDEiq~~~-~~~~~   79 (128)
T PF13173_consen    3 KIIILTGPRGVGKTTLLKQLAKDLLPPENILYINFDDPRD-RRLADPDLLEYFLEL-IKPGKKYIFIDEIQYLP-DWEDA   79 (128)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhcccccceeeccCCHHH-HHHhhhhhHHHHHHh-hccCCcEEEEehhhhhc-cHHHH
Confidence            346899999999999985544 333 34555555432111 11111 134445444 44467778889988775 58888


Q ss_pred             hh-hccCC-ccccCcch
Q psy12736        525 TI-QLSRG-YNEASFKE  539 (567)
Q Consensus       525 in-lL~~G-evp~Lf~~  539 (567)
                      ++ +...+ ++.=+.+.
T Consensus        80 lk~l~d~~~~~~ii~tg   96 (128)
T PF13173_consen   80 LKFLVDNGPNIKIILTG   96 (128)
T ss_pred             HHHHHHhccCceEEEEc
Confidence            88 77766 33333433

>TIGR00602 rad24 checkpoint protein rad24

Probab=92.63  E-value=0.064  Score=60.72  Aligned_cols=61  Identities=18%  Similarity=0.281  Sum_probs=38.4

Q ss_pred             eeCcccccceeecCCCCCccccccCcchhhHHHHHHHHHh---cCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        152 VPWRHLVRSYVHDGDKSFGDILVPTTDSTKLTWILSLMNE---IKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       152 ~~W~~~v~~~~~~~~~~~~~i~VpT~dtvR~~~ll~~ll~---~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .+|.+...+      ..+.++.++....-....++.....   .++-++|.||+|||||++++-+.+.+.
T Consensus        72 ~pW~eKyrP------~~ldel~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l~  135 (637)
T TIGR00602        72 EPWVEKYKP------ETQHELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKELG  135 (637)
T ss_pred             CchHHHhCC------CCHHHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHhh
Confidence            467765432      2355666666554444444444332   223499999999999999988766543

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PRK06835 DNA replication protein DnaC; Validated

Probab=92.62  E-value=1.4  Score=46.04  Aligned_cols=112  Identities=13%  Similarity=0.069  Sum_probs=65.2

Q ss_pred             cCCCceEEeccCCCcHhHHHHHHHHH---cCCeEEEEEecCCCChhhHHHHHHHHHHH---------hccCCCcEEEEEe
Q psy12736        445 LSRGHCMVVGVEGGGKRSLVRLASFA---AGYQVFTIQLSRGYNEASFKEDLKSLYNL---------LGVKNQATVFLFT  512 (567)
Q Consensus       445 ~p~Gh~LLvG~~GsGr~sl~rlaa~i---~~~~~~~i~~~k~y~~~~f~edLk~~~~~---------ag~~~~~~vfl~~  512 (567)
                      ....+++|.|.+|+||+.|+.-+|.-   .|+.+.-++      ..++.+.|+.....         ..+.+ .=+++++
T Consensus       181 ~~~~~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t------~~~l~~~l~~~~~~~~~~~~~~~~~l~~-~DLLIID  253 (329)
T PRK06835        181 KNNENLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRT------ADELIEILREIRFNNDKELEEVYDLLIN-CDLLIID  253 (329)
T ss_pred             ccCCcEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEE------HHHHHHHHHHHHhccchhHHHHHHHhcc-CCEEEEe
Confidence            45688999999999999998776654   356655554      33444555443211         11122 2346777


Q ss_pred             cCccc------chhhhHHhh-hccCCc---cccCcchhHHH-----HHHHhhccccceeeeeecccc
Q psy12736        513 AAEIV------EEGYQVFTI-QLSRGY---NEASFKEDLKS-----LYNLLGVKNQATVFLFTAAEI  564 (567)
Q Consensus       513 d~qi~------~e~fle~in-lL~~Ge---vp~Lf~~eE~~-----~i~~~~~~~~~~~~~~~~~~~  564 (567)
                      |-+..      .+.+.+.|| -+..|-   |..=++++|+.     .|. +.+..-..+.-+.|.++
T Consensus       254 DlG~e~~t~~~~~~Lf~iin~R~~~~k~tIiTSNl~~~el~~~~~eri~-SRL~~~~~~i~~~G~d~  319 (329)
T PRK06835        254 DLGTEKITEFSKSELFNLINKRLLRQKKMIISTNLSLEELLKTYSERIS-SRLLGNFTLLKFYGEDI  319 (329)
T ss_pred             ccCCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCCCHHHHHHHHhHHHH-HHHHcCCEEEEecCcCh
Confidence            75433      245667777 555442   22223456663     354 66766677777777664

>PRK04328 hypothetical protein; Provisional

Probab=92.59  E-value=0.11  Score=52.01  Aligned_cols=25  Identities=24%  Similarity=0.384  Sum_probs=22.4

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .|..+++.||||||||++..+++.+
T Consensus        22 ~gs~ili~G~pGsGKT~l~~~fl~~   46 (249)
T PRK04328         22 ERNVVLLSGGPGTGKSIFSQQFLWN   46 (249)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHH
Confidence            4778999999999999999998865

>PRK04040 adenylate kinase; Provisional

Probab=92.56  E-value=0.088  Score=50.51  Aligned_cols=24  Identities=29%  Similarity=0.411  Sum_probs=21.4

Q ss_pred             CeEEeccCCCCchhhHHHHHhccC
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      -++++|++|||||++++.+.+.++
T Consensus         4 ~i~v~G~pG~GKtt~~~~l~~~l~   27 (188)
T PRK04040          4 VVVVTGVPGVGKTTVLNKALEKLK   27 (188)
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHhc
Confidence            478999999999999999988774

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=92.55  E-value=0.12  Score=59.60  Aligned_cols=49  Identities=16%  Similarity=0.297  Sum_probs=35.6

Q ss_pred             CCccccccCcchhhHHHHHHHHHhcCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        168 SFGDILVPTTDSTKLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       168 ~~~~i~VpT~dtvR~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .|.+++-...-..+...-++.+...+.|||++|++|||||.+++.+-..
T Consensus       374 ~~~~liG~S~~~~~~~~~~~~~a~~~~pVLI~GE~GTGK~~lA~~ih~~  422 (686)
T PRK15429        374 EFGEIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNL  422 (686)
T ss_pred             cccceeecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHh
Confidence            4445544444444455567777789999999999999999998876543

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=92.54  E-value=0.063  Score=54.93  Aligned_cols=26  Identities=27%  Similarity=0.342  Sum_probs=22.2

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+.-++++||+|+|||+++..+...+
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~~~  218 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAARF  218 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            46679999999999999999887654

>KOG0731|consensus

Probab=92.53  E-value=0.063  Score=61.12  Aligned_cols=25  Identities=28%  Similarity=0.372  Sum_probs=21.2

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      --+=|||+||||||||.+++.....
T Consensus       343 iPkGvLL~GPPGTGKTLLAKAiAGE  367 (774)
T KOG0731|consen  343 IPKGVLLVGPPGTGKTLLAKAIAGE  367 (774)
T ss_pred             CcCceEEECCCCCcHHHHHHHHhcc
Confidence            3467999999999999999987653

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=92.49  E-value=0.12  Score=50.62  Aligned_cols=36  Identities=17%  Similarity=0.254  Sum_probs=30.0

Q ss_pred             HHHHHHhcCCC-eEEeccCCCCchhhHHHHHhccCCC
Q psy12736        185 ILSLMNEIKRP-CIVVGDTGTSKTATMMNFLRSLSPD  220 (567)
Q Consensus       185 ll~~ll~~~~p-vLl~GptGtGKT~~i~~~l~~l~~~  220 (567)
                      +++.+..++.- .|+.||||||||++++++-+.+...
T Consensus       128 li~~ly~~g~lntLiigpP~~GKTTlLRdiaR~~s~g  164 (308)
T COG3854         128 LIKDLYQNGWLNTLIIGPPQVGKTTLLRDIARLLSDG  164 (308)
T ss_pred             HHHHHHhcCceeeEEecCCCCChHHHHHHHHHHhhcc
Confidence            66777777775 9999999999999999988776543

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=92.47  E-value=0.076  Score=58.84  Aligned_cols=25  Identities=24%  Similarity=0.291  Sum_probs=21.6

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+.+||+||||||||++++.+....
T Consensus        88 ~~giLL~GppGtGKT~la~alA~~~  112 (495)
T TIGR01241        88 PKGVLLVGPPGTGKTLLAKAVAGEA  112 (495)
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHHc
Confidence            4579999999999999999887654

HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.

>PRK03839 putative kinase; Provisional

Probab=92.46  E-value=0.08  Score=50.08  Aligned_cols=23  Identities=22%  Similarity=0.307  Sum_probs=0.0

Q ss_pred             eEEeccCCCCchhhHHHHHhccC
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ++++|++|||||++.+.+-+.+.
T Consensus         3 I~l~G~pGsGKsT~~~~La~~~~   25 (180)
T PRK03839          3 IAITGTPGVGKTTVSKLLAEKLG   25 (180)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC

>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function

Probab=92.46  E-value=0.6  Score=46.45  Aligned_cols=35  Identities=26%  Similarity=0.460  Sum_probs=27.6

Q ss_pred             cCCCceEEeccCCCcHhHHHHHHHHH---cCCeEEEEE
Q psy12736        445 LSRGHCMVVGVEGGGKRSLVRLASFA---AGYQVFTIQ  479 (567)
Q Consensus       445 ~p~Gh~LLvG~~GsGr~sl~rlaa~i---~~~~~~~i~  479 (567)
                      .|..|+||-|..|+||.|++|-+...   .|..++++.
T Consensus        50 ~pannvLL~G~rGtGKSSlVkall~~y~~~GLRlIev~   87 (249)
T PF05673_consen   50 LPANNVLLWGARGTGKSSLVKALLNEYADQGLRLIEVS   87 (249)
T ss_pred             CCCcceEEecCCCCCHHHHHHHHHHHHhhcCceEEEEC
Confidence            47889999999999999999977553   355565553

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=92.42  E-value=0.13  Score=53.89  Aligned_cols=42  Identities=17%  Similarity=0.351  Sum_probs=0.0

Q ss_pred             ccccCcchhhHHHHHHHHHhcCCCeEEeccCCCCchhhHHHH
Q psy12736        172 ILVPTTDSTKLTWILSLMNEIKRPCIVVGDTGTSKTATMMNF  213 (567)
Q Consensus       172 i~VpT~dtvR~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~  213 (567)
                      ++-......+..-.+..+...+.||||.|++||||+++++.+
T Consensus         1 liG~S~~m~~~~~~~~~~a~~~~pVLI~GE~GtGK~~lAr~i   42 (329)
T TIGR02974         1 LIGESNAFLEVLEQVSRLAPLDRPVLIIGERGTGKELIAARL   42 (329)
T ss_pred             CCcCCHHHHHHHHHHHHHhCCCCCEEEECCCCChHHHHHHHH

Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH

>smart00175 RAB Rab subfamily of small GTPases

Probab=92.41  E-value=0.093  Score=47.98  Aligned_cols=22  Identities=27%  Similarity=0.591  Sum_probs=20.0

Q ss_pred             CeEEeccCCCCchhhHHHHHhc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .|+++|++|+|||+++++++..
T Consensus         2 kv~v~G~~~~GKTtli~~l~~~   23 (164)
T smart00175        2 KIILIGDSGVGKSSLLSRFTDG   23 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4899999999999999999865

Rab GTPases are implicated in vesicle trafficking.

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=92.40  E-value=0.056  Score=49.29  Aligned_cols=25  Identities=24%  Similarity=0.375  Sum_probs=22.1

Q ss_pred             eEEeccCCCCchhhHHHHHhccCCC
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSLSPD  220 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l~~~  220 (567)
                      |.+||+.|||||+++..+++.+...
T Consensus         3 v~VvG~~~sGKTTl~~~Li~~l~~~   27 (140)
T PF03205_consen    3 VQVVGPKNSGKTTLIRKLINELKRR   27 (140)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhHc
Confidence            6899999999999999999887644

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=92.40  E-value=0.09  Score=48.85  Aligned_cols=21  Identities=24%  Similarity=0.396  Sum_probs=19.4

Q ss_pred             eEEeccCCCCchhhHHHHHhc
Q psy12736        196 CIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~  216 (567)
                      |+++|++|+|||+++.++...
T Consensus         2 i~ivG~~~vGKTsli~~~~~~   22 (164)
T cd04162           2 ILVLGLDGAGKTSLLHSLSSE   22 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            789999999999999999875

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.

>cd00154 Rab Rab family

Probab=92.40  E-value=0.097  Score=47.07  Aligned_cols=24  Identities=25%  Similarity=0.577  Sum_probs=20.7

Q ss_pred             CeEEeccCCCCchhhHHHHHhccC
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .|+++|++|+|||++++.++..-.
T Consensus         2 ~i~~~G~~~~GKStl~~~l~~~~~   25 (159)
T cd00154           2 KIVLIGDSGVGKTSLLLRFVDGKF   25 (159)
T ss_pred             eEEEECCCCCCHHHHHHHHHhCcC
Confidence            489999999999999999886543

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

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=92.40  E-value=0.097  Score=48.05  Aligned_cols=22  Identities=27%  Similarity=0.581  Sum_probs=19.7

Q ss_pred             CeEEeccCCCCchhhHHHHHhc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      -|+++|++|+|||+++++++..
T Consensus         2 ki~v~G~~~~GKTsli~~~~~~   23 (164)
T smart00173        2 KLVVLGSGGVGKSALTIQFVQG   23 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999999864

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

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=92.39  E-value=0.15  Score=49.19  Aligned_cols=34  Identities=18%  Similarity=0.214  Sum_probs=24.6

Q ss_pred             HHHHHHHhcCC-CeEEeccCCCCchhhHHHHHhcc
Q psy12736        184 WILSLMNEIKR-PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       184 ~ll~~ll~~~~-pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..+..++.++. -+++.||+|||||.++..+...+
T Consensus         8 ~a~~~~l~~~~~~~~l~G~aGtGKT~~l~~~~~~~   42 (196)
T PF13604_consen    8 EAVRAILTSGDRVSVLQGPAGTGKTTLLKALAEAL   42 (196)
T ss_dssp             HHHHHHHHCTCSEEEEEESTTSTHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCeEEEEEECCCCCHHHHHHHHHHHH
Confidence            34455555554 56677999999999998876654

>PRK09087 hypothetical protein; Validated

Probab=92.36  E-value=0.36  Score=47.73  Aligned_cols=26  Identities=19%  Similarity=0.217  Sum_probs=21.3

Q ss_pred             ceEEeccCCCcHhHHHHHHHHHcCCe
Q psy12736        449 HCMVVGVEGGGKRSLVRLASFAAGYQ  474 (567)
Q Consensus       449 h~LLvG~~GsGr~sl~rlaa~i~~~~  474 (567)
                      .+.|.|++||||+.|++..+.-.+..
T Consensus        46 ~l~l~G~~GsGKThLl~~~~~~~~~~   71 (226)
T PRK09087         46 VVVLAGPVGSGKTHLASIWREKSDAL   71 (226)
T ss_pred             eEEEECCCCCCHHHHHHHHHHhcCCE
Confidence            48999999999999999877554443

>KOG0729|consensus

Probab=92.36  E-value=0.13  Score=51.30  Aligned_cols=35  Identities=17%  Similarity=0.196  Sum_probs=26.0

Q ss_pred             HHHhcCCCeEEeccCCCCchhhHHHHHhccCCCcce
Q psy12736        188 LMNEIKRPCIVVGDTGTSKTATMMNFLRSLSPDKYL  223 (567)
Q Consensus       188 ~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~~~~~~  223 (567)
                      +=+.--+-|||.||||||||.+.+...++- +..|+
T Consensus       206 lgidppkgvllygppgtgktl~aravanrt-dacfi  240 (435)
T KOG0729|consen  206 LGIDPPKGVLLYGPPGTGKTLCARAVANRT-DACFI  240 (435)
T ss_pred             cCCCCCCceEEeCCCCCchhHHHHHHhccc-CceEE
Confidence            334556789999999999999998776653 33444

>PRK05480 uridine/cytidine kinase; Provisional

Probab=92.35  E-value=0.11  Score=50.44  Aligned_cols=26  Identities=19%  Similarity=0.219  Sum_probs=22.0

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ...-|.++|++|||||++++.+...+
T Consensus         5 ~~~iI~I~G~sGsGKTTl~~~l~~~l   30 (209)
T PRK05480          5 KPIIIGIAGGSGSGKTTVASTIYEEL   30 (209)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            34567899999999999999888776

>cd04163 Era Era subfamily

Probab=92.27  E-value=0.082  Score=47.97  Aligned_cols=23  Identities=13%  Similarity=0.225  Sum_probs=20.1

Q ss_pred             CCeEEeccCCCCchhhHHHHHhc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ..+.++|++|+|||++++.++..
T Consensus         4 ~~i~~~G~~g~GKttl~~~l~~~   26 (168)
T cd04163           4 GFVAIVGRPNVGKSTLLNALVGQ   26 (168)
T ss_pred             eEEEEECCCCCCHHHHHHHHhCC
Confidence            45889999999999999998754

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.

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=92.24  E-value=0.079  Score=47.57  Aligned_cols=22  Identities=18%  Similarity=0.305  Sum_probs=19.5

Q ss_pred             CeEEeccCCCCchhhHHHHHhc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .|.++|++|+|||++++++...
T Consensus         2 kv~liG~~~vGKSsL~~~l~~~   23 (142)
T TIGR02528         2 RIMFIGSVGCGKTTLTQALQGE   23 (142)
T ss_pred             eEEEECCCCCCHHHHHHHHcCC
Confidence            5899999999999999988754

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.

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=92.24  E-value=0.1  Score=48.15  Aligned_cols=21  Identities=33%  Similarity=0.608  Sum_probs=19.0

Q ss_pred             eEEeccCCCCchhhHHHHHhc
Q psy12736        196 CIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~  216 (567)
                      ++++|++|+|||+++.+++..
T Consensus         2 i~vvG~~~~GKtsli~~~~~~   22 (165)
T cd04146           2 IAVLGASGVGKSALVVRFLTK   22 (165)
T ss_pred             EEEECCCCCcHHHHHHHHHhC
Confidence            789999999999999998754

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

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=92.22  E-value=0.087  Score=56.39  Aligned_cols=46  Identities=7%  Similarity=0.241  Sum_probs=31.2

Q ss_pred             ChHHHHHHHH----HHHHHHhhhhcccCcceEEecHHHHHHHHHHHHHHhc
Q psy12736        399 DYSAVGHLFT----EILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRL  445 (567)
Q Consensus       399 d~~~l~~~~~----~~l~~yn~~~~~~~~~~lvlf~dai~hi~ri~RvL~~  445 (567)
                      +.+.+..++.    ..+++|..-. .....+|.+-++|++.|++++--.+.
T Consensus       334 ~~edL~rILteP~nsLikQy~~Lf-~~egv~L~Ftd~Al~~IA~~A~~~N~  383 (441)
T TIGR00390       334 TTDDFERILTEPKNSLIKQYKALM-KTEGVNIEFSDEAIKRIAELAYNVNE  383 (441)
T ss_pred             CHHHHHHHhcCChhHHHHHHHHHH-hhcCcEEEEeHHHHHHHHHHHHHhcc
Confidence            5566666663    4556666432 14568899999999999998755443

This model represents the ATPase subunit of HslVU, while the proteasome-related peptidase subunit is HslV. Residues 54-61 of the model contain a P-loop ATP-binding motif. Cys-287 of E. coli (position 308 in the seed alignment), studied in PubMed:98389714, is Ser in other members of the seed alignment.

>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]

Probab=92.22  E-value=0.066  Score=55.84  Aligned_cols=49  Identities=20%  Similarity=0.380  Sum_probs=31.5

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHHHhccC--CCcceeee-----cCCCCCceEEEEe
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNFLRSLS--PDKYLVIA-----ELPPTPAKFHYIF  239 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~l~~l~--~~~~~~~~-----egPp~gkk~v~iF  239 (567)
                      ++.|.-+.|+||+|||||++++-+ ..+.  +...+.++     +-||..+..-++|
T Consensus        26 i~~Gef~vllGPSGcGKSTlLr~I-AGLe~~~~G~I~i~g~~vt~l~P~~R~iamVF   81 (338)
T COG3839          26 IEDGEFVVLLGPSGCGKSTLLRMI-AGLEEPTSGEILIDGRDVTDLPPEKRGIAMVF   81 (338)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHH-hCCCCCCCceEEECCEECCCCChhHCCEEEEe
Confidence            456788999999999999998654 3332  22233333     2566666555455

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=92.21  E-value=0.1  Score=48.89  Aligned_cols=23  Identities=35%  Similarity=0.537  Sum_probs=20.6

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .++++|++|+|||+++++++.+-
T Consensus         2 ki~ivG~~~vGKTsli~~~~~~~   24 (170)
T cd04108           2 KVIVVGDLSVGKTCLINRFCKDV   24 (170)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47899999999999999999763

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

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=92.20  E-value=0.71  Score=48.26  Aligned_cols=102  Identities=11%  Similarity=0.137  Sum_probs=60.3

Q ss_pred             HHHHHHHHHHHHHHhcCCCceEEeccCCCcHhHHHHHHHHHcC---CeEEEEEecCCCChhhHHHHHHH----HHH----
Q psy12736        430 EDAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVRLASFAAG---YQVFTIQLSRGYNEASFKEDLKS----LYN----  498 (567)
Q Consensus       430 ~dai~hi~ri~RvL~~p~Gh~LLvG~~GsGr~sl~rlaa~i~~---~~~~~i~~~k~y~~~~f~edLk~----~~~----  498 (567)
                      ..++..+.+-.+-+.....++|+.|.+||||..+++..-..+.   ..++.++... +....+..+|-.    .+.    
T Consensus        12 S~~~~~~~~~i~~~a~~~~pVlI~GE~GtGK~~lA~~iH~~s~r~~~pfv~v~c~~-~~~~~~~~~lfg~~~~~~~g~~~   90 (326)
T PRK11608         12 ANSFLEVLEQVSRLAPLDKPVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAA-LNENLLDSELFGHEAGAFTGAQK   90 (326)
T ss_pred             CHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhCCccCCCeEEEeCCC-CCHHHHHHHHccccccccCCccc
Confidence            3455555555555556688999999999999999998766654   4577777664 233333333311    000    


Q ss_pred             -Hhcc--CCCcEEEEEecCcccchhhhHHhh-hccCCc
Q psy12736        499 -LLGV--KNQATVFLFTAAEIVEEGYQVFTI-QLSRGY  532 (567)
Q Consensus       499 -~ag~--~~~~~vfl~~d~qi~~e~fle~in-lL~~Ge  532 (567)
                       ..|.  ....-++++++-+-......+.+- +|.+|.
T Consensus        91 ~~~g~l~~a~gGtL~l~~i~~L~~~~Q~~L~~~l~~~~  128 (326)
T PRK11608         91 RHPGRFERADGGTLFLDELATAPMLVQEKLLRVIEYGE  128 (326)
T ss_pred             ccCCchhccCCCeEEeCChhhCCHHHHHHHHHHHhcCc
Confidence             0110  112335667776666666666665 665554

>cd04110 Rab35 Rab35 subfamily

Probab=92.19  E-value=0.1  Score=50.26  Aligned_cols=23  Identities=22%  Similarity=0.585  Sum_probs=20.6

Q ss_pred             CCeEEeccCCCCchhhHHHHHhc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ..++++|++|+|||+++.+++..
T Consensus         7 ~kivvvG~~~vGKTsli~~l~~~   29 (199)
T cd04110           7 FKLLIIGDSGVGKSSLLLRFADN   29 (199)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            45899999999999999999865

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

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=92.18  E-value=0.1  Score=48.49  Aligned_cols=23  Identities=30%  Similarity=0.420  Sum_probs=20.3

Q ss_pred             CCeEEeccCCCCchhhHHHHHhc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ..++++|++|+|||+++++++..
T Consensus         3 ~ki~vvG~~~vGKTsli~~~~~~   25 (170)
T cd04115           3 FKIIVIGDSNVGKTCLTYRFCAG   25 (170)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            35889999999999999998864

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

>PRK05642 DNA replication initiation factor; Validated

Probab=92.18  E-value=0.16  Score=50.53  Aligned_cols=48  Identities=10%  Similarity=0.111  Sum_probs=0.0

Q ss_pred             ccccccCcchhhHHHHHHHHHhcCC----CeEEeccCCCCchhhHHHHHhcc
Q psy12736        170 GDILVPTTDSTKLTWILSLMNEIKR----PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       170 ~~i~VpT~dtvR~~~ll~~ll~~~~----pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+-+|+.....-..++-+..-..+.    |++|+||+|||||.+++.+.+.+
T Consensus        18 fdnF~~~~~~~a~~~~~~~~~~~~~~~~~~l~l~G~~G~GKTHLl~a~~~~~   69 (234)
T PRK05642         18 FANYYPGANAAALGYVERLCEADAGWTESLIYLWGKDGVGRSHLLQAACLRF   69 (234)
T ss_pred             ccccCcCChHHHHHHHHHHhhccccCCCCeEEEECCCCCCHHHHHHHHHHHH

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=92.18  E-value=0.085  Score=47.13  Aligned_cols=24  Identities=21%  Similarity=0.368  Sum_probs=20.8

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|+++|++|+|||++++.++..-
T Consensus         2 ~ki~~~G~~~~GKstl~~~l~~~~   25 (161)
T TIGR00231         2 IKIVIVGDPNVGKSTLLNRLLGNK   25 (161)
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCC
Confidence            358999999999999999988654

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.

>cd04140 ARHI_like ARHI subfamily

Probab=92.17  E-value=0.11  Score=48.16  Aligned_cols=23  Identities=22%  Similarity=0.540  Sum_probs=20.4

Q ss_pred             CCeEEeccCCCCchhhHHHHHhc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ..|.++|++|+|||+++++++..
T Consensus         2 ~kv~~vG~~~vGKTsli~~~~~~   24 (165)
T cd04140           2 YRVVVFGAGGVGKSSLVLRFVKG   24 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            35899999999999999999865

ARHI (A Ras homolog member I) is a member of the Ras family with several unique structural and functional properties. ARHI is expressed in normal human ovarian and breast tissue, but its expression is decreased or eliminated in breast and ovarian cancer. ARHI contains an N-terminal extension of 34 residues (human) that is required to retain its tumor suppressive activity. Unlike most other Ras family members, ARHI is maintained in the constitutively active (GTP-bound) state in resting cells and has modest GTPase activity. ARHI inhibits STAT3 (signal transducers and activators of transcription 3), a latent transcription factor whose abnormal activation plays a critical role in oncogenesis. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to

>cd01860 Rab5_related Rab5-related subfamily

Probab=92.17  E-value=0.088  Score=48.25  Aligned_cols=22  Identities=18%  Similarity=0.603  Sum_probs=20.0

Q ss_pred             CeEEeccCCCCchhhHHHHHhc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .++++|++|+|||+++++++..
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~   24 (163)
T cd01860           3 KLVLLGDSSVGKSSLVLRFVKN   24 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5789999999999999999875

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

>PRK13947 shikimate kinase; Provisional

Probab=92.16  E-value=0.093  Score=49.00  Aligned_cols=23  Identities=26%  Similarity=0.333  Sum_probs=20.5

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +++++|++|||||++.+.+-+.+
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~l   25 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTL   25 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHh
Confidence            69999999999999998877765

>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional

Probab=92.16  E-value=0.14  Score=57.09  Aligned_cols=48  Identities=21%  Similarity=0.350  Sum_probs=37.0

Q ss_pred             CccccccCcchhhHHHHHHHHHhcCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        169 FGDILVPTTDSTKLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       169 ~~~i~VpT~dtvR~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      |.+++--.....+....+..+-..+.|||+.|++||||+.+++.+-..
T Consensus       218 f~~iiG~S~~m~~~~~~i~~~A~s~~pVLI~GE~GTGKe~~A~~IH~~  265 (538)
T PRK15424        218 LGDLLGQSPQMEQVRQTILLYARSSAAVLIQGETGTGKELAAQAIHRE  265 (538)
T ss_pred             hhheeeCCHHHHHHHHHHHHHhCCCCcEEEECCCCCCHHHHHHHHHHh
Confidence            445555455556667777778889999999999999999999886543

>PLN02772 guanylate kinase

Probab=92.15  E-value=0.092  Score=55.74  Aligned_cols=28  Identities=14%  Similarity=0.477  Sum_probs=24.5

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhccCC
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      .+++++++||+|+||+++++.++...+.
T Consensus       134 ~~k~iVlsGPSGvGKsTL~~~L~~~~p~  161 (398)
T PLN02772        134 AEKPIVISGPSGVGKGTLISMLMKEFPS  161 (398)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhhhccc
Confidence            4679999999999999999999887653

>cd00157 Rho Rho (Ras homology) family

Probab=92.15  E-value=0.11  Score=47.94  Aligned_cols=23  Identities=26%  Similarity=0.469  Sum_probs=20.5

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .++++|++|+|||+++++++..-
T Consensus         2 ki~i~G~~~~GKSsli~~l~~~~   24 (171)
T cd00157           2 KIVVVGDGAVGKTCLLISYTTGK   24 (171)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            47899999999999999998764

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

>COG4525 TauB ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=92.14  E-value=0.075  Score=50.82  Aligned_cols=49  Identities=18%  Similarity=0.249  Sum_probs=32.8

Q ss_pred             HHhcCCCeEEeccCCCCchhhHHHHHhccCCC-cceeee----cCCCCCceEEEEe
Q psy12736        189 MNEIKRPCIVVGDTGTSKTATMMNFLRSLSPD-KYLVIA----ELPPTPAKFHYIF  239 (567)
Q Consensus       189 ll~~~~pvLl~GptGtGKT~~i~~~l~~l~~~-~~~~~~----egPp~gkk~v~iF  239 (567)
                      -+..+.-|.+.||+|||||++.+-.---..+. .-+.++    || |++.+-+ +|
T Consensus        27 ~ia~ge~vv~lGpSGcGKTTLLnl~AGf~~P~~G~i~l~~r~i~g-Pgaergv-VF   80 (259)
T COG4525          27 TIASGELVVVLGPSGCGKTTLLNLIAGFVTPSRGSIQLNGRRIEG-PGAERGV-VF   80 (259)
T ss_pred             eecCCCEEEEEcCCCccHHHHHHHHhcCcCcccceEEECCEeccC-CCcccee-Ee
Confidence            35678999999999999999886543322222 234444    35 4666777 77

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=92.14  E-value=1  Score=50.22  Aligned_cols=105  Identities=12%  Similarity=0.152  Sum_probs=59.1

Q ss_pred             CCce-EEeccCCCcHhHHHHHHHH-Hc-----------------------CCeEEEEEecCCCChhhHHHHHHHHHHH--
Q psy12736        447 RGHC-MVVGVEGGGKRSLVRLASF-AA-----------------------GYQVFTIQLSRGYNEASFKEDLKSLYNL--  499 (567)
Q Consensus       447 ~Gh~-LLvG~~GsGr~sl~rlaa~-i~-----------------------~~~~~~i~~~k~y~~~~f~edLk~~~~~--  499 (567)
                      -.|+ |+.|+.|+||+++++.-|. +.                       +..++++.-..+-+..    +++.+...  
T Consensus        35 l~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~~C~~~~~~~h~dv~eldaas~~gId----~IRelie~~~  110 (535)
T PRK08451         35 LAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCIQCQSALENRHIDIIEMDAASNRGID----DIRELIEQTK  110 (535)
T ss_pred             CCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhhcCCCeEEEeccccccCHH----HHHHHHHHHh
Confidence            4577 8999999999999985543 32                       1245555443333454    44444443  


Q ss_pred             -hccCCCcEEEEEecCcccchhhhHHhh-hccCCc-----cccCcchhHHHHHHHhhccccceeeee
Q psy12736        500 -LGVKNQATVFLFTAAEIVEEGYQVFTI-QLSRGY-----NEASFKEDLKSLYNLLGVKNQATVFLF  559 (567)
Q Consensus       500 -ag~~~~~~vfl~~d~qi~~e~fle~in-lL~~Ge-----vp~Lf~~eE~~~i~~~~~~~~~~~~~~  559 (567)
                       ....+..-|+++.+.+-....   ..| ||.+=|     +.=+|...+..+|. .+++..+..+-+
T Consensus       111 ~~P~~~~~KVvIIDEad~Lt~~---A~NALLK~LEEpp~~t~FIL~ttd~~kL~-~tI~SRc~~~~F  173 (535)
T PRK08451        111 YKPSMARFKIFIIDEVHMLTKE---AFNALLKTLEEPPSYVKFILATTDPLKLP-ATILSRTQHFRF  173 (535)
T ss_pred             hCcccCCeEEEEEECcccCCHH---HHHHHHHHHhhcCCceEEEEEECChhhCc-hHHHhhceeEEc
Confidence             223355667788887666553   233 333222     22244445556665 666666655544

>cd04136 Rap_like Rap-like subfamily

Probab=92.13  E-value=0.1  Score=47.65  Aligned_cols=23  Identities=26%  Similarity=0.538  Sum_probs=20.3

Q ss_pred             CCeEEeccCCCCchhhHHHHHhc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ..++++|++|+|||+++++++..
T Consensus         2 ~ki~i~G~~~vGKTsl~~~~~~~   24 (163)
T cd04136           2 YKVVVLGSGGVGKSALTVQFVQG   24 (163)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            35899999999999999998864

The Rap subfamily consists of the Rap1, Rap2, and RSR1. Rap subfamily proteins perform different cellular functions, depending on the isoform and its subcellular localization. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and microsomal membrane of the pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. Rap1 localizes in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres.

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

Probab=92.13  E-value=0.1  Score=48.57  Aligned_cols=22  Identities=27%  Similarity=0.514  Sum_probs=19.3

Q ss_pred             eEEeccCCCCchhhHHHHHhcc
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ++++|++|+|||+++++++.+-
T Consensus         1 i~i~G~~~vGKTsli~~~~~~~   22 (174)
T smart00174        1 LVVVGDGAVGKTCLLISYTTNA   22 (174)
T ss_pred             CEEECCCCCCHHHHHHHHHhCC
Confidence            5799999999999999988753

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

>PRK00625 shikimate kinase; Provisional

Probab=92.13  E-value=0.095  Score=49.61  Aligned_cols=25  Identities=20%  Similarity=0.110  Sum_probs=0.0

Q ss_pred             CCeEEeccCCCCchhhHHHHHhccC
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .+++|+|.+|||||++.+.+-+.+.
T Consensus         1 ~~I~LiG~pGsGKTT~~k~La~~l~   25 (173)
T PRK00625          1 MQIFLCGLPTVGKTSFGKALAKFLS   25 (173)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhC

>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=92.13  E-value=0.082  Score=51.64  Aligned_cols=22  Identities=23%  Similarity=0.400  Sum_probs=20.1

Q ss_pred             CeEEeccCCCCchhhHHHHHhc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .++|+|+||+|||++++.+|.+
T Consensus         2 ~IlllG~tGsGKSs~~N~ilg~   23 (212)
T PF04548_consen    2 RILLLGKTGSGKSSLGNSILGK   23 (212)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            5899999999999999999865

The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 (avrRpt2-induced gene) exhibits RPS2- and avrRpt2-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2 []. The domain is also apparently found in a number of mammalian proteins, for example the rat immune-associated nucleotide 4 protein. ; GO: 0005525 GTP binding; PDB: 3LXX_A 3BB4_A 3DEF_A 3BB3_A 2J3E_A 3V70_B 3BB1_A 1H65_B 2XTP_A 3P1J_C ....

>cd04134 Rho3 Rho3 subfamily

Probab=92.12  E-value=0.1  Score=49.72  Aligned_cols=24  Identities=33%  Similarity=0.524  Sum_probs=20.8

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +.|+++|++|+|||+++++++..-
T Consensus         1 ~kivivG~~~vGKTsli~~~~~~~   24 (189)
T cd04134           1 RKVVVLGDGACGKTSLLNVFTRGY   24 (189)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            358999999999999999998753

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.

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=92.12  E-value=0.52  Score=49.30  Aligned_cols=107  Identities=18%  Similarity=0.102  Sum_probs=65.6

Q ss_pred             Cce-EEeccCCCcHhHHHHHHHHHcCC------------------------eEEEEEec---CCCChhhHHHHHHHHHHH
Q psy12736        448 GHC-MVVGVEGGGKRSLVRLASFAAGY------------------------QVFTIQLS---RGYNEASFKEDLKSLYNL  499 (567)
Q Consensus       448 Gh~-LLvG~~GsGr~sl~rlaa~i~~~------------------------~~~~i~~~---k~y~~~~f~edLk~~~~~  499 (567)
                      .|+ |+.|+.|+||+++++--|....|                        +++.++..   +..+..+.|+ +.+-+..
T Consensus        22 ~ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~~~~~~~~i~id~iR~-l~~~~~~  100 (328)
T PRK05707         22 PHAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPDNFVLEPEEADKTIKVDQVRE-LVSFVVQ  100 (328)
T ss_pred             ceeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccCCCCCCCHHHHHH-HHHHHhh
Confidence            565 68999999999998755443322                        45555442   4577777776 3333433


Q ss_pred             hccCCCcEEEEEecCcccchhhhHHhh-hccCCc-----cccCcchhHHHHHHHhhccccceeeee
Q psy12736        500 LGVKNQATVFLFTAAEIVEEGYQVFTI-QLSRGY-----NEASFKEDLKSLYNLLGVKNQATVFLF  559 (567)
Q Consensus       500 ag~~~~~~vfl~~d~qi~~e~fle~in-lL~~Ge-----vp~Lf~~eE~~~i~~~~~~~~~~~~~~  559 (567)
                      ....+..-|+++.+.+-.++   +-.| ||.+=|     +.=++..+..+.|. ..++..+..+-+
T Consensus       101 ~~~~~~~kv~iI~~a~~m~~---~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll-~TI~SRc~~~~~  162 (328)
T PRK05707        101 TAQLGGRKVVLIEPAEAMNR---NAANALLKSLEEPSGDTVLLLISHQPSRLL-PTIKSRCQQQAC  162 (328)
T ss_pred             ccccCCCeEEEECChhhCCH---HHHHHHHHHHhCCCCCeEEEEEECChhhCc-HHHHhhceeeeC
Confidence            44455555566777665554   5667 765433     22356666777775 777776666655

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=92.12  E-value=0.12  Score=49.57  Aligned_cols=22  Identities=23%  Similarity=0.413  Sum_probs=19.1

Q ss_pred             eEEeccCCCCchhhHHHHHhcc
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +.++||+|||||++++.+...+
T Consensus         2 igi~G~~GsGKSTl~~~l~~~l   23 (198)
T cd02023           2 IGIAGGSGSGKTTVAEEIIEQL   23 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5789999999999998877665

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.

>cd03258 ABC_MetN_methionine_transporter MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport

Probab=92.12  E-value=0.09  Score=51.89  Aligned_cols=28  Identities=11%  Similarity=0.042  Sum_probs=23.5

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +..|..+.|+||+|+|||++++-+..-+
T Consensus        28 i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   55 (233)
T cd03258          28 VPKGEIFGIIGRSGAGKSTLIRCINGLE   55 (233)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3468999999999999999998776544

Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=92.10  E-value=0.092  Score=48.00  Aligned_cols=22  Identities=9%  Similarity=0.292  Sum_probs=19.6

Q ss_pred             CeEEeccCCCCchhhHHHHHhc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .++++|++|+|||++++.+...
T Consensus         1 ~i~i~G~~~~GKTsl~~~~~~~   22 (160)
T cd04156           1 QVLLLGLDSAGKSTLLYKLKHA   22 (160)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcC
Confidence            4789999999999999998764

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

>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP

Probab=92.10  E-value=0.16  Score=49.23  Aligned_cols=36  Identities=25%  Similarity=0.375  Sum_probs=27.3

Q ss_pred             HHHHHHHHhc-CCCceEEeccCCCcHhHHHHHHHHHc
Q psy12736        436 LTRIHRALRL-SRGHCMVVGVEGGGKRSLVRLASFAA  471 (567)
Q Consensus       436 i~ri~RvL~~-p~Gh~LLvG~~GsGr~sl~rlaa~i~  471 (567)
                      +.+|.+.+.. +.++++|.|+.|+||+||.+-+....
T Consensus         8 l~~l~~~l~~~~~~~~~l~G~rg~GKTsLl~~~~~~~   44 (234)
T PF01637_consen    8 LEKLKELLESGPSQHILLYGPRGSGKTSLLKEFINEL   44 (234)
T ss_dssp             HHHHHHCHHH--SSEEEEEESTTSSHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhhcCcEEEEEcCCcCCHHHHHHHHHHHh
Confidence            4455566665 47788999999999999998666655

; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.

>PLN02199 shikimate kinase

Probab=92.10  E-value=0.64  Score=47.64  Aligned_cols=66  Identities=23%  Similarity=0.323  Sum_probs=49.3

Q ss_pred             HHHHHHHHhc--CCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEE--------------ecCCCChhhHHHHHHHHHHH
Q psy12736        436 LTRIHRALRL--SRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQ--------------LSRGYNEASFKEDLKSLYNL  499 (567)
Q Consensus       436 i~ri~RvL~~--p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~--------------~~k~y~~~~f~edLk~~~~~  499 (567)
                      +.+.++-+..  ++-+++|+|..||||+++.+..|-..++.++...              +-+.+|...|++--..++.+
T Consensus        89 Lk~~a~~i~~~l~~~~I~LIG~~GSGKSTVgr~LA~~Lg~~fIDtD~lIe~~~~G~sI~eIf~~~GE~~FR~~E~e~L~~  168 (303)
T PLN02199         89 LKRKAEEVKPYLNGRSMYLVGMMGSGKTTVGKLMSKVLGYTFFDCDTLIEQAMNGTSVAEIFVHHGENFFRGKETDALKK  168 (303)
T ss_pred             HHHHHHHHHHHcCCCEEEEECCCCCCHHHHHHHHHHHhCCCEEehHHHHHHHhcCCCHHHHHHHhCHHHHHHHHHHHHHH
Confidence            5555555544  3558899999999999999999998899888653              11247778888777777777


Q ss_pred             hc
Q psy12736        500 LG  501 (567)
Q Consensus       500 ag  501 (567)
                      ..
T Consensus       169 L~  170 (303)
T PLN02199        169 LS  170 (303)
T ss_pred             HH
Confidence            63

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=92.08  E-value=0.1  Score=49.64  Aligned_cols=23  Identities=17%  Similarity=0.430  Sum_probs=20.5

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+++.||||+|||+..+.+-+.+
T Consensus         2 riiilG~pGaGK~T~A~~La~~~   24 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKL   24 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999888764

>CHL00176 ftsH cell division protein; Validated

Probab=92.08  E-value=0.1  Score=59.31  Aligned_cols=25  Identities=24%  Similarity=0.303  Sum_probs=21.8

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+++||+||||||||++++.+....
T Consensus       216 p~gVLL~GPpGTGKT~LAralA~e~  240 (638)
T CHL00176        216 PKGVLLVGPPGTGKTLLAKAIAGEA  240 (638)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHh
Confidence            4589999999999999999887654

>PF13245 AAA_19: Part of AAA domain

Probab=92.07  E-value=0.28  Score=39.71  Aligned_cols=30  Identities=30%  Similarity=0.292  Sum_probs=22.0

Q ss_pred             HHHhcCCCceEEeccCCCcHh-HHHHHHHHHc
Q psy12736        441 RALRLSRGHCMVVGVEGGGKR-SLVRLASFAA  471 (567)
Q Consensus       441 RvL~~p~Gh~LLvG~~GsGr~-sl~rlaa~i~  471 (567)
                      +.++ +.+-+++.|++||||+ +++++++...
T Consensus         5 ~al~-~~~~~vv~g~pGtGKT~~~~~~i~~l~   35 (76)
T PF13245_consen    5 RALA-GSPLFVVQGPPGTGKTTTLAARIAELL   35 (76)
T ss_pred             HHHh-hCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            3555 4555677999999999 6677776655

>cd04159 Arl10_like Arl10-like subfamily

Probab=92.07  E-value=0.1  Score=47.03  Aligned_cols=21  Identities=19%  Similarity=0.158  Sum_probs=18.7

Q ss_pred             eEEeccCCCCchhhHHHHHhc
Q psy12736        196 CIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~  216 (567)
                      |.++|++|+|||++++.+...
T Consensus         2 i~i~G~~~~GKssl~~~l~~~   22 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVIAGG   22 (159)
T ss_pred             EEEEcCCCCCHHHHHHHHccC
Confidence            689999999999999988764

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.

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=92.06  E-value=0.62  Score=50.79  Aligned_cols=103  Identities=14%  Similarity=0.094  Sum_probs=60.2

Q ss_pred             HHHhcCC--CceEEeccCCCcHhHHHHHHHHH-c----CCeEEEEEecCCCChhhHHHHHHHHHHHhc-------cCCCc
Q psy12736        441 RALRLSR--GHCMVVGVEGGGKRSLVRLASFA-A----GYQVFTIQLSRGYNEASFKEDLKSLYNLLG-------VKNQA  506 (567)
Q Consensus       441 RvL~~p~--Gh~LLvG~~GsGr~sl~rlaa~i-~----~~~~~~i~~~k~y~~~~f~edLk~~~~~ag-------~~~~~  506 (567)
                      ++...|+  -+++|.|++|+||+.|++..+.- .    +..+.-++      ..+|..++...+....       ..+++
T Consensus       122 ~~~~~~~~~n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~------~~~f~~~~~~~~~~~~~~~f~~~~~~~~  195 (440)
T PRK14088        122 EVAKNPGRYNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYIT------SEKFLNDLVDSMKEGKLNEFREKYRKKV  195 (440)
T ss_pred             HHHhCcCCCCeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEE------HHHHHHHHHHHHhcccHHHHHHHHHhcC
Confidence            3444554  25899999999999999876653 2    34555443      3345555444332111       01245


Q ss_pred             EEEEEecCccc------chhhhHHhh-hccCCccccCcc----hhHHHHHHHhhcc
Q psy12736        507 TVFLFTAAEIV------EEGYQVFTI-QLSRGYNEASFK----EDLKSLYNLLGVK  551 (567)
Q Consensus       507 ~vfl~~d~qi~------~e~fle~in-lL~~Gevp~Lf~----~eE~~~i~~~~~~  551 (567)
                      -+++++|-|..      .+.+++.+| +...|- +-+++    ++++..+. ..++
T Consensus       196 dvLlIDDi~~l~~~~~~q~elf~~~n~l~~~~k-~iIitsd~~p~~l~~l~-~rL~  249 (440)
T PRK14088        196 DVLLIDDVQFLIGKTGVQTELFHTFNELHDSGK-QIVICSDREPQKLSEFQ-DRLV  249 (440)
T ss_pred             CEEEEechhhhcCcHHHHHHHHHHHHHHHHcCC-eEEEECCCCHHHHHHHH-HHHh
Confidence            67888888743      246778888 777664 33333    34665554 4444

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=92.03  E-value=0.074  Score=52.35  Aligned_cols=28  Identities=25%  Similarity=0.377  Sum_probs=22.2

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ++.|.-|-++||+|||||++++ ++..+.
T Consensus        28 i~~Ge~vaI~GpSGSGKSTLLn-iig~ld   55 (226)
T COG1136          28 IEAGEFVAIVGPSGSGKSTLLN-LLGGLD   55 (226)
T ss_pred             EcCCCEEEEECCCCCCHHHHHH-HHhccc
Confidence            4578889999999999999885 444443

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=92.02  E-value=0.11  Score=48.07  Aligned_cols=23  Identities=22%  Similarity=0.548  Sum_probs=20.5

Q ss_pred             CCeEEeccCCCCchhhHHHHHhc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ..++++|++|+|||++++++...
T Consensus         4 ~ki~vvG~~~~GKSsl~~~~~~~   26 (167)
T cd01867           4 FKLLLIGDSGVGKSCLLLRFSED   26 (167)
T ss_pred             eEEEEECCCCCCHHHHHHHHhhC
Confidence            46899999999999999998865

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

>cd04113 Rab4 Rab4 subfamily

Probab=92.01  E-value=0.096  Score=48.00  Aligned_cols=22  Identities=27%  Similarity=0.647  Sum_probs=20.0

Q ss_pred             CeEEeccCCCCchhhHHHHHhc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .++++|++|+|||++++.++..
T Consensus         2 ki~v~G~~~vGKTsli~~l~~~   23 (161)
T cd04113           2 KFIIIGSSGTGKSCLLHRFVEN   23 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999999865

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

>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]

Probab=91.98  E-value=0.51  Score=53.29  Aligned_cols=64  Identities=30%  Similarity=0.345  Sum_probs=46.4

Q ss_pred             CCCce-EEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCChhhHH-----------HHHHHHHHHhccCCCcEEEE
Q psy12736        446 SRGHC-MVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFK-----------EDLKSLYNLLGVKNQATVFL  510 (567)
Q Consensus       446 p~Gh~-LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~~~~f~-----------edLk~~~~~ag~~~~~~vfl  510 (567)
                      -.|.+ .|||++|.||+||.+=.|-..|-+++.+.+.--=+.+|-|           --+-+.|++||.+| |+.+|
T Consensus       348 ~kGpILcLVGPPGVGKTSLgkSIA~al~RkfvR~sLGGvrDEAEIRGHRRTYIGamPGrIiQ~mkka~~~N-Pv~LL  423 (782)
T COG0466         348 LKGPILCLVGPPGVGKTSLGKSIAKALGRKFVRISLGGVRDEAEIRGHRRTYIGAMPGKIIQGMKKAGVKN-PVFLL  423 (782)
T ss_pred             CCCcEEEEECCCCCCchhHHHHHHHHhCCCEEEEecCccccHHHhccccccccccCChHHHHHHHHhCCcC-CeEEe
Confidence            35666 6999999999999999999999999999876322333222           11346788999765 55443

>KOG1970|consensus

Probab=91.95  E-value=0.12  Score=56.26  Aligned_cols=32  Identities=19%  Similarity=0.260  Sum_probs=0.0

Q ss_pred             HHHHHh---------cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        186 LSLMNE---------IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       186 l~~ll~---------~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ++.|++         .++=+||+||+|||||++|+-+-+.+
T Consensus        94 Vk~WL~~~~~~~~~l~~~iLLltGPsGcGKSTtvkvLskel  134 (634)
T KOG1970|consen   94 VKQWLKQVAEFTPKLGSRILLLTGPSGCGKSTTVKVLSKEL  134 (634)
T ss_pred             HHHHHHHHHHhccCCCceEEEEeCCCCCCchhHHHHHHHhh

>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A

Probab=91.95  E-value=0.29  Score=45.81  Aligned_cols=35  Identities=31%  Similarity=0.418  Sum_probs=20.7

Q ss_pred             CceEEeccCCCcHhHHHH-HHHHHcCC--eEEEEEecC
Q psy12736        448 GHCMVVGVEGGGKRSLVR-LASFAAGY--QVFTIQLSR  482 (567)
Q Consensus       448 Gh~LLvG~~GsGr~sl~r-laa~i~~~--~~~~i~~~k  482 (567)
                      -+++++|.+|+||+++.+ ++..+...  -+..++...
T Consensus        25 ~~~ll~G~~G~GKT~ll~~~~~~~~~~~~~~~~~~~~~   62 (185)
T PF13191_consen   25 RNLLLTGESGSGKTSLLRALLDRLAERGGYVISINCDD   62 (185)
T ss_dssp             --EEE-B-TTSSHHHHHHHHHHHHHHHT--EEEEEEET
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHhcCCEEEEEEEec
Confidence            457999999999999988 55544432  155555443

>TIGR00376 DNA helicase, putative

Probab=91.94  E-value=0.11  Score=59.26  Aligned_cols=32  Identities=31%  Similarity=0.485  Sum_probs=26.0

Q ss_pred             HHHHHhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        186 LSLMNEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       186 l~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +...+.+...+++.||||||||+++..++..+
T Consensus       166 v~~~l~~~~~~lI~GpPGTGKT~t~~~ii~~~  197 (637)
T TIGR00376       166 VSFALSSKDLFLIHGPPGTGKTRTLVELIRQL  197 (637)
T ss_pred             HHHHhcCCCeEEEEcCCCCCHHHHHHHHHHHH
Confidence            34456666789999999999999999887664

The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.

>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR

Probab=91.94  E-value=0.14  Score=56.94  Aligned_cols=59  Identities=14%  Similarity=0.258  Sum_probs=41.5

Q ss_pred             CCccccccCcchhhHHHHHHHHHhcCCCeEEeccCCCCchhhHHHHHhcc--CCCcceeee
Q psy12736        168 SFGDILVPTTDSTKLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSL--SPDKYLVIA  226 (567)
Q Consensus       168 ~~~~i~VpT~dtvR~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l--~~~~~~~~~  226 (567)
                      .|.+++--.....+....++.+-....|||+.|++||||+++++.+-...  .+.-|+.+|
T Consensus       210 ~f~~iiG~S~~m~~~~~~i~~~A~~~~pVLI~GE~GTGKe~lA~~IH~~S~r~~~pfv~in  270 (526)
T TIGR02329       210 RLDDLLGASAPMEQVRALVRLYARSDATVLILGESGTGKELVAQAIHQLSGRRDFPFVAIN  270 (526)
T ss_pred             chhheeeCCHHHHHHHHHHHHHhCCCCcEEEECCCCcCHHHHHHHHHHhcCcCCCCEEEec
Confidence            34445544555556677777788899999999999999999998865432  233455554

At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.

>KOG0739|consensus

Probab=91.93  E-value=0.34  Score=49.25  Aligned_cols=66  Identities=17%  Similarity=0.294  Sum_probs=49.3

Q ss_pred             cCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCChhhHH----HHHHHHHHHhccCCCcEEEEEec
Q psy12736        445 LSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFK----EDLKSLYNLLGVKNQATVFLFTA  513 (567)
Q Consensus       445 ~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~~~~f~----edLk~~~~~ag~~~~~~vfl~~d  513 (567)
                      .|-.-+||-|++|+||.=|++-+|--++..+|++.-+.  =++-|.    .-+|+++..| .+++|..+.+++
T Consensus       164 ~PwrgiLLyGPPGTGKSYLAKAVATEAnSTFFSvSSSD--LvSKWmGESEkLVknLFemA-Re~kPSIIFiDE  233 (439)
T KOG0739|consen  164 KPWRGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSD--LVSKWMGESEKLVKNLFEMA-RENKPSIIFIDE  233 (439)
T ss_pred             CcceeEEEeCCCCCcHHHHHHHHHhhcCCceEEeehHH--HHHHHhccHHHHHHHHHHHH-HhcCCcEEEeeh
Confidence            34456899999999999999999999999999986432  123343    3356666666 588998887765

>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed

Probab=91.93  E-value=0.45  Score=49.36  Aligned_cols=48  Identities=23%  Similarity=0.342  Sum_probs=40.2

Q ss_pred             HHHHHHHHHHHHHHhcCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEE
Q psy12736        430 EDAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTI  478 (567)
Q Consensus       430 ~dai~hi~ri~RvL~~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i  478 (567)
                      .++++++.+-.|-+++ ..++.|+|.+||||+++.+..|-..|+.++.+
T Consensus       117 ~~~l~~~~~~~~~~~~-~~~I~l~G~~GsGKStvg~~La~~Lg~~~id~  164 (309)
T PRK08154        117 RDALSGMLGAGRRAAR-RRRIALIGLRGAGKSTLGRMLAARLGVPFVEL  164 (309)
T ss_pred             HHHHHHHHhhhhhccC-CCEEEEECCCCCCHHHHHHHHHHHcCCCEEeH
Confidence            3667777777777754 56899999999999999999998889988865

>cd04124 RabL2 RabL2 subfamily

Probab=91.92  E-value=0.1  Score=48.13  Aligned_cols=22  Identities=27%  Similarity=0.490  Sum_probs=19.8

Q ss_pred             CeEEeccCCCCchhhHHHHHhc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .++++|++|+|||+++++++..
T Consensus         2 ki~vvG~~~vGKTsli~~~~~~   23 (161)
T cd04124           2 KIILLGDSAVGKSKLVERFLMD   23 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999998865

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

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=91.90  E-value=0.13  Score=56.88  Aligned_cols=25  Identities=16%  Similarity=0.268  Sum_probs=21.8

Q ss_pred             CCeEEeccCCCCchhhHHHHHhccC
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ++.||+||+|||||++++-+.+.+.
T Consensus        44 ~a~Lf~Gp~G~GKTT~ArilAk~Ln   68 (507)
T PRK06645         44 GGYLLTGIRGVGKTTSARIIAKAVN   68 (507)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhc
Confidence            4799999999999999998877653

>cd01861 Rab6 Rab6 subfamily

Probab=91.89  E-value=0.097  Score=47.84  Aligned_cols=22  Identities=23%  Similarity=0.484  Sum_probs=19.9

Q ss_pred             CeEEeccCCCCchhhHHHHHhc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .++++|++|+|||++++.++..
T Consensus         2 ki~liG~~~~GKSsli~~l~~~   23 (161)
T cd01861           2 KLVFLGDQSVGKTSIITRFMYD   23 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5899999999999999998864

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

>PRK13531 regulatory ATPase RavA; Provisional

Probab=91.89  E-value=0.22  Score=54.47  Aligned_cols=29  Identities=28%  Similarity=0.310  Sum_probs=24.8

Q ss_pred             HhcCCCceEEeccCCCcHhHHHHHHHHHc
Q psy12736        443 LRLSRGHCMVVGVEGGGKRSLVRLASFAA  471 (567)
Q Consensus       443 L~~p~Gh~LLvG~~GsGr~sl~rlaa~i~  471 (567)
                      ....+||+||.|++|+||+.++|..+...
T Consensus        35 aalag~hVLL~GpPGTGKT~LAraLa~~~   63 (498)
T PRK13531         35 AALSGESVFLLGPPGIAKSLIARRLKFAF   63 (498)
T ss_pred             HHccCCCEEEECCCChhHHHHHHHHHHHh
Confidence            34679999999999999999998777654

>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=91.88  E-value=0.098  Score=51.04  Aligned_cols=27  Identities=19%  Similarity=0.137  Sum_probs=23.0

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|..+.++||+|+|||++++-+..-+
T Consensus        28 ~~G~~~~l~G~nGsGKSTLl~~i~Gl~   54 (218)
T cd03255          28 EKGEFVAIVGPSGSGKSTLLNILGGLD   54 (218)
T ss_pred             cCCCEEEEEcCCCCCHHHHHHHHhCCc
Confidence            468899999999999999998776544

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.

>cd01864 Rab19 Rab19 subfamily

Probab=91.86  E-value=0.12  Score=47.68  Aligned_cols=23  Identities=26%  Similarity=0.433  Sum_probs=20.4

Q ss_pred             CCeEEeccCCCCchhhHHHHHhc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ..++++|++|+|||+++.+++..
T Consensus         4 ~kv~vvG~~~~GKTsli~~l~~~   26 (165)
T cd01864           4 FKIILIGDSNVGKTCVVQRFKSG   26 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhhC
Confidence            56899999999999999998764

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.

>PRK12608 transcription termination factor Rho; Provisional

Probab=91.84  E-value=0.094  Score=55.40  Aligned_cols=35  Identities=11%  Similarity=0.240  Sum_probs=29.7

Q ss_pred             HHHHHH--hcCCCeEEeccCCCCchhhHHHHHhccCC
Q psy12736        185 ILSLMN--EIKRPCIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       185 ll~~ll--~~~~pvLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      +++.++  ..|+..+++||+|||||++++.+++.+..
T Consensus       123 vID~l~PiGkGQR~LIvG~pGtGKTTLl~~la~~i~~  159 (380)
T PRK12608        123 VVDLVAPIGKGQRGLIVAPPRAGKTVLLQQIAAAVAA  159 (380)
T ss_pred             hhhheeecCCCceEEEECCCCCCHHHHHHHHHHHHHh
Confidence            666665  57899999999999999999998887643

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=91.83  E-value=0.12  Score=50.32  Aligned_cols=26  Identities=31%  Similarity=0.327  Sum_probs=21.5

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ...+.++|++|+|||+++++++....
T Consensus         9 ~~kv~liG~~g~GKTtLi~~~~~~~~   34 (215)
T PTZ00132          9 EFKLILVGDGGVGKTTFVKRHLTGEF   34 (215)
T ss_pred             CceEEEECCCCCCHHHHHHHHHhCCC
Confidence            35689999999999999988776543

>PRK06547 hypothetical protein; Provisional

Probab=91.83  E-value=0.11  Score=49.12  Aligned_cols=23  Identities=17%  Similarity=0.276  Sum_probs=0.0

Q ss_pred             eEEeccCCCCchhhHHHHHhccC
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      |++.|++|||||++.+.+...+.
T Consensus        18 i~i~G~~GsGKTt~a~~l~~~~~   40 (172)
T PRK06547         18 VLIDGRSGSGKTTLAGALAARTG   40 (172)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC

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

Probab=91.80  E-value=0.099  Score=47.19  Aligned_cols=24  Identities=13%  Similarity=0.250  Sum_probs=20.5

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      |..+.++|++|+|||++++.++..
T Consensus         1 ~~~i~l~G~~~~GKstli~~l~~~   24 (157)
T cd04164           1 GIKVVIVGKPNVGKSSLLNALAGR   24 (157)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHCC
Confidence            346899999999999999988754

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.

>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=91.78  E-value=0.1  Score=50.63  Aligned_cols=27  Identities=15%  Similarity=0.244  Sum_probs=22.9

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|..+.++||+|+|||++++-+..-+
T Consensus        25 ~~G~~~~i~G~nGsGKSTLl~~l~G~~   51 (214)
T cd03292          25 SAGEFVFLVGPSGAGKSTLLKLIYKEE   51 (214)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            468899999999999999998776544

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=91.73  E-value=0.15  Score=48.57  Aligned_cols=36  Identities=11%  Similarity=0.225  Sum_probs=0.0

Q ss_pred             HHHHHHHHHhcCCC--eEEeccCCCCchhhHHHHHhcc
Q psy12736        182 LTWILSLMNEIKRP--CIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       182 ~~~ll~~ll~~~~p--vLl~GptGtGKT~~i~~~l~~l  217 (567)
                      |..+.+.+-+++.|  .|+.||+|+|||+++..+.+.+
T Consensus         1 ~~~l~~~i~~~~~~~~~L~~G~~G~gkt~~a~~~~~~l   38 (188)
T TIGR00678         1 YQQLKRALEKGRLAHAYLFAGPEGVGKELLALALAKAL   38 (188)
T ss_pred             ChHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHH

At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau.

>PRK13949 shikimate kinase; Provisional

Probab=91.71  E-value=0.12  Score=48.72  Aligned_cols=24  Identities=29%  Similarity=0.333  Sum_probs=20.1

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ++++|+|++|+|||++.+.+-..+
T Consensus         2 ~~I~liG~~GsGKstl~~~La~~l   25 (169)
T PRK13949          2 ARIFLVGYMGAGKTTLGKALAREL   25 (169)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            468999999999999998766554

>PRK10787 DNA-binding ATP-dependent protease La; Provisional

Probab=91.70  E-value=0.68  Score=54.10  Aligned_cols=68  Identities=29%  Similarity=0.390  Sum_probs=45.2

Q ss_pred             CCCc-eEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCChhhHH-----------HHHHHHHHHhccCCCcEEEEEec
Q psy12736        446 SRGH-CMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFK-----------EDLKSLYNLLGVKNQATVFLFTA  513 (567)
Q Consensus       446 p~Gh-~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~~~~f~-----------edLk~~~~~ag~~~~~~vfl~~d  513 (567)
                      +.|. ++|+|++|+||+++++..|...+.+++.+..+..-+..+.+           ..+...+.++|..+ | |+++++
T Consensus       347 ~~g~~i~l~GppG~GKTtl~~~ia~~l~~~~~~i~~~~~~d~~~i~g~~~~~~g~~~G~~~~~l~~~~~~~-~-villDE  424 (784)
T PRK10787        347 IKGPILCLVGPPGVGKTSLGQSIAKATGRKYVRMALGGVRDEAEIRGHRRTYIGSMPGKLIQKMAKVGVKN-P-LFLLDE  424 (784)
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEEcCCCCCHHHhccchhccCCCCCcHHHHHHHhcCCCC-C-EEEEEC
Confidence            3454 68999999999999999999999998888765322222221           12334556677544 5 466665


Q ss_pred             Cc
Q psy12736        514 AE  515 (567)
Q Consensus       514 ~q  515 (567)
                      -+
T Consensus       425 id  426 (784)
T PRK10787        425 ID  426 (784)
T ss_pred             hh
Confidence            43

>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]

Probab=91.67  E-value=0.14  Score=53.32  Aligned_cols=39  Identities=18%  Similarity=0.257  Sum_probs=29.5

Q ss_pred             CcchhhHHHHHHHHHhcCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        176 TTDSTKLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       176 T~dtvR~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      +....|+..+.+.  .-...+|+|||+|+|||+.++.++.+
T Consensus         8 ~l~~~r~~~~~k~--Gi~f~im~~G~sG~GKttfiNtL~~~   46 (373)
T COG5019           8 NLPNQRHRKLSKK--GIDFTIMVVGESGLGKTTFINTLFGT   46 (373)
T ss_pred             cchHHHHHHHHhc--CCceEEEEecCCCCchhHHHHhhhHh
Confidence            4445555555543  34568999999999999999999876

>KOG1803|consensus

Probab=91.67  E-value=0.17  Score=55.80  Aligned_cols=37  Identities=27%  Similarity=0.319  Sum_probs=29.6

Q ss_pred             hHHHHHHHHHhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        181 KLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       181 R~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .....+...+.++.+.++.||||||||.++..++..+
T Consensus       189 SQk~Av~~~~~~k~l~~I~GPPGTGKT~TlvEiI~ql  225 (649)
T KOG1803|consen  189 SQKAAVSFAINNKDLLIIHGPPGTGKTRTLVEIISQL  225 (649)
T ss_pred             HHHHHHHHHhccCCceEeeCCCCCCceeeHHHHHHHH
Confidence            3445566667777999999999999999998887765

>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP)

Probab=91.66  E-value=0.12  Score=49.26  Aligned_cols=23  Identities=13%  Similarity=0.332  Sum_probs=0.0

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .++++|++|||||++.+.+-..+
T Consensus         1 ~I~i~G~pGsGKst~a~~La~~~   23 (194)
T cd01428           1 RILLLGPPGSGKGTQAERLAKKY   23 (194)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>cd01892 Miro2 Miro2 subfamily

Probab=91.65  E-value=0.12  Score=48.25  Aligned_cols=24  Identities=33%  Similarity=0.576  Sum_probs=21.1

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..++++|.+|+|||+++++++..-
T Consensus         5 ~kv~~vG~~~vGKTsli~~~~~~~   28 (169)
T cd01892           5 FLCFVLGAKGSGKSALLRAFLGRS   28 (169)
T ss_pred             EEEEEECCCCCcHHHHHHHHhCCC
Confidence            458999999999999999998753

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.

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=91.65  E-value=0.11  Score=47.51  Aligned_cols=28  Identities=18%  Similarity=0.152  Sum_probs=23.3

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +..|..+.++||+|+|||++++-+....
T Consensus        23 ~~~Ge~~~i~G~nGsGKStLl~~l~G~~   50 (144)
T cd03221          23 INPGDRIGLVGRNGAGKSTLLKLIAGEL   50 (144)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHcCCC
Confidence            3468999999999999999998765544

EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=91.63  E-value=0.53  Score=44.37  Aligned_cols=33  Identities=18%  Similarity=0.348  Sum_probs=28.5

Q ss_pred             CCceEEeccCCCcHhHHHHHHHHHcCCeEEEEE
Q psy12736        447 RGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQ  479 (567)
Q Consensus       447 ~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~  479 (567)
                      ..+++|+|.+|+||+++++..|...++.++...
T Consensus         4 ~~~I~liG~~GaGKStl~~~La~~l~~~~vd~D   36 (172)
T PRK05057          4 KRNIFLVGPMGAGKSTIGRQLAQQLNMEFYDSD   36 (172)
T ss_pred             CCEEEEECCCCcCHHHHHHHHHHHcCCcEEECC
Confidence            457899999999999999999988888877653

>PRK08116 hypothetical protein; Validated

Probab=91.59  E-value=3  Score=42.28  Aligned_cols=106  Identities=13%  Similarity=0.073  Sum_probs=56.9

Q ss_pred             ceEEeccCCCcHhHHHHHHHHH---cCCeEEEEEecCCCChhhHHHHHHHHHHHh----------ccCCCcEEEEEecCc
Q psy12736        449 HCMVVGVEGGGKRSLVRLASFA---AGYQVFTIQLSRGYNEASFKEDLKSLYNLL----------GVKNQATVFLFTAAE  515 (567)
Q Consensus       449 h~LLvG~~GsGr~sl~rlaa~i---~~~~~~~i~~~k~y~~~~f~edLk~~~~~a----------g~~~~~~vfl~~d~q  515 (567)
                      .++|.|.+|+||+.|+...+.-   .+..+.-++      ..++.+.++..+...          .+.+.+ +++++|-+
T Consensus       116 gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~------~~~ll~~i~~~~~~~~~~~~~~~~~~l~~~d-lLviDDlg  188 (268)
T PRK08116        116 GLLLWGSVGTGKTYLAACIANELIEKGVPVIFVN------FPQLLNRIKSTYKSSGKEDENEIIRSLVNAD-LLILDDLG  188 (268)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEE------HHHHHHHHHHHHhccccccHHHHHHHhcCCC-EEEEeccc
Confidence            3899999999999998866553   355555554      344444554433211          123333 67778865


Q ss_pred             cc--chh----hhHHhh-hccCCccccC----cchhHHHH-----HHHhhccccceeeeeeccc
Q psy12736        516 IV--EEG----YQVFTI-QLSRGYNEAS----FKEDLKSL-----YNLLGVKNQATVFLFTAAE  563 (567)
Q Consensus       516 i~--~e~----fle~in-lL~~Gevp~L----f~~eE~~~-----i~~~~~~~~~~~~~~~~~~  563 (567)
                      ..  .+.    +.+.|| ...+| .|-+    ++++|+..     ++ +.+.+-+...-+++.+
T Consensus       189 ~e~~t~~~~~~l~~iin~r~~~~-~~~IiTsN~~~~eL~~~~~~ri~-sRl~e~~~~v~~~g~d  250 (268)
T PRK08116        189 AERDTEWAREKVYNIIDSRYRKG-LPTIVTTNLSLEELKNQYGKRIY-DRILEMCTPVENEGKS  250 (268)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHCC-CCEEEECCCCHHHHHHHHhHHHH-HHHHHcCEEEEeeCcC
Confidence            32  222    344444 43333 2333    33455543     44 5555555555556654

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=91.58  E-value=0.11  Score=49.50  Aligned_cols=28  Identities=18%  Similarity=0.297  Sum_probs=23.0

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +..|..+.++||+|+|||++++-+..-.
T Consensus        15 i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   42 (190)
T TIGR01166        15 AERGEVLALLGANGAGKSTLLLHLNGLL   42 (190)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4468899999999999999998665443

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.

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=91.57  E-value=0.11  Score=47.79  Aligned_cols=23  Identities=17%  Similarity=0.211  Sum_probs=20.0

Q ss_pred             eEEeccCCCCchhhHHHHHhccC
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ++++|++|||||++++.+...+.
T Consensus         2 i~i~G~~GsGKSTla~~L~~~l~   24 (149)
T cd02027           2 IWLTGLSGSGKSTIARALEEKLF   24 (149)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHH
Confidence            68999999999999998877653

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=91.55  E-value=0.12  Score=50.37  Aligned_cols=28  Identities=18%  Similarity=0.202  Sum_probs=23.3

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +..|..+.++||+|+|||++++-+..-+
T Consensus        25 i~~G~~~~l~G~nGsGKSTLl~~i~Gl~   52 (214)
T TIGR02673        25 IRKGEFLFLTGPSGAGKTTLLKLLYGAL   52 (214)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4578899999999999999998765543

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.

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=91.55  E-value=0.11  Score=51.00  Aligned_cols=25  Identities=24%  Similarity=0.429  Sum_probs=22.2

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .|.-+|+.||||||||++..+++.+
T Consensus        18 ~gs~~li~G~~GsGKT~l~~q~l~~   42 (226)
T PF06745_consen   18 KGSVVLISGPPGSGKTTLALQFLYN   42 (226)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCcHHHHHHHHHH
Confidence            4677999999999999999998864

More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....

>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase

Probab=91.55  E-value=0.12  Score=51.76  Aligned_cols=29  Identities=10%  Similarity=0.189  Sum_probs=25.5

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhccCC
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      ..|+.+++.||+|+|||++++.+.+.+..
T Consensus        14 ~~Gqr~~I~G~~G~GKTTLlr~I~n~l~~   42 (249)
T cd01128          14 GKGQRGLIVAPPKAGKTTLLQSIANAITK   42 (249)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhcccc
Confidence            57899999999999999999998887653

It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.

>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor

Probab=91.54  E-value=0.13  Score=46.49  Aligned_cols=23  Identities=17%  Similarity=0.313  Sum_probs=0.0

Q ss_pred             eEEeccCCCCchhhHHHHHhccC
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      +.++|++|||||++.+.+...+.
T Consensus         2 I~i~G~~GsGKst~a~~la~~~~   24 (147)
T cd02020           2 IAIDGPAGSGKSTVAKLLAKKLG   24 (147)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC

>cd01862 Rab7 Rab7 subfamily

Probab=91.52  E-value=0.11  Score=48.11  Aligned_cols=22  Identities=32%  Similarity=0.662  Sum_probs=20.1

Q ss_pred             CeEEeccCCCCchhhHHHHHhc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .++++|++|+|||+++++++..
T Consensus         2 ki~viG~~~~GKSsl~~~l~~~   23 (172)
T cd01862           2 KVIILGDSGVGKTSLMNQYVNK   23 (172)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5889999999999999999875

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-

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=91.51  E-value=0.11  Score=53.26  Aligned_cols=25  Identities=20%  Similarity=0.275  Sum_probs=21.3

Q ss_pred             CCeEEeccCCCCchhhHHHHHhccC
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      +-++++|++|||||++.+.+.+.++
T Consensus         3 ~liil~G~pGSGKSTla~~L~~~~~   27 (300)
T PHA02530          3 KIILTVGVPGSGKSTWAREFAAKNP   27 (300)
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHHCC
Confidence            3478899999999999999888763

>PRK09825 idnK D-gluconate kinase; Provisional

Probab=91.51  E-value=0.14  Score=48.63  Aligned_cols=27  Identities=19%  Similarity=0.244  Sum_probs=22.5

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .|..+.++|++|||||++.+.+...+.
T Consensus         2 ~ge~i~l~G~sGsGKSTl~~~la~~l~   28 (176)
T PRK09825          2 AGESYILMGVSGSGKSLIGSKIAALFS   28 (176)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhcC
Confidence            366789999999999999988776543

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=91.51  E-value=0.12  Score=50.22  Aligned_cols=27  Identities=26%  Similarity=0.284  Sum_probs=22.9

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|..+.++||+|+|||++++-+...+
T Consensus        24 ~~G~~~~i~G~nGsGKSTLl~~l~G~~   50 (210)
T cd03269          24 EKGEIFGLLGPNGAGKTTTIRMILGII   50 (210)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            468889999999999999998776543

In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=91.51  E-value=0.11  Score=58.00  Aligned_cols=29  Identities=17%  Similarity=0.260  Sum_probs=24.6

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ++.|+.+.++||+|||||++++-++.-.+
T Consensus       358 i~~G~~vaIvG~SGsGKSTLl~lL~g~~~  386 (529)
T TIGR02868       358 LPPGERVAILGPSGSGKSTLLMLLTGLLD  386 (529)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            56799999999999999999987776543

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.

>cd04157 Arl6 Arl6 subfamily

Probab=91.50  E-value=0.11  Score=47.44  Aligned_cols=22  Identities=23%  Similarity=0.280  Sum_probs=19.5

Q ss_pred             CeEEeccCCCCchhhHHHHHhc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      +|+++|++|+|||++++.+...
T Consensus         1 ~i~~vG~~~~GKTsl~~~l~~~   22 (162)
T cd04157           1 NILVVGLDNSGKTTIINQLKPE   22 (162)
T ss_pred             CEEEECCCCCCHHHHHHHHccc
Confidence            4789999999999999998764

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

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=91.50  E-value=0.16  Score=57.68  Aligned_cols=36  Identities=17%  Similarity=0.352  Sum_probs=29.8

Q ss_pred             HHHHHHhcCCCeEEeccCCCCchhhHHHHHhccCCC
Q psy12736        185 ILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLSPD  220 (567)
Q Consensus       185 ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~~~  220 (567)
                      .+...+.++.+++++||+|||||++++.+...++..
T Consensus        42 ~L~~~~~~~~~~l~~G~~G~GKttla~~l~~~l~~~   77 (637)
T PRK13765         42 VIKKAAKQRRHVMMIGSPGTGKSMLAKAMAELLPKE   77 (637)
T ss_pred             HHHHHHHhCCeEEEECCCCCcHHHHHHHHHHHcChH
Confidence            455566778899999999999999999988877643

>PRK14527 adenylate kinase; Provisional

Probab=91.49  E-value=0.094  Score=50.21  Aligned_cols=26  Identities=19%  Similarity=0.333  Sum_probs=21.7

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .++-++++||||||||++.+.+..++
T Consensus         5 ~~~~i~i~G~pGsGKsT~a~~La~~~   30 (191)
T PRK14527          5 KNKVVIFLGPPGAGKGTQAERLAQEL   30 (191)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            45668999999999999998876654

>cd04155 Arl3 Arl3 subfamily

Probab=91.49  E-value=0.11  Score=48.17  Aligned_cols=24  Identities=13%  Similarity=0.260  Sum_probs=21.0

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ...++++|++|+|||++++.+...
T Consensus        14 ~~~v~i~G~~g~GKStLl~~l~~~   37 (173)
T cd04155          14 EPRILILGLDNAGKTTILKQLASE   37 (173)
T ss_pred             ccEEEEEccCCCCHHHHHHHHhcC
Confidence            566999999999999999988764

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.

>PRK06217 hypothetical protein; Validated

Probab=91.49  E-value=0.12  Score=49.23  Aligned_cols=25  Identities=16%  Similarity=0.221  Sum_probs=0.0

Q ss_pred             CCeEEeccCCCCchhhHHHHHhccC
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ..+++.|++|||||++.+.+-+.+.
T Consensus         2 ~~I~i~G~~GsGKSTla~~L~~~l~   26 (183)
T PRK06217          2 MRIHITGASGSGTTTLGAALAERLD   26 (183)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHcC

>cd01868 Rab11_like Rab11-like

Probab=91.49  E-value=0.11  Score=47.70  Aligned_cols=23  Identities=26%  Similarity=0.566  Sum_probs=20.5

Q ss_pred             CCeEEeccCCCCchhhHHHHHhc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ..++++|++|+|||+++++++..
T Consensus         4 ~ki~vvG~~~~GKSsli~~l~~~   26 (165)
T cd01868           4 FKIVLIGDSGVGKSNLLSRFTRN   26 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            36899999999999999999865

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

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=91.48  E-value=0.14  Score=52.91  Aligned_cols=32  Identities=16%  Similarity=0.149  Sum_probs=22.7

Q ss_pred             HHHHHhcCC---CeEEeccCCCCchhhHHHHHhcc
Q psy12736        186 LSLMNEIKR---PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       186 l~~ll~~~~---pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +..+++.++   .+|++||+|+|||++++.+.+.+
T Consensus        33 l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~~   67 (316)
T PHA02544         33 FKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEV   67 (316)
T ss_pred             HHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHHh
Confidence            334444443   44448999999999999887765

>cd01394 radB RadB

Probab=91.48  E-value=0.16  Score=49.60  Aligned_cols=32  Identities=22%  Similarity=0.143  Sum_probs=25.1

Q ss_pred             HHHHHhc----CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        186 LSLMNEI----KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       186 l~~ll~~----~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ++.++..    +.-++++|++|||||++..+++.+.
T Consensus         8 LD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~~a~~~   43 (218)
T cd01394           8 LDELLGGGVERGTVTQVYGPPGTGKTNIAIQLAVET   43 (218)
T ss_pred             HHHHhcCCccCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4455544    4559999999999999999988764

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=91.47  E-value=0.12  Score=55.31  Aligned_cols=46  Identities=15%  Similarity=0.246  Sum_probs=31.6

Q ss_pred             ChHHHHHHHH----HHHHHHhhhhcccCcceEEecHHHHHHHHHHHHHHhc
Q psy12736        399 DYSAVGHLFT----EILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRL  445 (567)
Q Consensus       399 d~~~l~~~~~----~~l~~yn~~~~~~~~~~lvlf~dai~hi~ri~RvL~~  445 (567)
                      +.+.+..++.    ..+++|-.-. .....+|.+-++|++.|++.+--.+.
T Consensus       336 ~~~dL~~ILteP~nsLikQy~~Lf-~~egv~L~Ftd~Al~~IA~~A~~~N~  385 (443)
T PRK05201        336 TEEDFVRILTEPKASLIKQYQALL-ATEGVTLEFTDDAIRRIAEIAYQVNE  385 (443)
T ss_pred             CHHHHHHHhcCChhHHHHHHHHHH-hhcCcEEEEcHHHHHHHHHHHHHhcc
Confidence            5566666663    3566666432 14568899999999999998765443

>KOG0745|consensus

Probab=91.47  E-value=0.13  Score=54.60  Aligned_cols=26  Identities=31%  Similarity=0.468  Sum_probs=0.0

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      +-+|||+||||||||.+.+.+-+-++
T Consensus       226 KSNvLllGPtGsGKTllaqTLAr~ld  251 (564)
T KOG0745|consen  226 KSNVLLLGPTGSGKTLLAQTLARVLD  251 (564)
T ss_pred             cccEEEECCCCCchhHHHHHHHHHhC

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=91.46  E-value=0.12  Score=50.04  Aligned_cols=28  Identities=14%  Similarity=0.073  Sum_probs=23.1

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +..|.-+.++||+|+|||++++-+..-.
T Consensus        23 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   50 (205)
T cd03226          23 LYAGEIIALTGKNGAGKTTLAKILAGLI   50 (205)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3468899999999999999998766543

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.

>KOG0734|consensus

Probab=91.46  E-value=0.65  Score=50.72  Aligned_cols=61  Identities=23%  Similarity=0.411  Sum_probs=45.3

Q ss_pred             CCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCChhhHHHH--------HHHHHHHhccCCCcEEEEEecC
Q psy12736        446 SRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKED--------LKSLYNLLGVKNQATVFLFTAA  514 (567)
Q Consensus       446 p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~~~~f~ed--------Lk~~~~~ag~~~~~~vfl~~d~  514 (567)
                      |.| +||+|++|+||+-|+|-.|--++-.+|...      -+||.|-        +|.++..| -+.-|+++.+++-
T Consensus       337 PKG-VLLvGPPGTGKTlLARAvAGEA~VPFF~~s------GSEFdEm~VGvGArRVRdLF~aA-k~~APcIIFIDEi  405 (752)
T KOG0734|consen  337 PKG-VLLVGPPGTGKTLLARAVAGEAGVPFFYAS------GSEFDEMFVGVGARRVRDLFAAA-KARAPCIIFIDEI  405 (752)
T ss_pred             CCc-eEEeCCCCCchhHHHHHhhcccCCCeEecc------ccchhhhhhcccHHHHHHHHHHH-HhcCCeEEEEech
Confidence            444 799999999999999999988888888763      3344443        45666666 3567888888764

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=91.46  E-value=0.12  Score=49.97  Aligned_cols=27  Identities=15%  Similarity=0.202  Sum_probs=22.9

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|..+.++||+|+|||++++-+...+
T Consensus        22 ~~Ge~~~i~G~nGsGKSTLl~~l~G~~   48 (206)
T TIGR03608        22 EKGKMYAIIGESGSGKSTLLNIIGLLE   48 (206)
T ss_pred             eCCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            468899999999999999998776544

A gene pair with a fairly wide distribution consists of a polypeptide related to the lactococcin 972 (see TIGR01653) and multiple-membrane-spanning putative immunity protein (see TIGR01654). This model represents a small clade within the ABC transporters that regularly are found adjacent to these bacteriocin system gene pairs and are likely serve as export proteins.

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=91.45  E-value=0.15  Score=51.38  Aligned_cols=30  Identities=20%  Similarity=0.228  Sum_probs=26.1

Q ss_pred             HHhcCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        189 MNEIKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       189 ll~~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .+.++.+++|.||+|||||.++..+.+.+.
T Consensus       101 ~~~~~~nl~l~G~~G~GKThLa~Ai~~~l~  130 (254)
T COG1484         101 FFERGENLVLLGPPGVGKTHLAIAIGNELL  130 (254)
T ss_pred             HhccCCcEEEECCCCCcHHHHHHHHHHHHH
Confidence            344899999999999999999998887765

>KOG0738|consensus

Probab=91.45  E-value=0.37  Score=50.66  Aligned_cols=67  Identities=18%  Similarity=0.336  Sum_probs=48.1

Q ss_pred             cccccChHHHHHHHHHHHHHHhhhhcccCcceEEecHHHHHHHHHHHHHHhcCCCceEEeccCCCcHhHHHHHHHHHcCC
Q psy12736        394 YEDLLDYSAVGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVRLASFAAGY  473 (567)
Q Consensus       394 Y~~v~d~~~l~~~~~~~l~~yn~~~~~~~~~~lvlf~dai~hi~ri~RvL~~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~  473 (567)
                      +..|.+.+..++.++|.+-         -+   +.+++...||       +.|=-.+||+|++|+||+-|+|-.|.-|+-
T Consensus       211 W~DIagl~~AK~lL~EAVv---------lP---i~mPe~F~Gi-------rrPWkgvLm~GPPGTGKTlLAKAvATEc~t  271 (491)
T KOG0738|consen  211 WDDIAGLHEAKKLLKEAVV---------LP---IWMPEFFKGI-------RRPWKGVLMVGPPGTGKTLLAKAVATECGT  271 (491)
T ss_pred             hHhhcchHHHHHHHHHHHh---------hh---hhhHHHHhhc-------ccccceeeeeCCCCCcHHHHHHHHHHhhcC
Confidence            3445556666666655431         11   2334555554       578778999999999999999999999999


Q ss_pred             eEEEEE
Q psy12736        474 QVFTIQ  479 (567)
Q Consensus       474 ~~~~i~  479 (567)
                      .+|.|.
T Consensus       272 TFFNVS  277 (491)
T KOG0738|consen  272 TFFNVS  277 (491)
T ss_pred             eEEEec
Confidence            999885

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=91.45  E-value=0.11  Score=49.09  Aligned_cols=24  Identities=21%  Similarity=0.332  Sum_probs=20.9

Q ss_pred             eEEeccCCCCchhhHHHHHhccCC
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      +-++|++|||||+++..++..+..
T Consensus         9 i~ivG~sgsGKTTLi~~li~~l~~   32 (173)
T PRK10751          9 LAIAAWSGTGKTTLLKKLIPALCA   32 (173)
T ss_pred             EEEECCCCChHHHHHHHHHHHHhh
Confidence            468899999999999999987753

>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=91.44  E-value=0.11  Score=49.35  Aligned_cols=25  Identities=20%  Similarity=0.259  Sum_probs=21.5

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHHH
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNFL  214 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~l  214 (567)
                      +..|.-+.++||+|+|||++++-.+
T Consensus        18 i~~G~~~~l~G~nG~GKSTLl~~il   42 (176)
T cd03238          18 IPLNVLVVVTGVSGSGKSTLVNEGL   42 (176)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHh
Confidence            3468889999999999999998664

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.

>PLN02674 adenylate kinase

Probab=91.43  E-value=0.18  Score=50.45  Aligned_cols=45  Identities=16%  Similarity=0.158  Sum_probs=0.0

Q ss_pred             ccCcchhhHHHHH-HHHHhcCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        174 VPTTDSTKLTWIL-SLMNEIKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       174 VpT~dtvR~~~ll-~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      +|++|-....+-- .........+++.||||||||+..+.+-+++.
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~~~~i~l~G~PGsGKgT~a~~La~~~~   56 (244)
T PLN02674         11 VPSVDLMTELLRRMKCSSKPDKRLILIGPPGSGKGTQSPIIKDEYC   56 (244)
T ss_pred             CchHHHHHHHHHHHhhccccCceEEEECCCCCCHHHHHHHHHHHcC

>cd04177 RSR1 RSR1 subgroup

Probab=91.41  E-value=0.13  Score=47.63  Aligned_cols=23  Identities=26%  Similarity=0.570  Sum_probs=20.4

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .++++|++|+|||++++.+....
T Consensus         3 ki~liG~~~~GKTsli~~~~~~~   25 (168)
T cd04177           3 KIVVLGAGGVGKSALTVQFVQNV   25 (168)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            58999999999999999998653

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

>cd04132 Rho4_like Rho4-like subfamily

Probab=91.41  E-value=0.14  Score=48.26  Aligned_cols=23  Identities=30%  Similarity=0.518  Sum_probs=20.5

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .|+++|++|+|||+++++++.+-
T Consensus         2 ki~vvG~~~vGKTsli~~l~~~~   24 (187)
T cd04132           2 KIVVVGDGGCGKTCLLIVYSQGK   24 (187)
T ss_pred             eEEEECCCCCCHHHHHHHHHhCc
Confidence            48899999999999999998754

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.

>TIGR00235 udk uridine kinase

Probab=91.39  E-value=0.1  Score=50.66  Aligned_cols=27  Identities=19%  Similarity=0.167  Sum_probs=22.1

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .+.-+.++||+|||||++++.+...+.
T Consensus         5 ~g~vi~I~G~sGsGKSTl~~~l~~~l~   31 (207)
T TIGR00235         5 KGIIIGIGGGSGSGKTTVARKIYEQLG   31 (207)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            355678999999999999988877654

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=91.38  E-value=0.12  Score=51.32  Aligned_cols=27  Identities=15%  Similarity=0.191  Sum_probs=22.7

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      +..|.-+.++||+|+|||++++-+..-
T Consensus        25 i~~Ge~~~l~G~nGsGKSTLl~~l~Gl   51 (243)
T TIGR02315        25 INPGEFVAIIGPSGAGKSTLLRCINRL   51 (243)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            457899999999999999999866543

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.

>cd04103 Centaurin_gamma Centaurin gamma

Probab=91.36  E-value=0.15  Score=47.24  Aligned_cols=22  Identities=23%  Similarity=0.365  Sum_probs=19.7

Q ss_pred             CeEEeccCCCCchhhHHHHHhc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .|.++|++|+|||+++.+++..
T Consensus         2 ki~vvG~~gvGKTsli~~~~~~   23 (158)
T cd04103           2 KLGIVGNLQSGKSALVHRYLTG   23 (158)
T ss_pred             EEEEECCCCCcHHHHHHHHHhC
Confidence            3789999999999999998864

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.

>cd04127 Rab27A Rab27a subfamily

Probab=91.36  E-value=0.14  Score=47.94  Aligned_cols=23  Identities=22%  Similarity=0.479  Sum_probs=20.3

Q ss_pred             CCeEEeccCCCCchhhHHHHHhc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ..++++|++|+|||++++++...
T Consensus         5 ~ki~ivG~~~vGKTsli~~~~~~   27 (180)
T cd04127           5 IKFLALGDSGVGKTSFLYQYTDN   27 (180)
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            35899999999999999998765

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

>cd01865 Rab3 Rab3 subfamily

Probab=91.35  E-value=0.14  Score=47.30  Aligned_cols=22  Identities=14%  Similarity=0.477  Sum_probs=19.8

Q ss_pred             CeEEeccCCCCchhhHHHHHhc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .++++|++|+|||++++++...
T Consensus         3 ki~i~G~~~~GKSsli~~l~~~   24 (165)
T cd01865           3 KLLIIGNSSVGKTSFLFRYADD   24 (165)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4889999999999999998864

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

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=91.33  E-value=0.12  Score=48.02  Aligned_cols=31  Identities=19%  Similarity=0.401  Sum_probs=25.3

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhccCCCcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSLSPDKY  222 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l~~~~~  222 (567)
                      .-..+.++|+||+|||++++.+...+....|
T Consensus         4 ~~mki~ITG~PGvGKtTl~~ki~e~L~~~g~   34 (179)
T COG1618           4 MAMKIFITGRPGVGKTTLVLKIAEKLREKGY   34 (179)
T ss_pred             cceEEEEeCCCCccHHHHHHHHHHHHHhcCc
Confidence            3456899999999999999998877766544

>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea

Probab=91.31  E-value=0.13  Score=48.77  Aligned_cols=27  Identities=19%  Similarity=0.267  Sum_probs=22.6

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|..+.++||+|+|||++++-+..-.
T Consensus        23 ~~G~~~~l~G~nGsGKStLl~~i~G~~   49 (180)
T cd03214          23 EAGEIVGILGPNGAGKSTLLKTLAGLL   49 (180)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            468899999999999999998765543

Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC transporter mediating vitamin B12 uptake. The two ATP-binding cassettes (BtuD) are in close contact with each other, as are the two membrane-spanning subunits (BtuC); this arrangement is distinct from that observed for the E. coli lipid flippase MsbA. The BtuC subunits provide 20 transmembrane helices grouped around a translocation pathway that is closed to the cytoplasm by a gate region, whereas the dimer arrangement of the BtuD subunits resembles the ATP-bound form of the Rad50 DNA repair enzyme. A prominent cytoplasmic loop of BtuC forms the contact region with the ATP-binding cassette and represent a conserved motif among the ABC transporters.

>TIGR00368 Mg chelatase-related protein

Probab=91.30  E-value=0.14  Score=56.59  Aligned_cols=34  Identities=18%  Similarity=0.207  Sum_probs=27.6

Q ss_pred             HHHHHHhcCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        185 ILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       185 ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      -++..+..++++++.||+|||||++++.+-.-++
T Consensus       203 al~~aa~~g~~vlliG~pGsGKTtlar~l~~llp  236 (499)
T TIGR00368       203 ALEIAAAGGHNLLLFGPPGSGKTMLASRLQGILP  236 (499)
T ss_pred             hhhhhccCCCEEEEEecCCCCHHHHHHHHhcccC
Confidence            4555667899999999999999999988755444

The N-terminal end matches very strongly a pfam Mg_chelatase domain.

>PHA02624 large T antigen; Provisional

Probab=91.29  E-value=0.19  Score=56.02  Aligned_cols=56  Identities=21%  Similarity=0.198  Sum_probs=39.9

Q ss_pred             HHHHHHHHHh---cCCCeEEeccCCCCchhhHHHHHhccCCCcceeee--------c-CCCCCceEEEEe
Q psy12736        182 LTWILSLMNE---IKRPCIVVGDTGTSKTATMMNFLRSLSPDKYLVIA--------E-LPPTPAKFHYIF  239 (567)
Q Consensus       182 ~~~ll~~ll~---~~~pvLl~GptGtGKT~~i~~~l~~l~~~~~~~~~--------e-gPp~gkk~v~iF  239 (567)
                      ..-.++.+++   .++-++|.||+|||||++++.+++-+.... +.+|        + ||....+++ +|
T Consensus       417 ~~~~lk~~l~giPKk~~il~~GPpnTGKTtf~~sLl~~L~G~v-lsVNsPt~ks~FwL~pl~D~~~~-l~  484 (647)
T PHA02624        417 IYDILKLIVENVPKRRYWLFKGPVNSGKTTLAAALLDLCGGKS-LNVNCPPDKLNFELGCAIDQFMV-VF  484 (647)
T ss_pred             HHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHcCCeE-EEeeCCcchhHHHhhhhhhceEE-Ee
Confidence            3344555554   356789999999999999999998875432 2244        3 777888887 66

>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=91.29  E-value=0.82  Score=45.15  Aligned_cols=93  Identities=16%  Similarity=0.140  Sum_probs=58.0

Q ss_pred             CCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCChh-hHHHHHHHHHHHhccCCCcEEEEEecCcccch-hhhH
Q psy12736        446 SRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEA-SFKEDLKSLYNLLGVKNQATVFLFTAAEIVEE-GYQV  523 (567)
Q Consensus       446 p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~~~-~f~edLk~~~~~ag~~~~~~vfl~~d~qi~~e-~fle  523 (567)
                      ++.++.++|++|+||.||.|-.+.+.+-.-=+|.+... +.. -=...+|+.-.++|       ++|...++++. +.++
T Consensus        29 ~GE~VaiIG~SGaGKSTLLR~lngl~d~t~G~i~~~g~-~i~~~~~k~lr~~r~~iG-------mIfQ~~nLv~r~sv~~  100 (258)
T COG3638          29 QGEMVAIIGPSGAGKSTLLRSLNGLVDPTSGEILFNGV-QITKLKGKELRKLRRDIG-------MIFQQFNLVPRLSVLE  100 (258)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHhcccCCCcceEEeccc-chhccchHHHHHHHHhce-------eEeccCCcccccHHHH
Confidence            34467899999999999999888765544334433211 111 11245777766776       78888888753 3355


Q ss_pred             Hh-h-hccCC----ccccCcchhHHHHHH
Q psy12736        524 FT-I-QLSRG----YNEASFKEDLKSLYN  546 (567)
Q Consensus       524 ~i-n-lL~~G----evp~Lf~~eE~~~i~  546 (567)
                      .+ + .|+.-    .+-++|+++|.....
T Consensus       101 NVl~grl~~~s~~~slfglfsk~dk~~Al  129 (258)
T COG3638         101 NVLLGRLGYTSTWRSLFGLFSKEDKAQAL  129 (258)
T ss_pred             HHHhhhcccchHHHHHhCCCCHHHHHHHH
Confidence            32 2 33322    245899999987765

>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK

Probab=91.28  E-value=0.13  Score=50.06  Aligned_cols=27  Identities=19%  Similarity=0.174  Sum_probs=23.0

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|..+.++||+|+|||++++-+...+
T Consensus        24 ~~Ge~~~l~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03301          24 ADGEFVVLLGPSGCGKTTTLRMIAGLE   50 (213)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            468899999999999999998776544

ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two transmembrane-spanning domains (TMDs) or subunits and two nucleotide binding domains (NBDs) or subunits that couple transport to the hydrolysis of ATP. In the maltose transport system, the periplasmic maltose binding protein (MBP) stimulates the ATPase activity of the membrane-associated transporter, which consists of two transmembrane subunits, MalF and MalG, and two copies of the ATP binding subunit, MalK, and becomes tightly bound to the transporter in the catalytic transition state, ensuring that maltose is passed to the transporter as ATP is hydrolyzed.

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=91.27  E-value=0.12  Score=46.98  Aligned_cols=20  Identities=10%  Similarity=0.209  Sum_probs=18.4

Q ss_pred             eEEeccCCCCchhhHHHHHh
Q psy12736        196 CIVVGDTGTSKTATMMNFLR  215 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~  215 (567)
                      |.++|++|+|||++++.+..
T Consensus         2 i~l~G~~g~GKTtL~~~l~~   21 (170)
T cd01876           2 IAFAGRSNVGKSSLINALTN   21 (170)
T ss_pred             EEEEcCCCCCHHHHHHHHhc
Confidence            68999999999999999883

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.

>PLN02165 adenylate isopentenyltransferase

Probab=91.27  E-value=0.14  Score=53.41  Aligned_cols=28  Identities=14%  Similarity=0.351  Sum_probs=0.0

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ..+..+.|+||||||||++...+-..+.
T Consensus        41 ~~g~iivIiGPTGSGKStLA~~LA~~l~   68 (334)
T PLN02165         41 CKDKVVVIMGATGSGKSRLSVDLATRFP   68 (334)
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHHHHcC

>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment

Probab=91.24  E-value=0.13  Score=48.59  Aligned_cols=28  Identities=14%  Similarity=0.152  Sum_probs=23.4

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +..|..+.++||+|+|||++++-+...+
T Consensus        23 i~~G~~~~i~G~nGsGKSTLl~~l~G~~   50 (178)
T cd03229          23 IEAGEIVALLGPSGSGKSTLLRCIAGLE   50 (178)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3468899999999999999998876544

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=91.22  E-value=0.51  Score=48.33  Aligned_cols=26  Identities=19%  Similarity=0.174  Sum_probs=21.5

Q ss_pred             CCCceEEeccCCCcHhHHHHHHHHHc
Q psy12736        446 SRGHCMVVGVEGGGKRSLVRLASFAA  471 (567)
Q Consensus       446 p~Gh~LLvG~~GsGr~sl~rlaa~i~  471 (567)
                      |+.|+||.|++||||+++++..|...
T Consensus        57 ~~~~vll~G~pGTGKT~lA~~ia~~l   82 (284)
T TIGR02880        57 PTLHMSFTGNPGTGKTTVALRMAQIL   82 (284)
T ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHH
Confidence            55699999999999999997765543

Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.

>cd01855 YqeH YqeH

Probab=91.20  E-value=0.2  Score=47.72  Aligned_cols=27  Identities=22%  Similarity=0.304  Sum_probs=23.8

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      +..+..++++|.+|+|||++++.++..
T Consensus       124 l~~~~~~~~~G~~nvGKStliN~l~~~  150 (190)
T cd01855         124 AKKGGDVYVVGATNVGKSTLINALLKK  150 (190)
T ss_pred             hhcCCcEEEEcCCCCCHHHHHHHHHHh
Confidence            346789999999999999999999864

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.

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

Probab=91.19  E-value=0.16  Score=46.53  Aligned_cols=24  Identities=33%  Similarity=0.563  Sum_probs=20.9

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..++++|++|+|||+++++++...
T Consensus         3 ~ki~i~G~~~~GKtsl~~~~~~~~   26 (164)
T cd04145           3 YKLVVVGGGGVGKSALTIQFIQSY   26 (164)
T ss_pred             eEEEEECCCCCcHHHHHHHHHhCC
Confidence            368999999999999999998753

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

>cd04123 Rab21 Rab21 subfamily

Probab=91.19  E-value=0.13  Score=46.68  Aligned_cols=22  Identities=14%  Similarity=0.487  Sum_probs=19.9

Q ss_pred             CeEEeccCCCCchhhHHHHHhc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .++++|++|+|||+++++++..
T Consensus         2 ki~i~G~~~~GKStli~~l~~~   23 (162)
T cd04123           2 KVVLLGEGRVGKTSLVLRYVEN   23 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999999875

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

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=91.19  E-value=0.2  Score=57.23  Aligned_cols=59  Identities=12%  Similarity=0.239  Sum_probs=41.5

Q ss_pred             CCccccccCcchhhHHHHHHHHHhcCCCeEEeccCCCCchhhHHHHHhccC--CCcceeee
Q psy12736        168 SFGDILVPTTDSTKLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLS--PDKYLVIA  226 (567)
Q Consensus       168 ~~~~i~VpT~dtvR~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~--~~~~~~~~  226 (567)
                      .|.+++--.....+..-.++.+...+.|||+.|++||||+++++.+-....  ...|+.+|
T Consensus       323 ~~~~l~g~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~~A~~ih~~s~r~~~pfv~vn  383 (638)
T PRK11388        323 TFDHMPQDSPQMRRLIHFGRQAAKSSFPVLLCGEEGVGKALLAQAIHNESERAAGPYIAVN  383 (638)
T ss_pred             cccceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCcCHHHHHHHHHHhCCccCCCeEEEE
Confidence            344544444455566677777788999999999999999999988755432  23455554

>PRK08118 topology modulation protein; Reviewed

Probab=91.18  E-value=0.35  Score=45.42  Aligned_cols=31  Identities=23%  Similarity=0.398  Sum_probs=27.1

Q ss_pred             ceEEeccCCCcHhHHHHHHHHHcCCeEEEEE
Q psy12736        449 HCMVVGVEGGGKRSLVRLASFAAGYQVFTIQ  479 (567)
Q Consensus       449 h~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~  479 (567)
                      .++++|++||||+|+++..+-..+++++.+.
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD   33 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEKLNIPVHHLD   33 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCceecc
Confidence            4789999999999999999988888877664

>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]

Probab=91.17  E-value=0.16  Score=47.71  Aligned_cols=27  Identities=15%  Similarity=0.255  Sum_probs=0.0

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .+.++.|+|+.|+|||++-+.+-+.+.
T Consensus         1 ~~~~IvLiG~mGaGKSTIGr~LAk~L~   27 (172)
T COG0703           1 RNMNIVLIGFMGAGKSTIGRALAKALN   27 (172)
T ss_pred             CCccEEEEcCCCCCHhHHHHHHHHHcC

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=91.17  E-value=0.15  Score=49.02  Aligned_cols=22  Identities=27%  Similarity=0.625  Sum_probs=20.0

Q ss_pred             CeEEeccCCCCchhhHHHHHhc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .|+++|++|+|||+++++++..
T Consensus         2 KivivG~~~vGKTsli~~l~~~   23 (201)
T cd04107           2 KVLVIGDLGVGKTSIIKRYVHG   23 (201)
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4789999999999999999875

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.

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=91.16  E-value=0.14  Score=48.42  Aligned_cols=27  Identities=15%  Similarity=0.286  Sum_probs=23.0

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|..+.++||+|+|||++++-+....
T Consensus        26 ~~Ge~~~i~G~nGsGKStLl~~l~G~~   52 (178)
T cd03247          26 KQGEKIALLGRSGSGKSTLLQLLTGDL   52 (178)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhccC
Confidence            468999999999999999998776543

The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.

>cd04116 Rab9 Rab9 subfamily

Probab=91.15  E-value=0.15  Score=47.13  Aligned_cols=23  Identities=26%  Similarity=0.530  Sum_probs=20.5

Q ss_pred             CCeEEeccCCCCchhhHHHHHhc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ..++++|++|+|||+++++++..
T Consensus         6 ~ki~vvG~~~~GKTsli~~~~~~   28 (170)
T cd04116           6 LKVILLGDGGVGKSSLMNRYVTN   28 (170)
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            46899999999999999999864

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

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=91.14  E-value=0.13  Score=49.95  Aligned_cols=28  Identities=18%  Similarity=0.080  Sum_probs=23.3

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +..|..+.++||+|+|||++++-+..-+
T Consensus        23 i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03259          23 VEPGEFLALLGPSGCGKTTLLRLIAGLE   50 (213)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            4468899999999999999998766543

This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively

Probab=91.13  E-value=0.13  Score=50.40  Aligned_cols=28  Identities=18%  Similarity=0.106  Sum_probs=23.2

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +..|..+.++||+|+|||++++-+..-+
T Consensus        27 i~~G~~~~i~G~nGsGKSTLl~~l~Gl~   54 (220)
T cd03293          27 VEEGEFVALVGPSGCGKSTLLRIIAGLE   54 (220)
T ss_pred             EeCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            3468899999999999999998776543

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

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

Probab=91.12  E-value=0.14  Score=48.85  Aligned_cols=31  Identities=39%  Similarity=0.486  Sum_probs=24.4

Q ss_pred             HhcCCC---eEEeccCCCCchhhHHHHHhccCCC
Q psy12736        190 NEIKRP---CIVVGDTGTSKTATMMNFLRSLSPD  220 (567)
Q Consensus       190 l~~~~p---vLl~GptGtGKT~~i~~~l~~l~~~  220 (567)
                      -..++|   +-+.||+|||||+++...++.+.++
T Consensus         7 a~~~~~~~~i~v~Gp~GSGKTaLie~~~~~L~~~   40 (202)
T COG0378           7 AEKNRPMLRIGVGGPPGSGKTALIEKTLRALKDE   40 (202)
T ss_pred             HHhcCceEEEEecCCCCcCHHHHHHHHHHHHHhh
Confidence            344555   4566999999999999999988655

>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively

Probab=91.11  E-value=0.14  Score=49.78  Aligned_cols=27  Identities=11%  Similarity=0.199  Sum_probs=22.8

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|..+.++||+|+|||++++-+..-+
T Consensus        24 ~~G~~~~l~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03262          24 KKGEVVVIIGPSGSGKSTLLRCINLLE   50 (213)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            468899999999999999998776543

Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP has properties intermediate between those of integral and peripheral membrane proteins and is accessible from both sides of the membrane, presumably by its interaction with HisQ and HisM. The two HisP subunits form a homodimer within the complex. The domain structure of the amino acid uptake systems is typical for prokaryote extracellular solute binding protein-dependent uptake systems. All of the amino acid uptake systems also have at least one, and in a few cases, two extracellular solute binding proteins located in the periplasm of Gram-negative bacteria, or attached to the cell membrane of Gram-positive bacteria. The best-studied member of the PAAT (polar amino acid transport) family is the HisJQM

>cd03224 ABC_TM1139_LivF_branched LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids

Probab=91.11  E-value=0.12  Score=50.45  Aligned_cols=27  Identities=15%  Similarity=0.201  Sum_probs=22.2

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      +..|..+.++||+|+|||++++-+..-
T Consensus        23 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   49 (222)
T cd03224          23 VPEGEIVALLGRNGAGKTTLLKTIMGL   49 (222)
T ss_pred             EcCCeEEEEECCCCCCHHHHHHHHhCC
Confidence            346889999999999999999765443

The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules.

>PRK15177 Vi polysaccharide export ATP-binding protein VexC; Provisional

Probab=91.11  E-value=0.14  Score=50.10  Aligned_cols=28  Identities=11%  Similarity=-0.028  Sum_probs=23.2

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +..|.-+.|+||+|+|||++++-+..-.
T Consensus        10 i~~Ge~~~l~G~NGsGKSTLlk~i~Gl~   37 (213)
T PRK15177         10 MGYHEHIGILAAPGSGKTTLTRLLCGLD   37 (213)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            4568889999999999999998766543

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=91.10  E-value=0.12  Score=47.89  Aligned_cols=24  Identities=21%  Similarity=0.407  Sum_probs=21.0

Q ss_pred             eEEeccCCCCchhhHHHHHhccCC
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      +.++|++|||||+++..++..+..
T Consensus         2 i~i~G~~gsGKTtl~~~l~~~l~~   25 (155)
T TIGR00176         2 LQIVGPKNSGKTTLIERLVKALKA   25 (155)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHh
Confidence            468999999999999999988753

This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.

>PRK13540 cytochrome c biogenesis protein CcmA; Provisional

Probab=91.09  E-value=0.14  Score=49.39  Aligned_cols=27  Identities=15%  Similarity=0.039  Sum_probs=22.7

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      +..|..+.++||+|+|||++++-+..-
T Consensus        24 i~~Ge~~~l~G~nGsGKSTLl~~i~G~   50 (200)
T PRK13540         24 LPAGGLLHLKGSNGAGKTTLLKLIAGL   50 (200)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            346899999999999999999866554

>smart00487 DEXDc DEAD-like helicases superfamily

Probab=91.08  E-value=0.25  Score=46.04  Aligned_cols=32  Identities=19%  Similarity=0.084  Sum_probs=23.2

Q ss_pred             HHHHHHHhcCCCeEEeccCCCCchhhHHHHHh
Q psy12736        184 WILSLMNEIKRPCIVVGDTGTSKTATMMNFLR  215 (567)
Q Consensus       184 ~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~  215 (567)
                      ..+..++...++++++||+|||||..+...+.
T Consensus        15 ~~~~~~~~~~~~~~i~~~~GsGKT~~~~~~~~   46 (201)
T smart00487       15 EAIEALLSGLRDVILAAPTGSGKTLAALLPAL   46 (201)
T ss_pred             HHHHHHHcCCCcEEEECCCCCchhHHHHHHHH
Confidence            34455554448999999999999996655543

>KOG3347|consensus

Probab=91.07  E-value=0.16  Score=46.45  Aligned_cols=23  Identities=22%  Similarity=0.320  Sum_probs=0.0

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ++|++|-||||||++..++-...
T Consensus         9 NILvtGTPG~GKstl~~~lae~~   31 (176)
T KOG3347|consen    9 NILVTGTPGTGKSTLAERLAEKT   31 (176)
T ss_pred             CEEEeCCCCCCchhHHHHHHHHh

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=91.05  E-value=0.15  Score=48.90  Aligned_cols=24  Identities=21%  Similarity=0.300  Sum_probs=20.6

Q ss_pred             eEEeccCCCCchhhHHHHHhccCC
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      |-++||+|||||++.+.+...+..
T Consensus         2 IgI~G~sgSGKTTla~~L~~~L~~   25 (194)
T PF00485_consen    2 IGIAGPSGSGKTTLAKRLAQILNK   25 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCc
Confidence            568999999999999998777654

7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=91.04  E-value=0.13  Score=50.03  Aligned_cols=27  Identities=19%  Similarity=0.213  Sum_probs=22.6

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      +..|..+.++||+|+|||++++-+..-
T Consensus        22 i~~Ge~~~l~G~nGsGKSTLl~~l~G~   48 (213)
T cd03235          22 VKPGEFLAIVGPNGAGKSTLLKAILGL   48 (213)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHcCC
Confidence            346889999999999999999876543

This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-siderophore uptake family suggesting that they share a common ancestor. The best characterized metal-type ABC transporters are the YfeABCD system of Y. pestis, the SitABCD system of Salmonella enterica serovar Typhimurium, and the SitABCD transporter of Shigella flexneri. Moreover other uncharacterized homologs of these metal-type transporters are mainly found in pathogens like Haemophilus or enteroinvasive E. coli isolates.

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=91.03  E-value=0.075  Score=52.67  Aligned_cols=24  Identities=17%  Similarity=0.223  Sum_probs=19.8

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHH
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNF  213 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~  213 (567)
                      +..|.=|-++||+|||||++.+-+
T Consensus        26 v~~GEfvsilGpSGcGKSTLLrii   49 (248)
T COG1116          26 VEKGEFVAILGPSGCGKSTLLRLI   49 (248)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHH
Confidence            446778889999999999998644

>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance

Probab=91.03  E-value=0.14  Score=49.67  Aligned_cols=27  Identities=26%  Similarity=0.252  Sum_probs=23.0

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|..+.++||+|+|||++++-+...+
T Consensus        24 ~~G~~~~i~G~nGsGKSTLl~~l~Gl~   50 (208)
T cd03268          24 KKGEIYGFLGPNGAGKTTTMKIILGLI   50 (208)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCc
Confidence            368899999999999999998876544

Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme complex BcrABC. Bacitracin has potent antibiotic activity against gram-positive bacteria. The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin. The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC. B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein.

>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain

Probab=91.03  E-value=0.15  Score=47.92  Aligned_cols=27  Identities=22%  Similarity=0.310  Sum_probs=23.1

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|..+.++||+|+|||++++-+....
T Consensus        26 ~~Ge~~~i~G~nGsGKStLl~~l~G~~   52 (173)
T cd03246          26 EPGESLAIIGPSGSGKSTLARLILGLL   52 (173)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            468899999999999999998776644

They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substra

>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=91.01  E-value=0.14  Score=50.74  Aligned_cols=28  Identities=14%  Similarity=0.217  Sum_probs=23.3

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +..|..+.++||+|+|||++++-+..-+
T Consensus        23 i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   50 (235)
T cd03261          23 VRRGEILAIIGPSGSGKSTLLRLIVGLL   50 (235)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3468889999999999999998776544

The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PF01935 DUF87: Domain of unknown function DUF87; InterPro: IPR002789 The function of this domain is unknown

Probab=91.01  E-value=0.14  Score=50.44  Aligned_cols=26  Identities=31%  Similarity=0.471  Sum_probs=24.0

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ++|+.+.|-||||||.+++.++.++.
T Consensus        23 ~~H~~I~G~TGsGKS~~~~~ll~~l~   48 (229)
T PF01935_consen   23 NRHIAIFGTTGSGKSNTVKVLLEELL   48 (229)
T ss_pred             cceEEEECCCCCCHHHHHHHHHHHHH
Confidence            58999999999999999999998875

It contains several conserved aspartates and histidines that could be metal ligands.

>cd04106 Rab23_lke Rab23-like subfamily

Probab=90.99  E-value=0.16  Score=46.39  Aligned_cols=22  Identities=27%  Similarity=0.570  Sum_probs=19.9

Q ss_pred             CeEEeccCCCCchhhHHHHHhc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .|+++|++|+|||++++++..+
T Consensus         2 kv~~vG~~~~GKTsl~~~~~~~   23 (162)
T cd04106           2 KVIVVGNGNVGKSSMIQRFVKG   23 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4899999999999999998865

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

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=90.98  E-value=0.13  Score=55.00  Aligned_cols=25  Identities=40%  Similarity=0.530  Sum_probs=21.6

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ...++++||+|+|||+++..+...+
T Consensus       174 ~~vi~lvGptGvGKTTT~aKLA~~~  198 (388)
T PRK12723        174 KRVFILVGPTGVGKTTTIAKLAAIY  198 (388)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4679999999999999999887654

>cd01863 Rab18 Rab18 subfamily

Probab=90.97  E-value=0.14  Score=46.85  Aligned_cols=22  Identities=23%  Similarity=0.638  Sum_probs=19.7

Q ss_pred             CeEEeccCCCCchhhHHHHHhc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .++++|++|+|||+++.+++..
T Consensus         2 ki~v~G~~~~GKSsli~~l~~~   23 (161)
T cd01863           2 KILLIGDSGVGKSSLLLRFTDD   23 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4789999999999999998865

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

>TIGR03410 urea_trans_UrtE urea ABC transporter, ATP-binding protein UrtE

Probab=90.96  E-value=0.14  Score=50.48  Aligned_cols=28  Identities=21%  Similarity=0.272  Sum_probs=23.2

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +..|..+.|+||+|||||++++-+..-+
T Consensus        23 i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   50 (230)
T TIGR03410        23 VPKGEVTCVLGRNGVGKTTLLKTLMGLL   50 (230)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4578999999999999999998655443

Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.

>cd01858 NGP_1 NGP-1

Probab=90.96  E-value=0.17  Score=46.72  Aligned_cols=24  Identities=8%  Similarity=0.122  Sum_probs=20.8

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      +..+.++|+||+|||++++.++..
T Consensus       102 ~~~v~~~G~~nvGKStliN~l~~~  125 (157)
T cd01858         102 QISVGFIGYPNVGKSSIINTLRSK  125 (157)
T ss_pred             ceEEEEEeCCCCChHHHHHHHhcC
Confidence            456889999999999999998764

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.

>cd04135 Tc10 TC10 subfamily

Probab=90.94  E-value=0.17  Score=46.93  Aligned_cols=22  Identities=36%  Similarity=0.750  Sum_probs=19.6

Q ss_pred             CeEEeccCCCCchhhHHHHHhc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .++++|++|+|||++++.+...
T Consensus         2 ki~i~G~~~~GKTsl~~~~~~~   23 (174)
T cd04135           2 KCVVVGDGAVGKTCLLMSYAND   23 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999988765

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

>PRK01184 hypothetical protein; Provisional

Probab=90.94  E-value=0.14  Score=48.56  Aligned_cols=22  Identities=27%  Similarity=0.235  Sum_probs=17.1

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      -++++|++|||||++.+ +++.+
T Consensus         3 ~i~l~G~~GsGKsT~a~-~~~~~   24 (184)
T PRK01184          3 IIGVVGMPGSGKGEFSK-IAREM   24 (184)
T ss_pred             EEEEECCCCCCHHHHHH-HHHHc
Confidence            37899999999999754 55543

>KOG0737|consensus

Probab=90.93  E-value=0.12  Score=53.88  Aligned_cols=28  Identities=18%  Similarity=0.240  Sum_probs=0.0

Q ss_pred             HHhcCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        189 MNEIKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       189 ll~~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      |++-.+.|||.||||||||++.+..-+.
T Consensus       123 Ll~p~kGiLL~GPpG~GKTmlAKA~Ake  150 (386)
T KOG0737|consen  123 LLRPPKGILLYGPPGTGKTMLAKAIAKE  150 (386)
T ss_pred             cccCCccceecCCCCchHHHHHHHHHHH

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=90.92  E-value=0.11  Score=48.19  Aligned_cols=21  Identities=19%  Similarity=0.325  Sum_probs=16.9

Q ss_pred             eEEeccCCCCchhhHHHHHhc
Q psy12736        196 CIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~  216 (567)
                      |.++|++|||||++++.+-..
T Consensus         2 I~i~G~~stGKTTL~~~L~~~   22 (163)
T PF13521_consen    2 IVITGGPSTGKTTLIEALAAR   22 (163)
T ss_dssp             EEEE--TTSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHc
Confidence            689999999999999988765

>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=90.91  E-value=0.15  Score=47.70  Aligned_cols=29  Identities=14%  Similarity=0.189  Sum_probs=24.0

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      +..|.-+.++||+|+|||++++-+...++
T Consensus        24 i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~   52 (166)
T cd03223          24 IKPGDRLLITGPSGTGKSSLFRALAGLWP   52 (166)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            34688999999999999999988766543

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

>PRK07261 topology modulation protein; Provisional

Probab=90.87  E-value=0.7  Score=43.46  Aligned_cols=30  Identities=27%  Similarity=0.429  Sum_probs=24.5

Q ss_pred             ceEEeccCCCcHhHHHHHHHHHcCCeEEEE
Q psy12736        449 HCMVVGVEGGGKRSLVRLASFAAGYQVFTI  478 (567)
Q Consensus       449 h~LLvG~~GsGr~sl~rlaa~i~~~~~~~i  478 (567)
                      .++++|.+||||+|+++..+-..+...+..
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~~~~~i~~   31 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHYNCPVLHL   31 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCCCeEec
Confidence            368999999999999998877777766554

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=90.85  E-value=0.18  Score=47.79  Aligned_cols=24  Identities=17%  Similarity=0.194  Sum_probs=21.1

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHh
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLR  215 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~  215 (567)
                      .+..|+++|++|+|||+++.++..
T Consensus        16 ~~~kv~lvG~~~vGKTsli~~~~~   39 (182)
T PTZ00133         16 KEVRILMVGLDAAGKTTILYKLKL   39 (182)
T ss_pred             CccEEEEEcCCCCCHHHHHHHHhc
Confidence            356799999999999999999864

>PRK02496 adk adenylate kinase; Provisional

Probab=90.84  E-value=0.14  Score=48.68  Aligned_cols=23  Identities=22%  Similarity=0.342  Sum_probs=19.7

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+++.||+|||||++.+.+...+
T Consensus         3 ~i~i~G~pGsGKst~a~~la~~~   25 (184)
T PRK02496          3 RLIFLGPPGAGKGTQAVVLAEHL   25 (184)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999998876654

>KOG1942|consensus

Probab=90.84  E-value=0.2  Score=50.69  Aligned_cols=29  Identities=31%  Similarity=0.489  Sum_probs=24.9

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhccCC
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      ..|+.||+.||+|||||++.-.+-+.+-+
T Consensus        62 maGravLlaGppgtGKTAlAlaisqELG~   90 (456)
T KOG1942|consen   62 MAGRAVLLAGPPGTGKTALALAISQELGP   90 (456)
T ss_pred             ccCcEEEEecCCCCchhHHHHHHHHHhCC
Confidence            46999999999999999999888776643

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	567
3vkh_A	3367	X-Ray Structure Of A Functional Full-Length Dynein		3e-22
3vkg_A	3245	X-Ray Structure Of An Mtbd Truncation Mutant Of Dyn		3e-22
4ai6_A	2695	Dynein Motor Domain - Adp Complex Length = 2695		6e-11
3qmz_A	2486	Crystal Structure Of The Cytoplasmic Dynein Heavy C		6e-11

>pdb|3VKH|A Chain A, X-Ray Structure Of A Functional Full-Length Dynein Motor Domain Length = 3367

Iteration: 1
 Score =  103 bits (257), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 69/226 (30%), Positives = 116/226 (51%), Gaps = 16/226 (7%)
Query: 299  HYIFNLRDLSRIIQGL-TATEKIIFNTKEMFVRAWRNEFTRTICDRLNTDEDLSLMSGHI 357
            HYI++ R+LSR  + L  A + +   T E  VR W +E  R   DRL   E+       I
Sbjct: 1508 HYIYSPRELSRWDRALLEAIQTMDGCTLEGLVRLWAHEALRLFQDRLVETEEKEWTDKKI 1567
Query: 358  ADSVKRNFPQDVNV-VMRDPLLFGDFRNALKETEPRYYEDLLDY-SAVGHLFTEILEEYN 415
             +   ++FP  VN+  ++ P+L+ ++    K+ +P    DL +Y  A   +F E  EE +
Sbjct: 1568 DEVALKHFP-SVNLDALKRPILYSNWLT--KDYQPVNRSDLREYVKARLKVFYE--EELD 1622
Query: 416  ESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVRLASFAAGYQV 475
                    + LVLF +  +H+ RI R  R  +GH +++GV GGGK  L R  ++  G  +
Sbjct: 1623 --------VPLVLFNEVLDHILRIDRVFRQPQGHALLIGVSGGGKSVLSRFVAWMNGLSI 1674
Query: 476  FTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEGY 521
            +TI+++  Y  + F +DL+ L    G K +   F+F  + ++E  +
Sbjct: 1675 YTIKVNNNYKSSDFDDDLRMLLKRAGCKEEKICFIFDESNVLESSF 1720

>pdb|3VKG|A Chain A, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein Motor Domain Length = 3245

Iteration: 1
 Score =  103 bits (257), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 69/226 (30%), Positives = 116/226 (51%), Gaps = 16/226 (7%)
Query: 299  HYIFNLRDLSRIIQGL-TATEKIIFNTKEMFVRAWRNEFTRTICDRLNTDEDLSLMSGHI 357
            HYI++ R+LSR  + L  A + +   T E  VR W +E  R   DRL   E+       I
Sbjct: 1508 HYIYSPRELSRWDRALLEAIQTMDGCTLEGLVRLWAHEALRLFQDRLVETEEKEWTDKKI 1567
Query: 358  ADSVKRNFPQDVNV-VMRDPLLFGDFRNALKETEPRYYEDLLDY-SAVGHLFTEILEEYN 415
             +   ++FP  VN+  ++ P+L+ ++    K+ +P    DL +Y  A   +F E  EE +
Sbjct: 1568 DEVALKHFP-SVNLDALKRPILYSNWLT--KDYQPVNRSDLREYVKARLKVFYE--EELD 1622
Query: 416  ESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVRLASFAAGYQV 475
                    + LVLF +  +H+ RI R  R  +GH +++GV GGGK  L R  ++  G  +
Sbjct: 1623 --------VPLVLFNEVLDHILRIDRVFRQPQGHALLIGVSGGGKSVLSRFVAWMNGLSI 1674
Query: 476  FTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEGY 521
            +TI+++  Y  + F +DL+ L    G K +   F+F  + ++E  +
Sbjct: 1675 YTIKVNNNYKSSDFDDDLRMLLKRAGCKEEKICFIFDESNVLESSF 1720

>pdb|4AI6|A Chain A, Dynein Motor Domain - Adp Complex Length = 2695

Iteration: 1
 Score = 65.9 bits (159), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 54/231 (23%), Positives = 97/231 (41%), Gaps = 15/231 (6%)
Query: 294  TPAKFHYIFNLRDLSRIIQGL-TATEKIIFNTKEMFVRAWRNEFTRTICDRLNTDEDLSL 352
            T  + HY+F+ R+L+R+++G+ TA       T    +R W  E  R   DRL   ++ + 
Sbjct: 1465 TGLQSHYLFSPRELTRLVRGVYTAINTGPRQTLRSLIRLWAYEAWRIFADRLVGVKEKNS 1524
Query: 353  MSGHIADSVKRNFPQDVNVVMRDPLLFGDFRNALKETEPRYYEDLLDYSAVGH--LFTEI 410
                + ++V +  P              D  N    +        LD+  V    L   I
Sbjct: 1525 FEQLLYETVDKYLPNQ------------DLGNISSTSLLFSGLLSLDFKEVNKTDLVNFI 1572
Query: 411  LEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVRLASFA 470
             E +      +  + +V+ E   +H+ RI RAL+  +GH M++G    GK  L R  ++ 
Sbjct: 1573 EERFKTFCDEELEVPMVIHESMVDHILRIDRALKQVQGHMMLIGASRTGKTILTRFVAWL 1632
Query: 471  AGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEGY 521
             G ++   ++ R  N + F   LK   +   +K   T  +   + I+E  +
Sbjct: 1633 NGLKIVQPKIHRHSNLSDFDMILKKAISDCSLKESRTCLIIDESNILETAF 1683

>pdb|3QMZ|A Chain A, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain Motor Domain Length = 2486

Iteration: 1
 Score = 65.9 bits (159), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 54/231 (23%), Positives = 97/231 (41%), Gaps = 15/231 (6%)
Query: 294  TPAKFHYIFNLRDLSRIIQGL-TATEKIIFNTKEMFVRAWRNEFTRTICDRLNTDEDLSL 352
            T  + HY+F+ R+L+R+++G+ TA       T    +R W  E  R   DRL   ++ + 
Sbjct: 1246 TGLQSHYLFSPRELTRLVRGVYTAINTGPRQTLRSLIRLWAYEAWRIFADRLVGVKEKNS 1305
Query: 353  MSGHIADSVKRNFPQDVNVVMRDPLLFGDFRNALKETEPRYYEDLLDYSAVGH--LFTEI 410
                + ++V +  P              D  N    +        LD+  V    L   I
Sbjct: 1306 FEQLLYETVDKYLPNQ------------DLGNISSTSLLFSGLLSLDFKEVNKTDLVNFI 1353
Query: 411  LEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVRLASFA 470
             E +      +  + +V+ E   +H+ RI RAL+  +GH M++G    GK  L R  ++ 
Sbjct: 1354 EERFKTFCDEELEVPMVIHESMVDHILRIDRALKQVQGHMMLIGASRTGKTILTRFVAWL 1413
Query: 471  AGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEGY 521
             G ++   ++ R  N + F   LK   +   +K   T  +   + I+E  +
Sbjct: 1414 NGLKIVQPKIHRHSNLSDFDMILKKAISDCSLKESRTCLIIDESNILETAF 1464

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	567
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	3e-72
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	1e-21
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	5e-72
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	5e-24
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-11
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-11

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A Length = 2695

 Score =  250 bits (641), Expect = 3e-72
 Identities = 53/236 (22%), Positives = 104/236 (44%), Gaps = 13/236 (5%)

Query: 288  IAELPPTPAKFHYIFNLRDLSRIIQGLT-ATEKIIFNTKEMFVRAWRNEFTRTICDRLNT 346
                  T  + HY+F+ R+L+R+++G+  A       T    +R W  E  R   DRL  
Sbjct: 1459 CKARYSTGLQSHYLFSPRELTRLVRGVYTAINTGPRQTLRSLIRLWAYEAWRIFADRLVG 1518

Query: 347  DEDLSLMSGHIADSVKRNFP-QDVNVVMRDPLLFGDFRNALKETEPRYYEDLLDYSAVGH 405
             ++ +     + ++V +  P QD+  +    LLF    +   + +     DL+++     
Sbjct: 1519 VKEKNSFEQLLYETVDKYLPNQDLGNISSTSLLFSGLLS--LDFKEVNKTDLVNF----- 1571

Query: 406  LFTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVR 465
               E  + + +    +  + +V+ E   +H+ RI RAL+  +GH M++G    GK  L R
Sbjct: 1572 -IEERFKTFCDE---ELEVPMVIHESMVDHILRIDRALKQVQGHMMLIGASRTGKTILTR 1627

Query: 466  LASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEGY 521
              ++  G ++   ++ R  N + F   LK   +   +K   T  +   + I+E  +
Sbjct: 1628 FVAWLNGLKIVQPKIHRHSNLSDFDMILKKAISDCSLKESRTCLIIDESNILETAF 1683

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A Length = 2695

 Score = 99.1 bits (247), Expect = 1e-21
 Identities = 37/229 (16%), Positives = 71/229 (31%), Gaps = 36/229 (15%)

Query: 4    HIADSVKRNFPQDVNVVMRDPLLFGDFRNALKETEPRYYEDLLDYSAVGHLFTEIVQLCQ 63
               D +K       ++     +      N L          +L       L        Q
Sbjct: 1100 FELDKLKDLISDSFDMASLTNIFT--CSNDLVH--------ILGVRTFNKLE----TAVQ 1145

Query: 64   MLQASLDEAN--LGSMSPEE----LEAVFIQSVYASLGASLVAEAQTVFDAHVKNLTGFL 117
            +    +        ++  +     +  +  +S+  +L      E+Q  F   +    G  
Sbjct: 1146 LAVHLISSYRQWFQNLDDKSLKDVITLLIKRSLLYALAGDSTGESQRAFIQTINTYFG-- 1203

Query: 118  NVVDSDDRLANYTQIPTAESSWYHYTLDRSKNAWVPWRHLVRSYVHD-GDKSFGDILVPT 176
                    L++Y              +   K ++  +   + S   +  +    DI++PT
Sbjct: 1204 ---HDSQELSDY----------STIVIANDKLSFSSFCSEIPSVSLEAHEVMRPDIVIPT 1250

Query: 177  TDSTKLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLSPDKYLVI 225
             D+ K   I   +   KR  I+ G  G+ KT  M N LR+ S    + I
Sbjct: 1251 IDTIKHEKIFYDLLNSKRGIILCGPPGSGKTMIMNNALRNSSLYDVVGI 1299

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A* 3vkh_C* Length = 3245

 Score =  250 bits (640), Expect = 5e-72
 Identities = 69/299 (23%), Positives = 128/299 (42%), Gaps = 29/299 (9%)

Query: 224  VIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNEFTRTICDRLNT 283
            ++    P+ +    I+         + L      + +  +    A    ++         
Sbjct: 1450 ILLVDFPSTSSLTQIY-----GTFNRALMKLLPNLRSFADNLTDAMVEFYSE-------- 1496

Query: 284  DELVIAELPPTPAKFHYIFNLRDLSRIIQG-LTATEKIIFNTKEMFVRAWRNEFTRTICD 342
                     P   + HYI++ R+LSR  +  L A + +   T E  VR W +E  R   D
Sbjct: 1497 ---SQKRFTPD-IQAHYIYSPRELSRWDRALLEAIQTMDGCTLEGLVRLWAHEALRLFQD 1552

Query: 343  RLNTDEDLSLMSGHIADSVKRNFPQDVNVVMRDPLLFGDFRNALKETEPRYYEDLLDYSA 402
            RL   E+       I +   ++FP      ++ P+L+ ++    K+ +P    DL +Y  
Sbjct: 1553 RLVETEEKEWTDKKIDEVALKHFPSVNLDALKRPILYSNWLT--KDYQPVNRSDLREY-- 1608

Query: 403  VGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGVEGGGKRS 462
                    L+ + E    +  + LVLF +  +H+ RI R  R  +GH +++GV GGGK  
Sbjct: 1609 ----VKARLKVFYEE---ELDVPLVLFNEVLDHILRIDRVFRQPQGHALLIGVSGGGKSV 1661

Query: 463  LVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEGY 521
            L R  ++  G  ++TI+++  Y  + F +DL+ L    G K +   F+F  + ++E  +
Sbjct: 1662 LSRFVAWMNGLSIYTIKVNNNYKSSDFDDDLRMLLKRAGCKEEKICFIFDESNVLESSF 1720

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A* 3vkh_C* Length = 3245

 Score =  106 bits (266), Expect = 5e-24
 Identities = 33/189 (17%), Positives = 68/189 (35%), Gaps = 19/189 (10%)

Query: 42   YEDLLDYSAVGHLFTEIVQLCQMLQASLDEANLGSMSPEE----LEAVFIQSVYASLGAS 97
              D      +   F+ + +    +       +   MSPE     +    + S+   LG S
Sbjct: 1162 IMDFTRLRVLNSFFSLMNRSIVNVIEYNQLHSDFPMSPENQSNYITNRLLYSLMWGLGGS 1221

Query: 98   LVAEAQTVFDAHVKNLTGFLNVVDSDDRLANYTQIPTAESSWYHYTLDRSKNAWVPWRHL 157
            +    +  F   ++ +                  +P        Y++      W  W++ 
Sbjct: 1222 MGLVERENFSKFIQTIAIT--------------PVPANTIPLLDYSVSIDDANWSLWKNK 1267

Query: 158  VRSYVHD-GDKSFGDILVPTTDSTKLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRS 216
            V S   +    +  D+++PT D+T+   +L       RP I+ G  G+ KT T+ + LR+
Sbjct: 1268 VPSVEVETHKVASPDVVIPTVDTTRHVDVLHAWLSEHRPLILCGPPGSGKTMTLTSTLRA 1327

Query: 217  LSPDKYLVI 225
                + + +
Sbjct: 1328 FPDFEVVSL 1336

>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 = 66.4 bits (161), Expect = 2e-11
 Identities = 81/618 (13%), Positives = 178/618 (28%), Gaps = 158/618 (25%)

Query: 30  FRNALKETEPRYYEDLLDYSAVGHLFTEIVQLCQMLQASLDEANLGSMSPEELEAVFIQS 89
           +++ L   E  + ++  D   V  +   I+      +  +D   +          + +  
Sbjct: 18  YKDILSVFEDAFVDNF-DCKDVQDMPKSILS-----KEEIDH--IIMSKDAVSGTLRLFW 69

Query: 90  VYASLGASLVAEAQTVFDAHVKNLTGFLNVVDSDDRLANYTQIPTAESSWYHYTLDRSKN 149
              S    +V +   V +    N   FL        +    + P+  +  Y    DR   
Sbjct: 70  TLLSKQEEMVQKF--VEEVLRINY-KFLM-----SPIKTEQRQPSMMTRMYIEQRDR--- 118

Query: 150 AWVPWRHLVRSYVHDGDKSFGDILVPTTDS-TKL-TWILSLMNEIKRPCIVV-GDTGTSK 206
                       +++ ++ F    V       KL   +L L        +++ G  G+ K
Sbjct: 119 ------------LYNDNQVFAKYNVSRLQPYLKLRQALLELRPA---KNVLIDGVLGSGK 163

Query: 207 TATMMNFLRSLS-----PDK--YLVIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIF 259
           T   ++   S         K  +L +            +  L  L +I    T+      
Sbjct: 164 TWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKL--LYQIDPNWTSRSDHSS 221

Query: 260 NTKEMFVRAWRNEFTRTICDRLNTDELVIAELPPTPAKFHYIFNLRDL--SRIIQGLTAT 317
           N K     + + E  R +  +   + L++               L ++  ++       +
Sbjct: 222 NIKLRIH-SIQAELRRLLKSKPYENCLLV---------------LLNVQNAKAWNAFNLS 265

Query: 318 EKIIFNTKEMFVRAWRNEFTRT------ICDRLNTDEDLSLMS---GHIADS----VKRN 364
            KI+  T+   V  + +  T T          L  DE  SL+              V   
Sbjct: 266 CKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTT 325

Query: 365 FPQDVNVV---MRD-PLLFGDFR---------------NALKETEPR-YYEDL------- 397
            P+ ++++   +RD    + +++               N L+  E R  ++ L       
Sbjct: 326 NPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSA 385

Query: 398 -LDYSAVGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGVE 456
            +    +  ++ ++++        K     ++ +  +E    I       +        E
Sbjct: 386 HIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLE---NE 442

Query: 457 GGGKRSLVRLASFAAGYQV--FTIQLSRGYNEASFKEDLKSLYNLLG----VKNQA---- 506
               RS+V   +    +            Y            Y+ +G             
Sbjct: 443 YALHRSIVDHYNIPKTFDSDDLIPPYLDQY-----------FYSHIGHHLKNIEHPERMT 491

Query: 507 ---TVFL---FTAAEIVEEGYQVF-------TIQLSRGY------NEASFKEDLKSLYNL 547
               VFL   F   +I  +            T+Q  + Y      N+  ++  + ++ + 
Sbjct: 492 LFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILD- 550

Query: 548 LGVKNQATVFLFTAAEIV 565
                    FL    E +
Sbjct: 551 ---------FLPKIEENL 559

>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 = 64.5 bits (156), Expect = 7e-11
 Identities = 94/652 (14%), Positives = 187/652 (28%), Gaps = 212/652 (32%)

Query: 4   HIADSVKRNFP-QDVNVVMRDP-------LLFGDFRNALKETEPRYYEDLL--DYSAVGH 53
            + D  K     ++++ ++           LF    +  +E   ++ E++L  +Y     
Sbjct: 37  DVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINY---KF 93

Query: 54  LFTEIVQLCQMLQASLDEAN--------------------------------LGSMSPEE 81
           L + I    +  Q S+                                    L  + P +
Sbjct: 94  LMSPIKTEQR--QPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAK 151

Query: 82  LEAVFIQSVYASLGA---SLVAEA------QTVFDAHV---------------KNLTGFL 117
                +  +   LG+    +  +       Q   D  +               + L   L
Sbjct: 152 ----NV-LIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLL 206

Query: 118 NVVDSD--DRLANYTQIPTAESSWYHYTLDRSKNAWVPWRH----LVRSYVHDGD--KSF 169
             +D +   R  + + I     S         +       +    LV   V +     +F
Sbjct: 207 YQIDPNWTSRSDHSSNIKLRIHSIQ----AELRRLLKSKPYENCLLVLLNVQNAKAWNAF 262

Query: 170 G---DILVPTTDSTKLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLSPDKYLVIA 226
                IL+ TT   ++T  LS         +       +        L+ L         
Sbjct: 263 NLSCKILL-TTRFKQVTDFLSA-ATTTHISLDHHSMTLTPDEVKSLLLKYLDCR----PQ 316

Query: 227 ELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWRNEFTRTICDRLNTD-E 285
           +LP      +     R LS I       E I    ++     W N +    CD+L T  E
Sbjct: 317 DLPREVLTTN----PRRLSII------AESI----RDGLAT-WDN-WKHVNCDKLTTIIE 360

Query: 286 LVIAELPPTPAKFHY----IFNLRD-------LSRIIQGLTATEKIIFNTKEMFVRA--- 331
             +  L P   +  +    +F           LS I   +  ++ ++    ++   +   
Sbjct: 361 SSLNVLEPAEYRKMFDRLSVFP-PSAHIPTILLSLIWFDVIKSDVMVV-VNKLHKYSLVE 418

Query: 332 -WRNEFTRTICD-----RLNTDEDLSLMSGH--IADS--VKRNFPQDVNVVMRDPLLFGD 381
               E T +I       ++  + + +L   H  I D   + + F  D             
Sbjct: 419 KQPKESTISIPSIYLELKVKLENEYAL---HRSIVDHYNIPKTFDSD------------- 462

Query: 382 FRNALKETEPRYYEDLLDYSAVG-HLFT-EILEEYNESAGAKARLDLVLFEDAREHLTRI 439
             + +     +Y+     YS +G HL   E  E           LD   F         +
Sbjct: 463 --DLIPPYLDQYF-----YSHIGHHLKNIEHPERMTLF--RMVFLDFR-F---------L 503

Query: 440 HRALRLSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGY------NEASFKEDL 493
            + +R                      A  A+G  + T+Q  + Y      N+  ++  +
Sbjct: 504 EQKIRHD------------------STAWNASGSILNTLQQLKFYKPYICDNDPKYERLV 545

Query: 494 KSLYNLLGVKNQATVFLFTAAEIVEEGYQVFTIQLSRGY-NEASFKEDLKSL 544
            ++ +          FL    E +        ++++    +EA F+E  K +
Sbjct: 546 NAILD----------FLPKIEENLICSKYTDLLRIALMAEDEAIFEEAHKQV 587

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	567
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	100.0
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	100.0
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	99.37
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	99.13
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	98.86
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	98.69
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	98.57
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	98.28
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	97.97
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	97.6
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	97.58
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	97.47
2chg_A	226	Replication factor C small subunit; DNA-binding pr	97.23
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	97.08
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	97.05
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	96.98
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	96.83
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	96.8
3pvs_A	447	Replication-associated recombination protein A; ma	96.79
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	96.79
3bos_A	242	Putative DNA replication factor; P-loop containing	96.77
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	96.72
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	96.72
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	96.69
3co5_A	143	Putative two-component system transcriptional RES	96.66
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	96.61
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	96.6
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	96.59
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	96.57
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	96.55
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	96.54
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	96.53
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	96.52
3pvs_A	447	Replication-associated recombination protein A; ma	96.51
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	96.51
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	96.5
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	96.5
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	96.49
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	96.48
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	96.48
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	96.37
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	96.36
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	96.35
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	96.35
2chg_A	226	Replication factor C small subunit; DNA-binding pr	96.34
2chq_A	319	Replication factor C small subunit; DNA-binding pr	96.32
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	96.3
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	96.29
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	96.27
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	96.26
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	96.26
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	96.24
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	96.17
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	96.15
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	96.13
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	96.12
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	96.09
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	96.09
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	96.08
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	96.07
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	96.07
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	96.06
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	96.04
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	96.03
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	96.03
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	96.0
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	95.99
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	95.99
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	95.97
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	95.96
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	95.96
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	95.91
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	95.9
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	95.88
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	95.85
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	95.82
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	95.81
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	95.78
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	95.77
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	95.76
2chq_A	319	Replication factor C small subunit; DNA-binding pr	95.75
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	95.71
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	95.7
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	95.7
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	95.66
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	95.66
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	95.6
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	95.59
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	95.57
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	95.57
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	95.56
2r44_A	331	Uncharacterized protein; putative ATPase, structur	95.53
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	95.53
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	95.53
2qgz_A	308	Helicase loader, putative primosome component; str	95.51
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	95.51
3co5_A	143	Putative two-component system transcriptional RES	95.48
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	95.44
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	95.43
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	95.41
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	95.4
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	95.38
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	95.38
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	95.29
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	95.26
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	95.22
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	95.2
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	95.17
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	95.16
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	95.16
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	95.13
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	95.12
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	95.08
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	95.07
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	95.06
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	94.98
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	94.97
3bos_A	242	Putative DNA replication factor; P-loop containing	94.96
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	94.95
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	94.94
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	94.94
1tue_A	212	Replication protein E1; helicase, replication, E1E	94.92
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	94.9
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	94.89
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	94.89
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	94.84
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	94.83
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	94.8
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	94.79
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	94.79
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	94.78
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	94.74
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	94.73
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	94.72
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	94.71
2r44_A	331	Uncharacterized protein; putative ATPase, structur	94.7
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	94.69
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	94.67
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	94.66
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	94.64
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	94.63
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	94.61
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	94.58
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	94.52
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	94.41
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	94.4
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	94.38
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	94.36
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	94.34
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	94.31
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	94.3
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	94.28
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	94.23
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	94.23
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	94.16
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	94.15
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	94.12
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	94.07
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	94.07
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	94.05
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	94.04
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	94.02
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	94.02
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	93.99
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	93.98
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	93.96
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	93.94
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	93.94
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	93.88
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	93.87
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	93.85
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	93.72
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	93.71
2eyu_A	261	Twitching motility protein PILT; pilus retraction	93.71
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	93.68
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	93.67
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	93.61
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	93.6
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	93.56
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	93.52
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	93.51
1p9r_A	418	General secretion pathway protein E; bacterial typ	93.5
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	93.41
2ewv_A	372	Twitching motility protein PILT; pilus retraction	93.4
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	93.38
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	93.37
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	93.36
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	93.29
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	93.22
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	93.21
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	93.15
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	93.12
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	93.06
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	93.05
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	93.04
2fna_A	357	Conserved hypothetical protein; structural genomic	93.04
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	93.0
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	92.99
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	92.98
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	92.97
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	92.96
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	92.94
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	92.92
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	92.92
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	92.89
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	92.88
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	92.82
1via_A	175	Shikimate kinase; structural genomics, transferase	92.76
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	92.75
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	92.75
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	92.73
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	92.7
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	92.67
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	92.66
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	92.6
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	92.6
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	92.6
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	92.57
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	92.56
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	92.52
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	92.51
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	92.48
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	92.45
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	92.43
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	92.41
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	92.4
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	92.4
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	92.4
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	92.37
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	92.3
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	92.26
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	92.26
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	92.25
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	92.25
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	92.23
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	92.21
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	92.17
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	92.17
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	92.16
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	92.13
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	92.09
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	92.08
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	92.08
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	92.06
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	92.04
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	92.04
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	92.02
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	91.97
1nrj_B	218	SR-beta, signal recognition particle receptor beta	91.86
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	91.81
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	91.81
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	91.81
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	91.8
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	91.8
2vli_A	183	Antibiotic resistance protein; transferase, tunica	91.8
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	91.8
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	91.78
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	91.76
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	91.76
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	91.72
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	91.71
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	91.71
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	91.7
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	91.69
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	91.69
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	91.68
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	91.68
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	91.67
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	91.66
2ged_A	193	SR-beta, signal recognition particle receptor beta	91.62
4a74_A	231	DNA repair and recombination protein RADA; hydrola	91.62
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	91.61
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	91.61
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	91.6
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	91.59
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	91.57
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	91.57
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	91.56
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	91.54
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	91.5
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	91.5
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	91.49
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	91.48
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	91.47
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	91.41
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	91.37
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	91.37
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	91.34
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	91.32
2wji_A	165	Ferrous iron transport protein B homolog; membrane	91.31
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	91.31
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	91.31
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	91.27
1sgw_A	214	Putative ABC transporter; structural genomics, P p	91.22
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	91.22
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	91.22
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	91.2
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	91.18
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	91.17
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	91.16
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	91.16
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	91.15
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	91.12
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	91.1
2cvh_A	220	DNA repair and recombination protein RADB; filamen	91.09
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	91.08
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	91.05
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	91.04
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	91.04
2fh5_B	214	SR-beta, signal recognition particle receptor beta	91.02
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	91.01
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	90.99
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	90.98
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	90.98
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	90.98
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	90.94
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	90.88
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	90.85
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	90.82
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	90.81
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	90.81
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	90.79
2hf9_A	226	Probable hydrogenase nickel incorporation protein	90.78
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	90.77
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	90.77
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	90.76
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	90.74
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	90.73
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	90.73
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	90.73
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	90.68
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	90.67
1g6h_A	257	High-affinity branched-chain amino acid transport	90.66
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	90.65
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	90.64
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	90.6
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	90.6
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	90.59
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	90.57
1ko7_A	314	HPR kinase/phosphatase; protein kinase, phosphotra	90.56
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	90.55
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	90.54
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	90.54
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	90.52
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	90.5
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	90.5
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	90.48
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	90.47
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	90.47
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	90.46
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	90.46
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	90.44
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	90.43
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	90.4
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	90.37
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	90.37
1b0u_A	262	Histidine permease; ABC transporter, transport pro	90.34
1ji0_A	240	ABC transporter; ATP binding protein, structural g	90.33
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	90.32
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	90.32
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	90.31
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	90.31
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	90.29
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	90.29
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	90.28
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	90.26
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	90.25
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	90.22
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	90.16
4ag6_A	392	VIRB4 ATPase, type IV secretory pathway VIRB4 comp	90.16
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	90.12
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	90.11
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	90.09
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	90.08
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	90.05
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	90.03
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	89.99
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	89.99
2ghi_A	260	Transport protein; multidrug resistance protein, M	89.98
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	89.97
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	89.93
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	89.91
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	89.89
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	89.89
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	89.89
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	89.85
3kta_A	182	Chromosome segregation protein SMC; structural mai	89.85
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	89.79
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	89.77
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	89.77
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	89.77
2gxq_A	207	Heat resistant RNA dependent ATPase; RNA helicase,	89.73
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	89.72
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	89.72
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	89.72
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	89.71
1qde_A	224	EIF4A, translation initiation factor 4A; DEAD box	89.71
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	89.69
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	89.68
3llu_A	196	RAS-related GTP-binding protein C; structural geno	89.66
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	89.64
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	89.63
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	89.61
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	89.55
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	89.54
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	89.53
2fna_A	357	Conserved hypothetical protein; structural genomic	89.47
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	89.46
1vec_A	206	ATP-dependent RNA helicase P54; DEAD-box protein,	89.46
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	89.42
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	89.41
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	89.39
3io5_A	333	Recombination and repair protein; storage dimer, i	89.36
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	89.36
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	89.35
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	89.34
2cvh_A	220	DNA repair and recombination protein RADB; filamen	89.34
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	89.32
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	89.32
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	89.28
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	89.27
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	89.27
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	89.24
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	89.23
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	89.21
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	89.2
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	89.18
1hv8_A	367	Putative ATP-dependent RNA helicase MJ0669; RNA-bi	89.13
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	89.13
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	89.1
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	89.0
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	89.0
2gk6_A	624	Regulator of nonsense transcripts 1; UPF1, helicas	88.99
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	88.95
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	88.94
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	88.92
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	88.91
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	88.82
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	88.79
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	88.78
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	88.77
1e9r_A	437	Conjugal transfer protein TRWB; coupling protein,	88.77
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	88.76
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	88.75
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	88.72
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	88.7
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	88.68
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	88.63
2xau_A	773	PRE-mRNA-splicing factor ATP-dependent RNA helica;	88.63
3iuy_A	228	Probable ATP-dependent RNA helicase DDX53; REC-A-l	88.6
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	88.6
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	88.59
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	88.59
2pl3_A	236	Probable ATP-dependent RNA helicase DDX10; DEAD, s	88.56
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	88.53
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	88.47
2ius_A	512	DNA translocase FTSK; nucleotide-binding, chromoso	88.45
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	88.4
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	88.39
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	88.37
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	88.23
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	88.21
3b6e_A	216	Interferon-induced helicase C domain-containing P;	88.19
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	88.15
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	88.14
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	88.12
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	88.12
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	88.1
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	88.06
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	88.02
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	88.02
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	88.0
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	87.99
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	87.9
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	87.85
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	87.85
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	87.83
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	87.76
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	87.74
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	87.74
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	87.63
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	87.61
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	87.58
2va8_A	715	SSO2462, SKI2-type helicase; hydrolase, DNA repair	87.51
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	87.44
2eyu_A	261	Twitching motility protein PILT; pilus retraction	87.44
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	87.44
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	87.42
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	87.4
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	87.4
2og2_A	359	Putative signal recognition particle receptor; nuc	87.36
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	87.35
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	87.34
1via_A	175	Shikimate kinase; structural genomics, transferase	87.34
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	87.34
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	87.34
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	87.29
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	87.26
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	87.23
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	87.21

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=100.00  E-value=9.8e-101  Score=953.01  Aligned_cols=501  Identities=21%  Similarity=0.349  Sum_probs=427.0

Q ss_pred             HHHHHHhhH--HHHhhhhhhhee------ccchhhHHHHHHHHHHhccCcc------c-CCCCCH----HHHHHHHHHHH
Q psy12736         30 FRNALKETE--PRYYEDLLDYSA------VGHLFTEIVQLCQMLQASLDEA------N-LGSMSP----EELEAVFIQSV   90 (567)
Q Consensus        30 ~~~~l~~lf--~~~~~~~l~f~~------~~~~~~lv~s~~~ll~~ll~~~------~-~~~~~~----~~~e~~Fifsl   90 (567)
                      +.+.+..+|  +.|++++++|..      ..++.++|.++|+++++++.+.      . .....+    .+++++|+||+
T Consensus      1135 ~~~~l~~~~~~~~~v~~~l~~~~~~~~i~~~~~~~~v~~l~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~fal 1214 (3245)
T 3vkg_A         1135 CAAIISQYFEPGGLVHKVLEDAGQRPHIMDFTRLRVLNSFFSLMNRSIVNVIEYNQLHSDFPMSPENQSNYITNRLLYSL 1214 (3245)
T ss_dssp             HHHHHHHHHSTTCHHHHHHHHHHTSCCSSCCCHHHHHHHHHHHHHHHHHHHHHHHHHTTTSCCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcccccHHHHHHHHHhcCcccCccHHHHHHHHHHHHHHHhhhhcccccccccCCCCHHHHHHHHHHHHHHHH
Confidence            456677787  678899999853      3578899999999999988431      0 111122    36899999999


Q ss_pred             HHHhcCcCChhhHHHHHHHHHHHhCCCCCCCCcccccccCcCCCCCCCeeEEEEECCCCceeeCcccccceeecCC-CCC
Q psy12736         91 YASLGASLVAEAQTVFDAHVKNLTGFLNVVDSDDRLANYTQIPTAESSWYHYTLDRSKNAWVPWRHLVRSYVHDGD-KSF  169 (567)
Q Consensus        91 iWs~Gg~l~~~~R~~Fd~~lr~~~~~~~~~d~~~~~~~~~~~P~~~~~vfDy~~d~~~~~w~~W~~~v~~~~~~~~-~~~  169 (567)
                      +|||||+++.++|.+||+|+|+....              ++|+++++||||++|.++++|.+|.+.+|++.+++. .++
T Consensus      1215 iWs~Gg~l~~~~R~~F~~~~~~~~~~--------------~~p~~~~~v~Dy~~~~~~~~w~~W~~~v~~~~~~~~~~~~ 1280 (3245)
T 3vkg_A         1215 MWGLGGSMGLVERENFSKFIQTIAIT--------------PVPANTIPLLDYSVSIDDANWSLWKNKVPSVEVETHKVAS 1280 (3245)
T ss_dssp             HHHHHTTSCHHHHHHHHHHHHTTCSS--------------CCCCTTSCGGGEEECTTTCSEEETTCCC---CCCSTTTTC
T ss_pred             HHHhcccCCHHHHHHHHHHHHHhcCC--------------CCCCCCCceEEEEEECCCCeeeehhhcCCccccCCccCCc
Confidence            99999999999999999999987642              255456899999999999999999999999988776 689


Q ss_pred             ccccccCcchhhHHHHHHHHHhcCCCeEEeccCCCCchhhHHHHHhccCCCcceeee------------------c----
Q psy12736        170 GDILVPTTDSTKLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLSPDKYLVIA------------------E----  227 (567)
Q Consensus       170 ~~i~VpT~dtvR~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~~~~~~~~~------------------e----  227 (567)
                      .+++|||+||+|+.|+++.++.+++||||+||||||||+++.++|.++++..+..+|                  |    
T Consensus      1281 ~~ilVPT~DTvR~~~ll~~ll~~~~pvLL~GptGtGKT~li~~~L~~l~~~~~~~infS~~Tta~~l~~~~e~~~e~~~~ 1360 (3245)
T 3vkg_A         1281 PDVVIPTVDTTRHVDVLHAWLSEHRPLILCGPPGSGKTMTLTSTLRAFPDFEVVSLNFSSATTPELLLKTFDHHCEYKRT 1360 (3245)
T ss_dssp             TTCCCCCHHHHHHHHHHHHHHHTTCCCEEESSTTSSHHHHHHHHGGGCTTEEEEEECCCTTCCHHHHHHHHHHHEEEEEC
T ss_pred             ccceecchHHHHHHHHHHHHHHCCCcEEEECCCCCCHHHHHHHHHHhCCCCceEEEEeeCCCCHHHHHHHHhhcceEEec
Confidence            999999999999999999999999999999999999999999999988654443333                  1    


Q ss_pred             -------CCC-CCceEEEEe----ec-----------------------------------cchh---------------
Q psy12736        228 -------LPP-TPAKFHYIF----NL-----------------------------------RDLS---------------  245 (567)
Q Consensus       228 -------gPp-~gkk~v~iF----Nl-----------------------------------~D~~---------------  245 (567)
                             +|+ .||++| +|    |+                                   .|+.               
T Consensus      1361 ~~~G~~~~p~~~Gk~~V-lFiDDiNmp~~D~yGtQ~~ielLrqlld~~g~yd~~~~~~~~i~d~~~vaamnPp~~gGr~~ 1439 (3245)
T 3vkg_A         1361 PSGETVLRPTQLGKWLV-VFCDEINLPSTDKYGTQRVITFIRQMVEKGGFWRTSDHTWIKLDKIQFVGACNPPTDAGRVQ 1439 (3245)
T ss_dssp             TTSCEEEEESSTTCEEE-EEETTTTCCCCCTTSCCHHHHHHHHHHHHSEEEETTTTEEEEESSEEEEEEECCTTSTTCCC
T ss_pred             cCCCcccCCCcCCceEE-EEecccCCCCccccccccHHHHHHHHHHcCCeEECCCCeEEEecCeEEEEEcCCCCCCCCcc
Confidence                   255 499999 77    51                                   1111               


Q ss_pred             ---hhhhccccccccccCCHHHHHHHHHHhhhhhh--------------cChHHHHHHHHHhCCCCCCccccccChhhHH
Q psy12736        246 ---RIIQGLTATEKIIFNTKEMFVRAWRNEFTRTI--------------CDRLNTDELVIAELPPTPAKFHYIFNLRDLS  308 (567)
Q Consensus       246 ---R~~rg~f~~~~~~~~s~~sl~~I~~~il~~~~--------------~~~i~~y~~i~~~llptp~k~HY~FnlRDls  308 (567)
                         ||+| ||+++++++|+++++.+||++++...+              ..++++|+.+++.|+|+ +|+||+||||||+
T Consensus      1440 l~~Rf~r-~F~vi~i~~ps~esL~~If~til~~~l~~~p~l~~~~~~lv~ati~ly~~v~~~~lp~-~k~HY~FnLRDLs 1517 (3245)
T 3vkg_A         1440 LTHRFLR-HAPILLVDFPSTSSLTQIYGTFNRALMKLLPNLRSFADNLTDAMVEFYSESQKRFTPD-IQAHYIYSPRELS 1517 (3245)
T ss_dssp             CCHHHHT-TCCEEECCCCCHHHHHHHHHHHHHHHTTSCGGGTTSHHHHHHHHHHHHHHHHHHSCTT-TSTTCCCCHHHHH
T ss_pred             CCHHHHh-hceEEEeCCCCHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHHHHHHHHHHHhcCCC-cCCCccccHHHHH
Confidence               9999 999999999999999999999876321              12389999999999996 9999999999999


Q ss_pred             HHHhhhhcc-cccccCCHHHHHHHHhhhhchhhccccCChhhHHHHHHHHHHHHHhhCCcchhhhccCCceecccccccc
Q psy12736        309 RIIQGLTAT-EKIIFNTKEMFVRAWRNEFTRTICDRLNTDEDLSLMSGHIADSVKRNFPQDVNVVMRDPLLFGDFRNALK  387 (567)
Q Consensus       309 rv~qGi~~~-~~~~~~~~~~l~rLw~hE~~RVF~DRLi~~eDr~~f~~~l~~~~~~~f~~~~~~~~~~~llf~d~~~~~~  387 (567)
                      ||+||++++ .+....+++.++|||+|||+|||+|||++++||+||.+++.++++++|+...+..+.+|++||||++   
T Consensus      1518 rv~qGll~~~~~~~~~~~~~lvrLW~HE~~RVF~DRLv~~~Dr~~f~~~l~~~~~~~F~~~~~~~~~~pllf~~f~~--- 1594 (3245)
T 3vkg_A         1518 RWDRALLEAIQTMDGCTLEGLVRLWAHEALRLFQDRLVETEEKEWTDKKIDEVALKHFPSVNLDALKRPILYSNWLT--- 1594 (3245)
T ss_dssp             HHHHHHHHHHHTSSCCCTTHHHHHHHHHHHHHHTTTCSSHHHHHHHHHHHHHHHHHHCTTSCGGGGCSSCCCCSSCC---
T ss_pred             HHHHHHHHhcCccccCCHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCcchhhhcccCcchhhhcc---
Confidence            999999987 4445567899999999999999999999999999999999999999998543555678999999985   


Q ss_pred             CCCCcccccccChHHHHHHHHHHHHHHhhhhcccCcceEEecHHHHHHHHHHHHHHhcCCCceEEeccCCCcHhHHHHHH
Q psy12736        388 ETEPRYYEDLLDYSAVGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVRLA  467 (567)
Q Consensus       388 ~~~~~~Y~~v~d~~~l~~~~~~~l~~yn~~~~~~~~~~lvlf~dai~hi~ri~RvL~~p~Gh~LLvG~~GsGr~sl~rla  467 (567)
                          +.|+++ +.+++++.++++|++||++   ..+|+||+|+||++||+||+|||++|+|||||||+||||||||+|||
T Consensus      1595 ----~~Y~~v-~~~~l~~~l~~~L~~yn~~---~~~m~LVlF~daleHv~RI~RIL~qp~GhaLLVGvgGSGkqSLtrLA 1666 (3245)
T 3vkg_A         1595 ----KDYQPV-NRSDLREYVKARLKVFYEE---ELDVPLVLFNEVLDHILRIDRVFRQPQGHALLIGVSGGGKSVLSRFV 1666 (3245)
T ss_dssp             --------CC-CHHHHHHHHHHHHHTTC---------CCCCCHHHHHHHHHHHHHHTSTTCCEEEEESTTSSHHHHHHHH
T ss_pred             ----ccCccC-CHHHHHHHHHHHHHHHHhc---ccCceEEeHHHHHHHHHHHHHHHccCCCCeEEecCCCCcHHHHHHHH
Confidence                258888 7899999999999999988   68899999999999999999999999999999999999999999999


Q ss_pred             HHHcCCeEEEEEecCCCChhhHHHHHHHHHHHhccCCCcEEEEEecCcccchhhhHHhh-hccCCccccCcchhHHHHHH
Q psy12736        468 SFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEGYQVFTI-QLSRGYNEASFKEDLKSLYN  546 (567)
Q Consensus       468 a~i~~~~~~~i~~~k~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~qi~~e~fle~in-lL~~Gevp~Lf~~eE~~~i~  546 (567)
                      |||+|+++|||+++|+|+.++|+||||++|++||++|+++||||+|+||++|+|||+|| ||++|||||||++||+++|+
T Consensus      1667 a~i~~~~vfqi~i~k~Y~~~~f~eDLk~l~~~aG~~~~~~vFL~tD~qi~~e~FLE~IN~lL~sGEVP~LF~~dE~~~i~ 1746 (3245)
T 3vkg_A         1667 AWMNGLSIYTIKVNNNYKSSDFDDDLRMLLKRAGCKEEKICFIFDESNVLESSFLERMNTLLAGGEVPGLFEGEEFTALM 1746 (3245)
T ss_dssp             HHHTTCEEECCC----CCHHHHHHHHHHHHHHHHTSCCCEEEEEEGGGCSSTHHHHHHHHHHHHSCCTTSSCTTTHHHHH
T ss_pred             HHHhCCeeEEEeeeCCCCHHHHHHHHHHHHHHHhcCCCCEEEEEeccccccHHHHHHHHHHhccCCccccCCHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999 99999999999999999998


Q ss_pred             Hhhccccceeeee
Q psy12736        547 LLGVKNQATVFLF  559 (567)
Q Consensus       547 ~~~~~~~~~~~~~  559 (567)
                       +.+|++|+..++
T Consensus      1747 -~~~r~~a~~~g~ 1758 (3245)
T 3vkg_A         1747 -HACKETAQRNGL 1758 (3245)
T ss_dssp             -HHHHHHHHHTTC
T ss_pred             -HHHHHHHHhcCC
Confidence             999999887764

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A

Probab=100.00  E-value=1.1e-95  Score=906.63  Aligned_cols=478  Identities=19%  Similarity=0.276  Sum_probs=423.4

Q ss_pred             cchhhHHHHHHHHHHhccCccc---CCCC---CHHHHHHHHHHHHHHHhcCcCChhhHHHHHHHHHHHhCCCCCCCCccc
Q psy12736         52 GHLFTEIVQLCQMLQASLDEAN---LGSM---SPEELEAVFIQSVYASLGASLVAEAQTVFDAHVKNLTGFLNVVDSDDR  125 (567)
Q Consensus        52 ~~~~~lv~s~~~ll~~ll~~~~---~~~~---~~~~~e~~FifsliWs~Gg~l~~~~R~~Fd~~lr~~~~~~~~~d~~~~  125 (567)
                      .++.++|.++++++++++....   ....   ...+++.+|+||++||+||+++.++|.+||+|+|+.+..         
T Consensus      1134 ~~~~~~v~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~f~f~~iWs~g~~l~~~~R~~f~~~~~~~~~~--------- 1204 (2695)
T 4akg_A         1134 VRTFNKLETAVQLAVHLISSYRQWFQNLDDKSLKDVITLLIKRSLLYALAGDSTGESQRAFIQTINTYFGH--------- 1204 (2695)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHTCGGGTSSCHHHHHHHHHHHHHHHHHHHHHTTSCSHHHHHHHHHHHHHSCS---------
T ss_pred             chHHHHHHHHHHHHHHHHHHHHhhhccCCchhHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhhcc---------
Confidence            5678999999999998876421   1111   125789999999999999999999999999999998751         


Q ss_pred             ccccCcCCCCCCCeeEEEEECCCCceeeCcccccceeecC-CCCCccccccCcchhhHHHHHHHHHhcCCCeEEeccCCC
Q psy12736        126 LANYTQIPTAESSWYHYTLDRSKNAWVPWRHLVRSYVHDG-DKSFGDILVPTTDSTKLTWILSLMNEIKRPCIVVGDTGT  204 (567)
Q Consensus       126 ~~~~~~~P~~~~~vfDy~~d~~~~~w~~W~~~v~~~~~~~-~~~~~~i~VpT~dtvR~~~ll~~ll~~~~pvLl~GptGt  204 (567)
                          ..+|  .+++|||++|.++++|.+|.+.+|++.+++ +.++.+++|||+||+|+.|+++.+++.++||||+|||||
T Consensus      1205 ----~~~p--~~~~~dy~~~~~~~~w~~W~~~v~~~~~~~~~~~~~~iiVpT~DT~R~~~ll~~~l~~~~~vLL~GPpGt 1278 (2695)
T 4akg_A         1205 ----DSQE--LSDYSTIVIANDKLSFSSFCSEIPSVSLEAHEVMRPDIVIPTIDTIKHEKIFYDLLNSKRGIILCGPPGS 1278 (2695)
T ss_dssp             ----SSCC--CCSSCCCBCCSSSCCCBCCCCCCCCCCCCSGGGSCSSCCCCCHHHHHHHHHHHHHHHHTCEEEEECSTTS
T ss_pred             ----cCCC--CCCeeEEEEECCCCceeechhcCCCcccCccccCccceeEeccchHHHHHHHHHHHHCCCeEEEECCCCC
Confidence                1366  369999999999999999999999998766 478999999999999999999999999999999999999


Q ss_pred             CchhhHHHHHhccCCCcceeee------------------c----------CCC-CCceEEEEe----ec----------
Q psy12736        205 SKTATMMNFLRSLSPDKYLVIA------------------E----------LPP-TPAKFHYIF----NL----------  241 (567)
Q Consensus       205 GKT~~i~~~l~~l~~~~~~~~~------------------e----------gPp-~gkk~v~iF----Nl----------  241 (567)
                      |||+++++++.+..+.....++                  +          ||| .||++| +|    |+          
T Consensus      1279 GKT~la~~~l~~~~~~~~~~infsa~ts~~~~~~~i~~~~~~~~~~~g~~~~P~~~gk~~V-lFiDEinmp~~d~yg~q~ 1357 (2695)
T 4akg_A         1279 GKTMIMNNALRNSSLYDVVGINFSKDTTTEHILSALHRHTNYVTTSKGLTLLPKSDIKNLV-LFCDEINLPKLDKYGSQN 1357 (2695)
T ss_dssp             SHHHHHHHHHHSCSSCEEEEEECCTTCCHHHHHHHHHHHBCCEEETTTEEEEEBSSSSCEE-EEEETTTCSCCCSSSCCH
T ss_pred             CHHHHHHHHHhcCCCCceEEEEeecCCCHHHHHHHHHHHhhhccccCCccccCCCCCceEE-EEecccccccccccCchh
Confidence            9999999999887544333332                  1          453 789999 77    41          


Q ss_pred             -------------------------cchh------------------hhhhccccccccccCCHHHHHHHHHHhhhhhh-
Q psy12736        242 -------------------------RDLS------------------RIIQGLTATEKIIFNTKEMFVRAWRNEFTRTI-  277 (567)
Q Consensus       242 -------------------------~D~~------------------R~~rg~f~~~~~~~~s~~sl~~I~~~il~~~~-  277 (567)
                                               .|+.                  ||+| ||++++++.|+.+++.+||.+++...+ 
T Consensus      1358 ~lelLRq~le~gg~yd~~~~~~~~~~~i~lIaA~Npp~~gGR~~l~~rllR-rf~vi~i~~P~~~~l~~I~~~il~~~l~ 1436 (2695)
T 4akg_A         1358 VVLFLRQLMEKQGFWKTPENKWVTIERIHIVGACNPPTDPGRIPMSERFTR-HAAILYLGYPSGKSLSQIYEIYYKAIFK 1436 (2695)
T ss_dssp             HHHHHHHHHHTSSEECTTTCCEEEEESEEEEEEECCTTSTTCCCCCHHHHT-TEEEEECCCCTTTHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhcCCEEEcCCCcEEEecCEEEEEecCCCccCCCccCChhhhh-eeeEEEeCCCCHHHHHHHHHHHHHHHhc
Confidence                                     1111                  9999 999999999999999999999987432 


Q ss_pred             -------------cChHHHHHHHHHhCCCCCCccccccChhhHHHHHhhhhccccc-ccCCHHHHHHHHhhhhchhhccc
Q psy12736        278 -------------CDRLNTDELVIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKI-IFNTKEMFVRAWRNEFTRTICDR  343 (567)
Q Consensus       278 -------------~~~i~~y~~i~~~llptp~k~HY~FnlRDlsrv~qGi~~~~~~-~~~~~~~l~rLw~hE~~RVF~DR  343 (567)
                                   ..++++|+++++.|+|+ +|+||+||||||+||+||++++.+. .+.++..++|||+|||+|||+||
T Consensus      1437 ~~~~v~~~~~~lv~ati~~y~~v~~~~~~~-~k~HY~FnlRDLsrv~qGll~~~~~~~~~~~~~l~rLw~HE~~Rvf~DR 1515 (2695)
T 4akg_A         1437 LVPEFRSYTEPFARASVHLYNECKARYSTG-LQSHYLFSPRELTRLVRGVYTAINTGPRQTLRSLIRLWAYEAWRIFADR 1515 (2695)
T ss_dssp             SSGGGGGGHHHHHHHHHHHHHHHHHHSCTT-TCTTCCCCHHHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHTTT
T ss_pred             cCHHHHHHHHHHHHHHHHHHHHHHHHcCCc-cCCCcccCHHHHHHHHHHHHhcCchhhhccHHHHHHHHHHHHHHHHHHh
Confidence                         22389999999999875 8999999999999999999998543 57889999999999999999999


Q ss_pred             cCChhhHHHHHHHHHHHHHhhCCcch-hhhccCCceeccccccccCCCCcccccccChHHHHHHHHHHHHHHhhhhcccC
Q psy12736        344 LNTDEDLSLMSGHIADSVKRNFPQDV-NVVMRDPLLFGDFRNALKETEPRYYEDLLDYSAVGHLFTEILEEYNESAGAKA  422 (567)
Q Consensus       344 Li~~eDr~~f~~~l~~~~~~~f~~~~-~~~~~~~llf~d~~~~~~~~~~~~Y~~v~d~~~l~~~~~~~l~~yn~~~~~~~  422 (567)
                      |++++||+||.+++.++++++|+... +....+|++||||++.       .|+++.+ +++++.++++|++||++   ..
T Consensus      1516 Lv~~~D~~~f~~~l~~~~~~~f~~~~~~~~~~~~~~f~df~~~-------~Y~~v~~-~~l~~~l~~~l~~yn~~---~~ 1584 (2695)
T 4akg_A         1516 LVGVKEKNSFEQLLYETVDKYLPNQDLGNISSTSLLFSGLLSL-------DFKEVNK-TDLVNFIEERFKTFCDE---EL 1584 (2695)
T ss_dssp             CCSSHHHHHHHHHHHHHHHHHSCCSCCCCCSTTTCCEESSSSS-------SCEECCH-HHHHHHHHHHHHHHHHH---SC
T ss_pred             cCCHHHHHHHHHHHHHHHHHHhcccchhhhccCCceeeecCCC-------cceecCH-HHHHHHHHHHHHHHHhh---cC
Confidence            99999999999999999999997542 3345678999999853       4999865 78999999999999998   78


Q ss_pred             cceEEecHHHHHHHHHHHHHHhcCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCChhhHHHHHHHHHHHhcc
Q psy12736        423 RLDLVLFEDAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGV  502 (567)
Q Consensus       423 ~~~lvlf~dai~hi~ri~RvL~~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~~~~f~edLk~~~~~ag~  502 (567)
                      +|+||+|+||++||+||+|||++|+||+||||+||||||||+||||||+|+++|||+++|+|+.++|++|||++|++||+
T Consensus      1585 ~m~LVlF~dai~Hi~RI~Ril~~p~G~~LLvGvgGsGkqSltrLaa~i~~~~~fqi~~~~~Y~~~~f~eDLk~l~~~aG~ 1664 (2695)
T 4akg_A         1585 EVPMVIHESMVDHILRIDRALKQVQGHMMLIGASRTGKTILTRFVAWLNGLKIVQPKIHRHSNLSDFDMILKKAISDCSL 1664 (2695)
T ss_dssp             CCCCCCCHHHHHHHHHHHHHHHSSSEEEEEECTTTSCHHHHHHHHHHHTTCEEECCCCCTTCCHHHHHHHHHHHHHHHHH
T ss_pred             CceeeeHHHHHHHHHHHHHHHcCCCCCEEEECCCCCcHHHHHHHHHHHhCCeeEEEEeeCCCCHHHHHHHHHHHHHHcCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCcEEEEEecCcccchhhhHHhh-hccCCccccCcchhHHHHHHHhhccccceeeee
Q psy12736        503 KNQATVFLFTAAEIVEEGYQVFTI-QLSRGYNEASFKEDLKSLYNLLGVKNQATVFLF  559 (567)
Q Consensus       503 ~~~~~vfl~~d~qi~~e~fle~in-lL~~Gevp~Lf~~eE~~~i~~~~~~~~~~~~~~  559 (567)
                      +|+++||+++|+||++|+|||+|| ||++|||||||++||+++|+ +.+|++|+..++
T Consensus      1665 ~~~~~vFL~tD~qi~~e~FLE~IN~lL~sGEVP~LF~~dE~~~i~-~~~r~~~~~~g~ 1721 (2695)
T 4akg_A         1665 KESRTCLIIDESNILETAFLERMNTLLANADIPDLFQGEEYDKLL-NNLRNKTRSLGL 1721 (2695)
T ss_dssp             SCCCEEEEEETTTCCSHHHHHHHHHHHHSSSCTTTSCTHHHHHHH-HHHHHHHHHHTC
T ss_pred             CCCceEEEEeccccccHHHHHHHHHHHccCCCCCCCCHHHHHHHH-HHhHHHHHhcCC
Confidence            999999999999999999999999 99999999999999999998 999999887766

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A

Probab=99.37  E-value=1.1e-11  Score=155.86  Aligned_cols=334  Identities=16%  Similarity=0.173  Sum_probs=202.6

Q ss_pred             ccccccCcchhhHHHHHHHHHhcCCCeEEeccCCCCchhhHHHHHhccCCCcceeee-----------------------
Q psy12736        170 GDILVPTTDSTKLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLSPDKYLVIA-----------------------  226 (567)
Q Consensus       170 ~~i~VpT~dtvR~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~~~~~~~~~-----------------------  226 (567)
                      ..-+|-|+-|-|.-.-+-.-+..+.|+++.||+|||||.+++++-+.+...- +.+|                       
T Consensus       622 ~~rlViTPltdr~~~tl~~Al~~~~~~~l~GpaGtGKTe~vk~LA~~lg~~~-v~~nc~e~ld~~~lg~~~~g~~~~Gaw  700 (2695)
T 4akg_A          622 PERLIYTPLLLIGFATLTDSLHQKYGGCFFGPAGTGKTETVKAFGQNLGRVV-VVFNCDDSFDYQVLSRLLVGITQIGAW  700 (2695)
T ss_dssp             CCCCCCCHHHHHHHHHHHHHHHTTCEEEEECCTTSCHHHHHHHHHHTTTCCC-EEEETTSSCCHHHHHHHHHHHHHHTCE
T ss_pred             CCcceecHHHHHHHHHHHHHHHhCCCCcccCCCCCCcHHHHHHHHHHhCCcE-EEEECCCCCChhHhhHHHHHHHhcCCE
Confidence            3458999999999999999999999999999999999999999877654322 1121                       


Q ss_pred             ----c-----------------------------CCCCC------ceEEEEe---ec-----cchh-hhhhccccccccc
Q psy12736        227 ----E-----------------------------LPPTP------AKFHYIF---NL-----RDLS-RIIQGLTATEKII  258 (567)
Q Consensus       227 ----e-----------------------------gPp~g------kk~v~iF---Nl-----~D~~-R~~rg~f~~~~~~  258 (567)
                          |                             -+-.|      ..+. +|   |.     +++. -+.+ +|..+++.
T Consensus       701 ~~~DE~nr~~~evLs~l~~~l~~i~~al~~~~~~i~~~g~~i~l~~~~~-vfiT~NPgy~g~~eLP~~Lk~-~Fr~v~m~  778 (2695)
T 4akg_A          701 GCFDEFNRLDEKVLSAVSANIQQIQNGLQVGKSHITLLEEETPLSPHTA-VFITLNPGYNGRSELPENLKK-SFREFSMK  778 (2695)
T ss_dssp             EEEETTTSSCHHHHHHHHHHHHHHHHHHHHTCSEEECSSSEEECCTTCE-EEEEECCCSSSSCCCCHHHHT-TEEEEECC
T ss_pred             eeehhhhhcChHHHHHHHHHHHHHHHHHHcCCcEEeeCCcEEecCCCce-EEEEeCCCccCcccccHHHHh-heEEEEee
Confidence                0                             01111      1121 22   41     1221 3444 78889999


Q ss_pred             cCCHHHHHHHHHHhh----hhhhcCh-HHHHHHHHHhCCCCCCccccccChhhHHHHHhhhhcccccccCCHHHHHHHHh
Q psy12736        259 FNTKEMFVRAWRNEF----TRTICDR-LNTDELVIAELPPTPAKFHYIFNLRDLSRIIQGLTATEKIIFNTKEMFVRAWR  333 (567)
Q Consensus       259 ~~s~~sl~~I~~~il----~~~~~~~-i~~y~~i~~~llptp~k~HY~FnlRDlsrv~qGi~~~~~~~~~~~~~l~rLw~  333 (567)
                      .|+.+.+..|.-.-.    .+.++.+ +.+|+.+..++-   .+.||.|+||.+.+|+...-........+...++|...
T Consensus       779 ~Pd~~~i~ei~l~s~Gf~~a~~la~kiv~~~~l~~e~ls---~q~hydfglRalksvL~~ag~lkr~~~~e~~~l~~al~  855 (2695)
T 4akg_A          779 SPQSGTIAEMILQIMGFEDSKSLASKIVHFLELLSSKCS---SMNHYHFGLRTLKGVLRNCSPLISEFGEGEKTVVESLK  855 (2695)
T ss_dssp             CCCHHHHHHHHHHHHHCSSHHHHHHHHHHHHHHHHHHSC---CCTTCCCSHHHHHHHHHHHHHHHHHSCSSHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHHhC---cCCcccccHHHHHHHHHHHHHhhccCCcHHHHHHHHHH
Confidence            999998887643211    1233333 678888887753   47899999999998886432221111223334444322


Q ss_pred             hhhchhhccccCChhhHHHHHHHHHHHHHhhCCcchhhhccCCceeccccccccCCCCcccccccChHHHHHHHHHHHHH
Q psy12736        334 NEFTRTICDRLNTDEDLSLMSGHIADSVKRNFPQDVNVVMRDPLLFGDFRNALKETEPRYYEDLLDYSAVGHLFTEILEE  413 (567)
Q Consensus       334 hE~~RVF~DRLi~~eDr~~f~~~l~~~~~~~f~~~~~~~~~~~llf~d~~~~~~~~~~~~Y~~v~d~~~l~~~~~~~l~~  413 (567)
                          .+..-+++ .+|...|..++.++    |+..     .               .+.      ++..+.+.+.+.+.+
T Consensus       856 ----~~~lpk~~-~~D~~lf~~li~dl----Fp~~-----~---------------~~~------~~~~l~~~i~~~~~~  900 (2695)
T 4akg_A          856 ----RVILPSLG-DTDELVFKDELSKI----FDSA-----G---------------TPL------NSKAIVQCLKDAGQR  900 (2695)
T ss_dssp             ----HHTGGGCC-HHHHHHHHHHHHHH----CCCC-----S---------------CCS------SSSHHHHHHHHHHHH
T ss_pred             ----HhccccCc-hhhHHHHHHHHHHh----CCCC-----C---------------CCC------ChHHHHHHHHHHHHH
Confidence                24445553 56888887766543    3210     0               011      222344444444433


Q ss_pred             HhhhhcccCcceEEecHHHHHHHHHHHHHHhcCCCceEEeccCCCcHhHHHHHHHHH----cCCe--EEEEEecCC----
Q psy12736        414 YNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVRLASFA----AGYQ--VFTIQLSRG----  483 (567)
Q Consensus       414 yn~~~~~~~~~~lvlf~dai~hi~ri~RvL~~p~Gh~LLvG~~GsGr~sl~rlaa~i----~~~~--~~~i~~~k~----  483 (567)
                      .+          +...+..+..+..+.+.+.. +-.+||||++||||+++.+..|..    .+.+  ++.|+. |.    
T Consensus       901 ~~----------l~~~~~~~~K~~ql~e~~~~-r~gvmlvGptgsGKTt~~~~La~al~~l~~~~~~~~~inp-k~~t~~  968 (2695)
T 4akg_A          901 SG----------FSMSEEFLKKCMQFYYMQKT-QQALILVGKAGCGKTATWKTVIDAMAIFDGHANVVYVIDT-KVLTKE  968 (2695)
T ss_dssp             HT----------CCCCHHHHHHHHHHHHHHHH-CSEEEEECSTTSSHHHHHHHHHHHHHHHTCCEEEEEEECT-TTSCHH
T ss_pred             cC----------CcccHHHHHHHHHHHHHHHh-cceEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEeCC-CCCCHH
Confidence            22          33446778888888888766 444899999999999999977654    2433  333432 21    


Q ss_pred             --CC-----hhhHHHHHH-HHHHHhccC-----CC-cEEEEEecCcccchhhhHHhh-hc--------cCCc-------c
Q psy12736        484 --YN-----EASFKEDLK-SLYNLLGVK-----NQ-ATVFLFTAAEIVEEGYQVFTI-QL--------SRGY-------N  533 (567)
Q Consensus       484 --y~-----~~~f~edLk-~~~~~ag~~-----~~-~~vfl~~d~qi~~e~fle~in-lL--------~~Ge-------v  533 (567)
                        ||     ..+|.|.+- .+++++...     .+ ...++++  +.++..++|.+| +|        .+||       +
T Consensus       969 el~G~~d~~t~eW~DGils~~~R~~~~~~~~~~~~~~~WivfD--G~vD~~WIE~LNsVLDDNk~L~L~ngErI~l~~~~ 1046 (2695)
T 4akg_A          969 SLYGSMLKATLEWRDGLFTSILRRVNDDITGTFKNSRIWVVFD--SDLDPEYVEAMNSVLDDNKILTLPNGERLPIPPNF 1046 (2695)
T ss_dssp             HHTTEECTTTCCEECCSHHHHHHHHHTCCCSSCSSEEEEEEEC--SCCCHHHHHTTHHHHSTTCEEECSSSCEEECCSSC
T ss_pred             HhcceecCCCCeEecChHHHHHHHHHhccccccCCCCeEEEEC--CCCCHHHHHHHHHHhcCCCccccCCCCEEecCCCc
Confidence              22     247776644 344443211     12 4556664  567999999999 75        6676       2


Q ss_pred             ccCcchhHHHHHHHhhccccceeee
Q psy12736        534 EASFKEDLKSLYNLLGVKNQATVFL  558 (567)
Q Consensus       534 p~Lf~~eE~~~i~~~~~~~~~~~~~  558 (567)
                      .-+|+.+++...--|.+..+++++.
T Consensus      1047 ~llFEv~dL~~ASPATVSRcGmvy~ 1071 (2695)
T 4akg_A         1047 RILFETDNLDHTTPATITRCGLLWF 1071 (2695)
T ss_dssp             EEEEEESCCTTSCHHHHHHSEEEEC
T ss_pred             EEEEEecccccCCccceeeeeEEEe
Confidence            2367777777655566666666654

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=99.13  E-value=8.9e-10  Score=139.41  Aligned_cols=407  Identities=17%  Similarity=0.222  Sum_probs=229.6

Q ss_pred             HHHHHHHHhcCcCChhhHHHHHHHHHH------H----hCCCCCCCCcccccccCcCCCCC--CCeeEEEEECCCC----
Q psy12736         86 FIQSVYASLGASLVAEAQTVFDAHVKN------L----TGFLNVVDSDDRLANYTQIPTAE--SSWYHYTLDRSKN----  149 (567)
Q Consensus        86 FifsliWs~Gg~l~~~~R~~Fd~~lr~------~----~~~~~~~d~~~~~~~~~~~P~~~--~~vfDy~~d~~~~----  149 (567)
                      .+-.++-.+-+.++...|.+....+-.      .    .......           -+.+-  -.-.-||++.+..    
T Consensus       492 ~l~~l~~~v~~~l~~~~R~kl~~Lit~~VH~RDvv~~L~~~~~v~-----------~~~dF~W~~qlRyy~~~~~~~~~~  560 (3245)
T 3vkg_A          492 ILNNLADSVLQDLSAQKRKKFEHLITELVHQRDVVRQLQKCKNLT-----------GNKDFDWLYHMRYYYDATQENVLH  560 (3245)
T ss_dssp             HHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHTCCSCC-----------STTCHHHHTSEEEEECSSSSSSGG
T ss_pred             HHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC-----------CcchhHHHhhhheeeccccCCcCc
Confidence            344566667778888888887665532      1    1101111           01000  0123467766432    


Q ss_pred             -ceeeCcccccceeecCC-CCCccccccCcchhhHHHHHHHHHhcCCCeEEeccCCCCchhhHHHHHhccCCCcceeee-
Q psy12736        150 -AWVPWRHLVRSYVHDGD-KSFGDILVPTTDSTKLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLSPDKYLVIA-  226 (567)
Q Consensus       150 -~w~~W~~~v~~~~~~~~-~~~~~i~VpT~dtvR~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~~~~~~~~~-  226 (567)
                       .++.-.+.  .+.|.-+ ..-..-+|.|+-|-|.---+-.-+..+.+..+.||+|||||.+++++-+.+-..-++ +| 
T Consensus       561 ~~~v~~~~~--~f~YgyEYlG~~~rLViTPLTdrcy~tl~~Al~~~~gg~~~GPaGtGKTet~k~La~~lgr~~~v-fnC  637 (3245)
T 3vkg_A          561 KLVIHMANA--TFYYGFEYLGIGERLVQTPLTDRCYLTLTQALESRMGGNPFGPAGTGKTETVKALGSQLGRFVLV-FCC  637 (3245)
T ss_dssp             GEEEEETTE--EEECCCCCCCSCCCCCCCHHHHHHHHHHHHHHHTTCEEEEECSTTSSHHHHHHHHHHHTTCCEEE-EEC
T ss_pred             eEEEEEcCc--eecCccccCCCCCCCcCChHHHHHHHHHHHHHHhcCCCCCCCCCCCCHHHHHHHHHHHhCCeEEE-EeC
Confidence             34443322  2333322 233456899999999998888889999999999999999999999987766433221 11 


Q ss_pred             --------------------------c-------------------------C----CCC-Cc------eEEEEe---ec
Q psy12736        227 --------------------------E-------------------------L----PPT-PA------KFHYIF---NL  241 (567)
Q Consensus       227 --------------------------e-------------------------g----Pp~-gk------k~v~iF---Nl  241 (567)
                                                |                         +    .-. |+      .+- +|   |-
T Consensus       638 ~~~~d~~~~g~i~~G~~~~GaW~cfDEfNrl~~~vLSvv~~qi~~I~~a~~~~~~~~~~~~G~~i~l~~~~~-vfiTmNp  716 (3245)
T 3vkg_A          638 DEGFDLQAMSRIFVGLCQCGAWGCFDEFNRLEERILSAVSQQIQTIQVALKENSKEVELLGGKNISLHQDMG-IFVTMNP  716 (3245)
T ss_dssp             SSCCCHHHHHHHHHHHHHHTCEEEEETTTSSCHHHHHHHHHHHHHHHHHHHHTCSEECCC---CEECCTTCE-EEECBCC
T ss_pred             CCCCCHHHHHHHHhhHhhcCcEEEehhhhcCCHHHHHHHHHHHHHHHHHHHcCCCeEEecCCCEEeecCCeE-EEEEeCC
Confidence                                      0                         0    001 21      122 22   41


Q ss_pred             -----cchh-hhhhccccccccccCCHHHHHHHHHHh--hh--hhhcCh-HHHHHHHHHhCCCCCCccccccChhhHHHH
Q psy12736        242 -----RDLS-RIIQGLTATEKIIFNTKEMFVRAWRNE--FT--RTICDR-LNTDELVIAELPPTPAKFHYIFNLRDLSRI  310 (567)
Q Consensus       242 -----~D~~-R~~rg~f~~~~~~~~s~~sl~~I~~~i--l~--~~~~~~-i~~y~~i~~~llptp~k~HY~FnlRDlsrv  310 (567)
                           .++. -+.+ +|..+.+..|+.+.+..|--.-  +.  +.++.+ +.+|+-+.+++ .  ...||.|.||-+..|
T Consensus       717 gY~gr~eLP~nLk~-lFr~v~m~~Pd~~~i~ei~L~s~Gf~~a~~La~k~~~~~~l~~e~L-S--~Q~HYDfGLRalKsV  792 (3245)
T 3vkg_A          717 GYAGRSNLPDNLKK-LFRSMAMIKPDREMIAQVMLYSQGFKTAEVLAGKIVPLFKLCQEQL-S--AQSHYDFGLRALKSV  792 (3245)
T ss_dssp             CGGGCCCSCHHHHT-TEEEEECCSCCHHHHHHHHHHTTTCSCHHHHHHHHHHHHHHHHHSS-C--CCTTCCCSHHHHHHH
T ss_pred             CccCcccChHHHHh-hcEEEEEeCCCHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHHHh-C--CCCCCCCChHHHHHH
Confidence                 1111 3444 7888999999998888764221  11  234444 56666555554 3  467999999999988


Q ss_pred             Hhhh---hccccccc----CC---------------HHHHHHHHhhhhchhhccccCChhhHHHHHHHHHHHHHhhCCcc
Q psy12736        311 IQGL---TATEKIIF----NT---------------KEMFVRAWRNEFTRTICDRLNTDEDLSLMSGHIADSVKRNFPQD  368 (567)
Q Consensus       311 ~qGi---~~~~~~~~----~~---------------~~~l~rLw~hE~~RVF~DRLi~~eDr~~f~~~l~~~~~~~f~~~  368 (567)
                      +...   .+......    ++               ..-++|...    .+-.-+|+. +|...|..++.++    |+. 
T Consensus       793 L~~AG~lkr~~~~~~~~~~~~~~~~~~~~~~~~~~E~~illralr----d~nlpKl~~-~D~plF~~li~Dl----FPg-  862 (3245)
T 3vkg_A          793 LVSAGGIKRKCQPPQLPPITDAESKTKADQIYCQYEIGVLLNSIN----DTMIPKLVA-DDIPLIQSLLLDV----FPG-  862 (3245)
T ss_dssp             HHHHHHHHHSCCCC------CHHHHHHHHHHHHHHHHHHHHHHHH----HTTTTTSCG-GGHHHHHHHHHHH----STT-
T ss_pred             HHHHHHHHHhhhhhcccccccccccccccccccccHHHHHHHHHH----HhccCCCch-hhHHHHHHHHHHh----CCC-
Confidence            7532   12221000    11               001122111    122233322 3555555544433    211 


Q ss_pred             hhhhccCCceeccccccccCCCCcccccccChHHHHHHHHHHHHHHhhhhcccCcceEEecHHHHHHHHHHHHHHhcCCC
Q psy12736        369 VNVVMRDPLLFGDFRNALKETEPRYYEDLLDYSAVGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLSRG  448 (567)
Q Consensus       369 ~~~~~~~~llf~d~~~~~~~~~~~~Y~~v~d~~~l~~~~~~~l~~yn~~~~~~~~~~lvlf~dai~hi~ri~RvL~~p~G  448 (567)
                                   .    .  .+     -.++..+.+.+++.+.+          ++|...+..+.-+..+.-.+..-.|
T Consensus       863 -------------v----~--~~-----~~~~~~l~~ai~~~~~~----------~~L~~~~~~v~KviQLye~~~vRhG  908 (3245)
T 3vkg_A          863 -------------S----Q--LQ-----PIQMDQLRKKIQEIAKQ----------RHLVTKQEWVEKILQLHQILNINHG  908 (3245)
T ss_dssp             -------------C----C--CC-----CCCCHHHHHHHHHHHHH----------TTCCCCHHHHHHHHHHHHHHTTCSE
T ss_pred             -------------C----C--CC-----CCchHHHHHHHHHHHHH----------cCCccCHHHHHHHHHHHHHHHheee
Confidence                         0    0  01     12445555555555443          3455556778888888888776444


Q ss_pred             ceEEeccCCCcHhHHHHHHHHH-c---CCeE--EEEEecC-----CC---C--hhhHHHHHHHHH-HHhc-----cCCCc
Q psy12736        449 HCMVVGVEGGGKRSLVRLASFA-A---GYQV--FTIQLSR-----GY---N--EASFKEDLKSLY-NLLG-----VKNQA  506 (567)
Q Consensus       449 h~LLvG~~GsGr~sl~rlaa~i-~---~~~~--~~i~~~k-----~y---~--~~~f~edLk~~~-~~ag-----~~~~~  506 (567)
                       ++|||++||||+++.+.-+.. .   +.+.  +.|+...     =|   +  ..||.|.+-..+ +++.     -..++
T Consensus       909 -vmlVGp~gsGKTt~~~~L~~al~~l~~~~~~~~~iNPKait~~eLyG~~d~~T~EW~DGvls~i~R~~~~~~~~~~~~~  987 (3245)
T 3vkg_A          909 -VMMVGPSGGGKTTSWEVYLEAIEQVDNIKSEAHVMDPKAITKDQLFGSLDLTTREWTDGLFTATLRRIIDNVRGESTKR  987 (3245)
T ss_dssp             -EEEECSSSSSHHHHHHHHHHHHTTTTTCEEEEEEECTTTSCHHHHHEEECTTTCCEEECHHHHHHHHHHTTSSSGGGEE
T ss_pred             -EEEECCCCCCHHHHHHHHHHHHHHhhCCCceEEEECCCCCchhhhceeecCCCCeeeccHHHHHHHHHHhcccCCCCCc
Confidence             899999999999998865443 3   3333  2333211     02   2  357887765444 4432     12234


Q ss_pred             EEEEEecCcccchhhhHHhh-hc--------cCCcc-------ccCcchhHHHHHHHhhccccceeee
Q psy12736        507 TVFLFTAAEIVEEGYQVFTI-QL--------SRGYN-------EASFKEDLKSLYNLLGVKNQATVFL  558 (567)
Q Consensus       507 ~vfl~~d~qi~~e~fle~in-lL--------~~Gev-------p~Lf~~eE~~~i~~~~~~~~~~~~~  558 (567)
                      ..++|+ -. +|..+.|.+| +|        .+||.       .-+|+.+++..---|.+..+++++.
T Consensus       988 ~WIvfD-Gp-VDa~WIEnlNsVLDDNK~LtL~nGErI~l~~~~~liFEv~dL~~ASPATVSRcGmVy~ 1053 (3245)
T 3vkg_A          988 HWIIFD-GD-VDPEWVENLNSLLDDNKLLTLPNGERLALPNNVRVMFEVQDLKYATLATISRCGMVWF 1053 (3245)
T ss_dssp             EEEEEE-SC-CCHHHHTTTHHHHSSSCEECCTTSCCEECCTTEEEEEEESCCTTCCHHHHHTSEEEEC
T ss_pred             eEEEEC-CC-CCHHHHHHHHHHhcCCCeeecCCCCeeecCCCCEEEEEeccccccChhhheeeeEEEE
Confidence            566664 33 6889999999 74        78882       2378888888766678888888874

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=98.86  E-value=5.8e-08  Score=111.09  Aligned_cols=104  Identities=19%  Similarity=0.162  Sum_probs=73.4

Q ss_pred             EEecHHHHHHHHHHHHHHh-------cCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCC---------------
Q psy12736        426 LVLFEDAREHLTRIHRALR-------LSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRG---------------  483 (567)
Q Consensus       426 lvlf~dai~hi~ri~RvL~-------~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~---------------  483 (567)
                      ++-.+++++++.+..+..+       .|.||+||.|++|+||++++|..|...+..++.++.+.-               
T Consensus       460 v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l~~~~~~i~~s~~~~~~~~~~l~g~~~g  539 (758)
T 1r6b_X          460 VFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVSRLIGAPPG  539 (758)
T ss_dssp             SCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHTCEEEEEEGGGCSSSSCCSSSCCCCSC
T ss_pred             ccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCCEEEEechhhcchhhHhhhcCCCCC
Confidence            4455688888887766554       577899999999999999999999988999998876532               


Q ss_pred             CChhhHHHHHHHHHHHhccCCCcEEEEEecCcccchhhhHHhh-hccCCcc
Q psy12736        484 YNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEGYQVFTI-QLSRGYN  533 (567)
Q Consensus       484 y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~qi~~e~fle~in-lL~~Gev  533 (567)
                      |.-.+-...+...+.+    ....|++++|-+-..+..++.+. +|..|.+
T Consensus       540 ~~g~~~~~~l~~~~~~----~~~~vl~lDEi~~~~~~~~~~Ll~~le~~~~  586 (758)
T 1r6b_X          540 YVGFDQGGLLTDAVIK----HPHAVLLLDEIEKAHPDVFNILLQVMDNGTL  586 (758)
T ss_dssp             SHHHHHTTHHHHHHHH----CSSEEEEEETGGGSCHHHHHHHHHHHHHSEE
T ss_pred             CcCccccchHHHHHHh----CCCcEEEEeCccccCHHHHHHHHHHhcCcEE
Confidence            1110001123333333    33678889988877888888777 8877754

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=98.69  E-value=1.1e-07  Score=108.85  Aligned_cols=103  Identities=18%  Similarity=0.186  Sum_probs=71.4

Q ss_pred             EEecHHHHHHHHHHHHHHh-------cCCCceEEeccCCCcHhHHHHHHHHHc---CCeEEEEEecCCC---ChhhHHHH
Q psy12736        426 LVLFEDAREHLTRIHRALR-------LSRGHCMVVGVEGGGKRSLVRLASFAA---GYQVFTIQLSRGY---NEASFKED  492 (567)
Q Consensus       426 lvlf~dai~hi~ri~RvL~-------~p~Gh~LLvG~~GsGr~sl~rlaa~i~---~~~~~~i~~~k~y---~~~~f~ed  492 (567)
                      ++=.+++++.+.+..+..+       .|.|++||.|++|+||+++++..|...   +..++.++.+.-.   ...  ...
T Consensus       493 viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l~~~~~~~i~i~~s~~~~~~~~~--~~~  570 (758)
T 3pxi_A          493 VIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESIFGDEESMIRIDMSEYMEKHSTS--GGQ  570 (758)
T ss_dssp             SCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHHHSCTTCEEEEEGGGGCSSCCCC-----
T ss_pred             CcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCcceEEEechhcccccccc--cch
Confidence            4445678888877766554       456789999999999999999888775   6778888765321   111  112


Q ss_pred             HHHHHHHhccCCCcEEEEEecCcccchhhhHHhh-hccCCccc
Q psy12736        493 LKSLYNLLGVKNQATVFLFTAAEIVEEGYQVFTI-QLSRGYNE  534 (567)
Q Consensus       493 Lk~~~~~ag~~~~~~vfl~~d~qi~~e~fle~in-lL~~Gevp  534 (567)
                      +...+..    ....|++++|-+-..+.....+. +|..|.+.
T Consensus       571 l~~~~~~----~~~~vl~lDEi~~~~~~~~~~Ll~~le~g~~~  609 (758)
T 3pxi_A          571 LTEKVRR----KPYSVVLLDAIEKAHPDVFNILLQVLEDGRLT  609 (758)
T ss_dssp             CHHHHHH----CSSSEEEEECGGGSCHHHHHHHHHHHHHSBCC
T ss_pred             hhHHHHh----CCCeEEEEeCccccCHHHHHHHHHHhccCeEE
Confidence            2223332    23458888988888888888888 88887754

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=98.57  E-value=7e-07  Score=103.43  Aligned_cols=103  Identities=17%  Similarity=0.195  Sum_probs=67.3

Q ss_pred             EEecHHHHHHHHHHHHHHh-------cCCCceEEeccCCCcHhHHHHHHHHHc---CCeEEEEEecCCCC---hhhHH--
Q psy12736        426 LVLFEDAREHLTRIHRALR-------LSRGHCMVVGVEGGGKRSLVRLASFAA---GYQVFTIQLSRGYN---EASFK--  490 (567)
Q Consensus       426 lvlf~dai~hi~ri~RvL~-------~p~Gh~LLvG~~GsGr~sl~rlaa~i~---~~~~~~i~~~k~y~---~~~f~--  490 (567)
                      ++=-..+++.+.+..+..+       .|.|++||.|++|+||++++|..+...   +..++.+..+.--.   .+++.  
T Consensus       560 viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~~~~~~~~i~i~~~~~~~~~~~s~l~g~  639 (854)
T 1qvr_A          560 VVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAVSRLIGA  639 (854)
T ss_dssp             SCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSSGGGEEEECTTTCCSSGGGGGC---
T ss_pred             cCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCCcEEEEechhccchhHHHHHcCC
Confidence            3445677888777655543       345899999999999999999888776   66788876542111   11100  


Q ss_pred             ----------HHHHHHHHHhccCCCcEEEEEecCcccchhhhHHhh-hccCCc
Q psy12736        491 ----------EDLKSLYNLLGVKNQATVFLFTAAEIVEEGYQVFTI-QLSRGY  532 (567)
Q Consensus       491 ----------edLk~~~~~ag~~~~~~vfl~~d~qi~~e~fle~in-lL~~Ge  532 (567)
                                ..+...+..    ....|++++|-+-.++..+..+. +|..|.
T Consensus       640 ~~~~~G~~~~g~l~~~~~~----~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~  688 (854)
T 1qvr_A          640 PPGYVGYEEGGQLTEAVRR----RPYSVILFDEIEKAHPDVFNILLQILDDGR  688 (854)
T ss_dssp             -----------CHHHHHHH----CSSEEEEESSGGGSCHHHHHHHHHHHTTTE
T ss_pred             CCCCcCccccchHHHHHHh----CCCeEEEEecccccCHHHHHHHHHHhccCc
Confidence                      122222222    23468888888777788888787 888775

>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=98.28  E-value=5.1e-07  Score=102.72  Aligned_cols=68  Identities=15%  Similarity=0.311  Sum_probs=53.9

Q ss_pred             cCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEE----ecCCCChhhHHHHHHHHHHHhccCCCcEEEEEecCc
Q psy12736        445 LSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQ----LSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAE  515 (567)
Q Consensus       445 ~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~----~~k~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~q  515 (567)
                      .|...+||.|++|+||+.+++..|..++..++.+.    +++-.+.++  ..++.++..|- +..|.|++|++-+
T Consensus       509 ~~~~gvLl~GPPGtGKT~lAkaiA~e~~~~f~~v~~~~l~s~~vGese--~~vr~lF~~Ar-~~~P~IifiDEiD  580 (806)
T 3cf2_A          509 TPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESE--ANVREIFDKAR-QAAPCVLFFDELD  580 (806)
T ss_dssp             CCCSCCEEESSTTSSHHHHHHHHHHTTTCEEEECCHHHHHTTTCSSCH--HHHHHHHHHHH-TTCSEEEECSCGG
T ss_pred             CCCceEEEecCCCCCchHHHHHHHHHhCCceEEeccchhhccccchHH--HHHHHHHHHHH-HcCCceeechhhh
Confidence            34556999999999999999999999999999885    344445554  56888998883 5678888887643

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=97.60  E-value=0.00029  Score=64.59  Aligned_cols=110  Identities=15%  Similarity=0.209  Sum_probs=73.5

Q ss_pred             EEecHHHHHHHHHHHHHHhc-CCCceEEeccCCCcHhHHHHHHHHHc----------CCeEEEEEecCC----CChhhHH
Q psy12736        426 LVLFEDAREHLTRIHRALRL-SRGHCMVVGVEGGGKRSLVRLASFAA----------GYQVFTIQLSRG----YNEASFK  490 (567)
Q Consensus       426 lvlf~dai~hi~ri~RvL~~-p~Gh~LLvG~~GsGr~sl~rlaa~i~----------~~~~~~i~~~k~----y~~~~f~  490 (567)
                      ++--.+.++.+.   +.+.. ..++++|+|++|+||+++++..+...          +..++.+.....    -...++.
T Consensus        24 ~~g~~~~~~~l~---~~l~~~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  100 (195)
T 1jbk_A           24 VIGRDEEIRRTI---QVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYRGEFE  100 (195)
T ss_dssp             CCSCHHHHHHHH---HHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHTTTCSHHHHH
T ss_pred             cccchHHHHHHH---HHHhcCCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCcEEEeeHHHHhccCCccccHH
Confidence            333344444443   33433 35789999999999999998776653          677877764421    1234566


Q ss_pred             HHHHHHHHHhccCCCcEEEEEecCcccc--------hhhhHHhh-hccCCccccCcc
Q psy12736        491 EDLKSLYNLLGVKNQATVFLFTAAEIVE--------EGYQVFTI-QLSRGYNEASFK  538 (567)
Q Consensus       491 edLk~~~~~ag~~~~~~vfl~~d~qi~~--------e~fle~in-lL~~Gevp~Lf~  538 (567)
                      ..++.++..+...+++.+++++|.+-..        ....+.++ ++..+.+.-+..
T Consensus       101 ~~~~~~~~~~~~~~~~~vl~iDe~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~i~~  157 (195)
T 1jbk_A          101 ERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALARGELHCVGA  157 (195)
T ss_dssp             HHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHHTTSCCEEEE
T ss_pred             HHHHHHHHHHhhcCCCeEEEEeCHHHHhccCcccchHHHHHHHHHhhccCCeEEEEe
Confidence            6677777766556778999999887652        44567777 888887766554

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=97.58  E-value=0.00023  Score=65.16  Aligned_cols=93  Identities=19%  Similarity=0.220  Sum_probs=65.4

Q ss_pred             CCCceEEeccCCCcHhHHHHHHHHHc----------CCeEEEEEecCC----CChhhHHHHHHHHHHHhccCCCcEEEEE
Q psy12736        446 SRGHCMVVGVEGGGKRSLVRLASFAA----------GYQVFTIQLSRG----YNEASFKEDLKSLYNLLGVKNQATVFLF  511 (567)
Q Consensus       446 p~Gh~LLvG~~GsGr~sl~rlaa~i~----------~~~~~~i~~~k~----y~~~~f~edLk~~~~~ag~~~~~~vfl~  511 (567)
                      ..+++||.|++|+||+++++..+...          +..++.+....-    -...++.+.++.++..+...+++.++++
T Consensus        42 ~~~~vll~G~~G~GKT~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vl~i  121 (187)
T 2p65_A           42 TKNNPILLGDPGVGKTAIVEGLAIKIVQGDVPDSLKGRKLVSLDLSSLIAGAKYRGDFEERLKSILKEVQDAEGQVVMFI  121 (187)
T ss_dssp             SSCEEEEESCGGGCHHHHHHHHHHHHHTTCSCTTTTTCEEEEECHHHHHHHCCSHHHHHHHHHHHHHHHHHTTTSEEEEE
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHHHHhcCCcchhcCCeEEEEeHHHhhcCCCchhHHHHHHHHHHHHHHhcCCceEEEE
Confidence            46789999999999999998776654          677777754321    1234556667777776655567889999


Q ss_pred             ecCcccc---------hhhhHHhh-hccCCccccCcc
Q psy12736        512 TAAEIVE---------EGYQVFTI-QLSRGYNEASFK  538 (567)
Q Consensus       512 ~d~qi~~---------e~fle~in-lL~~Gevp~Lf~  538 (567)
                      +|.+-..         ..+++.+. ++..+.+.=+.+
T Consensus       122 De~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~ii~~  158 (187)
T 2p65_A          122 DEIHTVVGAGAVAEGALDAGNILKPMLARGELRCIGA  158 (187)
T ss_dssp             TTGGGGSSSSSSCTTSCCTHHHHHHHHHTTCSCEEEE
T ss_pred             eCHHHhcccccccccchHHHHHHHHHHhcCCeeEEEe
Confidence            9877654         45666676 777777665553

>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=97.47  E-value=0.00048  Score=68.16  Aligned_cols=103  Identities=13%  Similarity=0.159  Sum_probs=68.9

Q ss_pred             EEecHHHHHHHHH----HHHHH----hcCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCC---CChhhHHHHHH
Q psy12736        426 LVLFEDAREHLTR----IHRAL----RLSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRG---YNEASFKEDLK  494 (567)
Q Consensus       426 lvlf~dai~hi~r----i~RvL----~~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~---y~~~~f~edLk  494 (567)
                      ++-+..+++++..    +.+.+    ..+.+++||.|++|+||+++++..|...++.++.+.....   +...+....++
T Consensus        35 ~i~~~~~~~~i~~~~~~l~~~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~~~~~~~~i~~~~~~~g~~~~~~~~~~~  114 (272)
T 1d2n_A           35 IIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAKCQAMK  114 (272)
T ss_dssp             CCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTCSEEEEECGGGCTTCCHHHHHHHHH
T ss_pred             CCCccHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCEEEEeCHHHhcCCchHHHHHHHH
Confidence            3344445555554    44444    4556789999999999999999999999999888865532   23444556677


Q ss_pred             HHHHHhccCCCcEEEEEecCccc----------chhhhHHhh-hcc
Q psy12736        495 SLYNLLGVKNQATVFLFTAAEIV----------EEGYQVFTI-QLS  529 (567)
Q Consensus       495 ~~~~~ag~~~~~~vfl~~d~qi~----------~e~fle~in-lL~  529 (567)
                      .++..+. ..++.+++++|.+-.          ...+++.+. ++.
T Consensus       115 ~~~~~~~-~~~~~vl~iDEid~l~~~~~~~~~~~~~~l~~L~~~~~  159 (272)
T 1d2n_A          115 KIFDDAY-KSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLK  159 (272)
T ss_dssp             HHHHHHH-TSSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTT
T ss_pred             HHHHHHH-hcCCcEEEEEChhhhhccCCCChhHHHHHHHHHHHHhc
Confidence            7777663 356788888875432          344556555 554

>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=97.23  E-value=0.0016  Score=61.08  Aligned_cols=80  Identities=11%  Similarity=0.098  Sum_probs=54.7

Q ss_pred             CCceEEeccCCCcHhHHHHHHHHHc-----CCeEEEEEecCCCChhhHHHHHHHHHHHhcc-CCCcEEEEEecCcccchh
Q psy12736        447 RGHCMVVGVEGGGKRSLVRLASFAA-----GYQVFTIQLSRGYNEASFKEDLKSLYNLLGV-KNQATVFLFTAAEIVEEG  520 (567)
Q Consensus       447 ~Gh~LLvG~~GsGr~sl~rlaa~i~-----~~~~~~i~~~k~y~~~~f~edLk~~~~~ag~-~~~~~vfl~~d~qi~~e~  520 (567)
                      .+|++|.|++|+||+++++..+...     ...++.+..+...+.....+.++........ .+++.+++++|.+-..+.
T Consensus        38 ~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~  117 (226)
T 2chg_A           38 IPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVVRHKIKEFARTAPIGGAPFKIIFLDEADALTAD  117 (226)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEETTCTTCHHHHHHHHHHHHTSCCSTTCSCEEEEEETGGGSCHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHhccccccceEEeccccccChHHHHHHHHHHhcccCCCccCceEEEEeChhhcCHH
Confidence            3579999999999999998766542     3346677666555665555555555544333 367889999998877665


Q ss_pred             hhHHhh
Q psy12736        521 YQVFTI  526 (567)
Q Consensus       521 fle~in  526 (567)
                      ..+.+.
T Consensus       118 ~~~~l~  123 (226)
T 2chg_A          118 AQAALR  123 (226)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            555554

>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=97.08  E-value=0.0022  Score=62.49  Aligned_cols=71  Identities=13%  Similarity=0.151  Sum_probs=49.8

Q ss_pred             CCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCC--hhhHHHHHHHHHHHhccCCCcEEEEEecCccc
Q psy12736        446 SRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYN--EASFKEDLKSLYNLLGVKNQATVFLFTAAEIV  517 (567)
Q Consensus       446 p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~--~~~f~edLk~~~~~ag~~~~~~vfl~~d~qi~  517 (567)
                      +..++||.|++|+||+++++..|...+..++.+..+.-.+  ..+-...++.++..+. ...+.+++++|-+-.
T Consensus        38 ~~~~vll~G~~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~-~~~~~vl~iDeid~l  110 (262)
T 2qz4_A           38 VPKGALLLGPPGCGKTLLAKAVATEAQVPFLAMAGAEFVEVIGGLGAARVRSLFKEAR-ARAPCIVYIDEIDAV  110 (262)
T ss_dssp             CCCEEEEESCTTSSHHHHHHHHHHHHTCCEEEEETTTTSSSSTTHHHHHHHHHHHHHH-HTCSEEEEEECC---
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHhCCCEEEechHHHHhhccChhHHHHHHHHHHHH-hcCCeEEEEeCcchh
Confidence            4457999999999999999999999999999887653211  1122345667776664 345788888887654

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=97.05  E-value=0.0029  Score=64.39  Aligned_cols=100  Identities=13%  Similarity=0.148  Sum_probs=68.1

Q ss_pred             EEecHHHHHHHHHHHHHH---hcCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCChhhHHHHHHHHHHHhcc
Q psy12736        426 LVLFEDAREHLTRIHRAL---RLSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGV  502 (567)
Q Consensus       426 lvlf~dai~hi~ri~RvL---~~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~~~~f~edLk~~~~~ag~  502 (567)
                      ++--..+++.+.+..+..   ..+.+|+||.|++|+||+++++..|...+..++.+.....-...    ++..++..   
T Consensus        31 iiG~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~ia~~~~~~~~~~~~~~~~~~~----~~~~~~~~---  103 (338)
T 3pfi_A           31 YIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISYEMSANIKTTAAPMIEKSG----DLAAILTN---  103 (338)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHHHHHHHTTCCEEEEEGGGCCSHH----HHHHHHHT---
T ss_pred             hCChHHHHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHHHHHHHhCCCeEEecchhccchh----HHHHHHHh---
Confidence            344445555555444433   23457999999999999999999999999998888765433333    34444443   


Q ss_pred             CCCcEEEEEecCcccchhhhHHhh-hccCCc
Q psy12736        503 KNQATVFLFTAAEIVEEGYQVFTI-QLSRGY  532 (567)
Q Consensus       503 ~~~~~vfl~~d~qi~~e~fle~in-lL~~Ge  532 (567)
                      ...+.+++++|-+-......+.+. .|..+.
T Consensus       104 ~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~  134 (338)
T 3pfi_A          104 LSEGDILFIDEIHRLSPAIEEVLYPAMEDYR  134 (338)
T ss_dssp             CCTTCEEEEETGGGCCHHHHHHHHHHHHTSC
T ss_pred             ccCCCEEEEechhhcCHHHHHHHHHHHHhcc
Confidence            245678888888877777777666 666655

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=96.98  E-value=0.0026  Score=62.96  Aligned_cols=72  Identities=11%  Similarity=0.153  Sum_probs=52.4

Q ss_pred             cCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCC--hhhHHHHHHHHHHHhccCCCcEEEEEecCccc
Q psy12736        445 LSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYN--EASFKEDLKSLYNLLGVKNQATVFLFTAAEIV  517 (567)
Q Consensus       445 ~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~--~~~f~edLk~~~~~ag~~~~~~vfl~~d~qi~  517 (567)
                      .+..++||.|++|+||+++++..|...+..++.+..+.-.+  ..+....++.++..+. ...|.+++++|-+-.
T Consensus        49 ~~~~~~ll~G~~GtGKT~la~~la~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~vl~iDEid~l  122 (285)
T 3h4m_A           49 EPPKGILLYGPPGTGKTLLAKAVATETNATFIRVVGSELVKKFIGEGASLVKDIFKLAK-EKAPSIIFIDEIDAI  122 (285)
T ss_dssp             CCCSEEEEESSSSSSHHHHHHHHHHHTTCEEEEEEGGGGCCCSTTHHHHHHHHHHHHHH-HTCSEEEEEETTHHH
T ss_pred             CCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEehHHHHHhccchHHHHHHHHHHHHH-HcCCeEEEEECHHHh
Confidence            35667999999999999999999999999999887553221  2233455666666553 356788888886543

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.83  E-value=0.0059  Score=63.93  Aligned_cols=68  Identities=12%  Similarity=0.247  Sum_probs=53.3

Q ss_pred             cCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecC----CCChhhHHHHHHHHHHHhccCCCcEEEEEecCc
Q psy12736        445 LSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSR----GYNEASFKEDLKSLYNLLGVKNQATVFLFTAAE  515 (567)
Q Consensus       445 ~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k----~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~q  515 (567)
                      .|...+||.|++|+||+.++|-.|.-++..++.+..+.    -.|..  ..-++.++..|. +..|+++++++-+
T Consensus       180 ~~prGvLL~GPPGTGKTllAkAiA~e~~~~f~~v~~s~l~sk~vGes--e~~vr~lF~~Ar-~~aP~IIFiDEiD  251 (405)
T 4b4t_J          180 AQPKGVILYGPPGTGKTLLARAVAHHTDCKFIRVSGAELVQKYIGEG--SRMVRELFVMAR-EHAPSIIFMDEID  251 (405)
T ss_dssp             CCCCCEEEESCSSSSHHHHHHHHHHHHTCEEEEEEGGGGSCSSTTHH--HHHHHHHHHHHH-HTCSEEEEEESSS
T ss_pred             CCCCceEEeCCCCCCHHHHHHHHHHhhCCCceEEEhHHhhccccchH--HHHHHHHHHHHH-HhCCceEeeecch
Confidence            34455999999999999999999999999999997543    33444  356888888875 5678888887644

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=96.80  E-value=0.003  Score=72.97  Aligned_cols=102  Identities=17%  Similarity=0.217  Sum_probs=64.4

Q ss_pred             HHHHHHHHhc-CCCceEEeccCCCcHhHHHHHHHHHc----------CCeEEEEEecCCC----ChhhHHHHHHHHHHHh
Q psy12736        436 LTRIHRALRL-SRGHCMVVGVEGGGKRSLVRLASFAA----------GYQVFTIQLSRGY----NEASFKEDLKSLYNLL  500 (567)
Q Consensus       436 i~ri~RvL~~-p~Gh~LLvG~~GsGr~sl~rlaa~i~----------~~~~~~i~~~k~y----~~~~f~edLk~~~~~a  500 (567)
                      +.++.++|.. ...|++|+|++|+||+++++..|...          +..++.++.+.-.    ...+|.+.++.++..+
T Consensus       179 i~~l~~~l~~~~~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~l~~g~~~~g~~~~~l~~~~~~~  258 (854)
T 1qvr_A          179 IRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKYRGEFEERLKAVIQEV  258 (854)
T ss_dssp             HHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-----------CHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeehHHhhccCccchHHHHHHHHHHHHH
Confidence            3444555554 45689999999999999999887764          7888888654321    1236778889988887


Q ss_pred             ccCCCcEEEEEecCcccc--------hhhhHHhh-hccCCccccCc
Q psy12736        501 GVKNQATVFLFTAAEIVE--------EGYQVFTI-QLSRGYNEASF  537 (567)
Q Consensus       501 g~~~~~~vfl~~d~qi~~--------e~fle~in-lL~~Gevp~Lf  537 (567)
                      ...+.+++++++|-+-..        ......++ +|..|++.-+.
T Consensus       259 ~~~~~~~iL~IDEi~~l~~~~~~~g~~~~~~~L~~~l~~~~i~~I~  304 (854)
T 1qvr_A          259 VQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALARGELRLIG  304 (854)
T ss_dssp             HTTCSSEEEEECCC-------------------HHHHHTTCCCEEE
T ss_pred             HhcCCCeEEEEecHHHHhccCCccchHHHHHHHHHHHhCCCeEEEE
Confidence            655678899988876543        33455567 77888776544

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=96.79  E-value=0.0048  Score=65.87  Aligned_cols=82  Identities=15%  Similarity=0.160  Sum_probs=54.0

Q ss_pred             HHHHHHhcCCC-ceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCChhhHHHHHHHHHHHhccCCCcEEEEEecCcc
Q psy12736        438 RIHRALRLSRG-HCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEI  516 (567)
Q Consensus       438 ri~RvL~~p~G-h~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~qi  516 (567)
                      .+.+.+...+. ++||.|++|+||+++++..+...+..+..+.... .+..+.++-+..+.... ..+++.+++++|.+-
T Consensus        40 ~L~~~i~~~~~~~vLL~GppGtGKTtlAr~ia~~~~~~f~~l~a~~-~~~~~ir~~~~~a~~~~-~~~~~~iLfIDEI~~  117 (447)
T 3pvs_A           40 PLPRAIEAGHLHSMILWGPPGTGKTTLAEVIARYANADVERISAVT-SGVKEIREAIERARQNR-NAGRRTILFVDEVHR  117 (447)
T ss_dssp             HHHHHHHHTCCCEEEEECSTTSSHHHHHHHHHHHTTCEEEEEETTT-CCHHHHHHHHHHHHHHH-HTTCCEEEEEETTTC
T ss_pred             HHHHHHHcCCCcEEEEECCCCCcHHHHHHHHHHHhCCCeEEEEecc-CCHHHHHHHHHHHHHhh-hcCCCcEEEEeChhh
Confidence            44455555443 7899999999999999999999999988887442 34554444444433222 246778888888765


Q ss_pred             cchhh
Q psy12736        517 VEEGY  521 (567)
Q Consensus       517 ~~e~f  521 (567)
                      ...+.
T Consensus       118 l~~~~  122 (447)
T 3pvs_A          118 FNKSQ  122 (447)
T ss_dssp             C----
T ss_pred             hCHHH
Confidence            54433

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=96.79  E-value=0.0055  Score=62.98  Aligned_cols=55  Identities=20%  Similarity=0.206  Sum_probs=38.5

Q ss_pred             eEEecHHHHHHHHHHHHHHhcCC---CceEEeccCCCcHhHHHHHHHHHcCC--eEEEEE
Q psy12736        425 DLVLFEDAREHLTRIHRALRLSR---GHCMVVGVEGGGKRSLVRLASFAAGY--QVFTIQ  479 (567)
Q Consensus       425 ~lvlf~dai~hi~ri~RvL~~p~---Gh~LLvG~~GsGr~sl~rlaa~i~~~--~~~~i~  479 (567)
                      ++|--+.+.+.+..+.+.+....   .++||.|++|+||+++++..|...+.  .+..+.
T Consensus        45 ~ivG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~la~~l~~~~~~~~~~  104 (368)
T 3uk6_A           45 GMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQALGPDTPFTAIA  104 (368)
T ss_dssp             TEESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHHHHHHCSSCCEEEEE
T ss_pred             hccChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHHHHHhcccCCccccc
Confidence            35555566666666666665543   47899999999999999988877765  344444

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=96.77  E-value=0.0011  Score=63.47  Aligned_cols=50  Identities=6%  Similarity=0.022  Sum_probs=32.2

Q ss_pred             CCCccccccCcchhhHHHHHHHHHh--cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        167 KSFGDILVPTTDSTKLTWILSLMNE--IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       167 ~~~~~i~VpT~dtvR~~~ll~~ll~--~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|.+.+.+.........+ ..+..  .+.+++++||+|||||++++.+...+
T Consensus        25 ~~~~~~~~~~~~~~~~~~l-~~~~~~~~~~~~ll~G~~G~GKT~la~~l~~~~   76 (242)
T 3bos_A           25 ETFTSYYPAAGNDELIGAL-KSAASGDGVQAIYLWGPVKSGRTHLIHAACARA   76 (242)
T ss_dssp             CSTTTSCC--CCHHHHHHH-HHHHHTCSCSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CChhhccCCCCCHHHHHHH-HHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            4455555532222233333 33343  57899999999999999999887765

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=96.72  E-value=0.0052  Score=63.11  Aligned_cols=74  Identities=11%  Similarity=0.152  Sum_probs=48.0

Q ss_pred             cCCCceEEeccCCCcHhHHHHHHHHHc---------CCeEEEEEecCCCChhhHH------------------HH-HHHH
Q psy12736        445 LSRGHCMVVGVEGGGKRSLVRLASFAA---------GYQVFTIQLSRGYNEASFK------------------ED-LKSL  496 (567)
Q Consensus       445 ~p~Gh~LLvG~~GsGr~sl~rlaa~i~---------~~~~~~i~~~k~y~~~~f~------------------ed-Lk~~  496 (567)
                      .+.++++|.|++|+||+++++..+...         +..++.++.....+..++.                  .+ +..+
T Consensus        42 ~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l  121 (387)
T 2v1u_A           42 EKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRVASAIAEAVGVRVPFTGLSVGEVYERL  121 (387)
T ss_dssp             CCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTSCSHHHHHHHHHHHHSCCCCSSCCCHHHHHHHH
T ss_pred             CCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHH
Confidence            345689999999999999998887766         6777777755433322111                  12 2233


Q ss_pred             HHHhccCCCcEEEEEecCcccc
Q psy12736        497 YNLLGVKNQATVFLFTAAEIVE  518 (567)
Q Consensus       497 ~~~ag~~~~~~vfl~~d~qi~~  518 (567)
                      .......+++++++++|-+-..
T Consensus       122 ~~~l~~~~~~~vlilDEi~~l~  143 (387)
T 2v1u_A          122 VKRLSRLRGIYIIVLDEIDFLP  143 (387)
T ss_dssp             HHHHTTSCSEEEEEEETTTHHH
T ss_pred             HHHHhccCCeEEEEEccHhhhc
Confidence            3333335678999999877553

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=96.72  E-value=0.001  Score=59.43  Aligned_cols=37  Identities=14%  Similarity=0.110  Sum_probs=29.1

Q ss_pred             hHHHHHHHHHhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        181 KLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       181 R~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +....++.+...+.|||+.||+|||||++++.+-...
T Consensus        12 ~~~~~~~~~a~~~~~vll~G~~GtGKt~lA~~i~~~~   48 (145)
T 3n70_A           12 QYRRRLQQLSETDIAVWLYGAPGTGRMTGARYLHQFG   48 (145)
T ss_dssp             HHHHHHHHHTTCCSCEEEESSTTSSHHHHHHHHHHSS
T ss_pred             HHHHHHHHHhCCCCCEEEECCCCCCHHHHHHHHHHhC
Confidence            3444555566789999999999999999998876543

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=96.69  E-value=0.002  Score=65.66  Aligned_cols=30  Identities=17%  Similarity=0.234  Sum_probs=24.5

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhccCCCcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSLSPDKY  222 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l~~~~~  222 (567)
                      .+++||+||+|||||++++.+.+.+....+
T Consensus        45 ~~~iLL~GppGtGKT~la~ala~~~~~~~~   74 (322)
T 1xwi_A           45 WRGILLFGPPGTGKSYLAKAVATEANNSTF   74 (322)
T ss_dssp             CSEEEEESSSSSCHHHHHHHHHHHTTSCEE
T ss_pred             CceEEEECCCCccHHHHHHHHHHHcCCCcE
Confidence            467999999999999999999887633333

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=96.66  E-value=0.00096  Score=59.44  Aligned_cols=36  Identities=11%  Similarity=0.276  Sum_probs=28.2

Q ss_pred             hHHHHHHHHHhcCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        181 KLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       181 R~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      +....+..+...+.|||++||+|||||++++.+-..
T Consensus        15 ~l~~~~~~~~~~~~~vll~G~~GtGKt~lA~~i~~~   50 (143)
T 3co5_A           15 EMNREVEAAAKRTSPVFLTGEAGSPFETVARYFHKN   50 (143)
T ss_dssp             HHHHHHHHHHTCSSCEEEEEETTCCHHHHHGGGCCT
T ss_pred             HHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHh
Confidence            344455566778999999999999999998776543

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=96.61  E-value=0.0045  Score=61.95  Aligned_cols=70  Identities=11%  Similarity=0.045  Sum_probs=45.3

Q ss_pred             hcCCCceEEeccCCCcHhHHHHHHHHHc-------CCeEEEEEecCCCC--hhhHHHHHHHHHHHhccCCCcEEEEEecC
Q psy12736        444 RLSRGHCMVVGVEGGGKRSLVRLASFAA-------GYQVFTIQLSRGYN--EASFKEDLKSLYNLLGVKNQATVFLFTAA  514 (567)
Q Consensus       444 ~~p~Gh~LLvG~~GsGr~sl~rlaa~i~-------~~~~~~i~~~k~y~--~~~f~edLk~~~~~ag~~~~~~vfl~~d~  514 (567)
                      ..+.+|+||.|++|+||+++++..|...       +..++.+..+.-.+  .......++.++..+    ++.+++++|.
T Consensus        64 ~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~~~~~~~~~~~~----~~~vl~iDEi  139 (309)
T 3syl_A           64 ETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDLVGQYIGHTAPKTKEVLKRA----MGGVLFIDEA  139 (309)
T ss_dssp             SCCCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEECGGGTCCSSTTCHHHHHHHHHHHH----TTSEEEEETG
T ss_pred             CCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEcHHHhhhhcccccHHHHHHHHHhc----CCCEEEEECh
Confidence            3456689999999999999998776654       22666765433211  112234566677666    2457788887


Q ss_pred             ccc
Q psy12736        515 EIV  517 (567)
Q Consensus       515 qi~  517 (567)
                      +-.
T Consensus       140 d~l  142 (309)
T 3syl_A          140 YYL  142 (309)
T ss_dssp             GGS
T ss_pred             hhh
Confidence            644

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=96.60  E-value=0.0016  Score=59.99  Aligned_cols=27  Identities=26%  Similarity=0.361  Sum_probs=24.0

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..+.+++|+||+|||||++++.+...+
T Consensus        36 ~~g~~~~l~G~~G~GKTtL~~~i~~~~   62 (180)
T 3ec2_A           36 EEGKGLTFVGSPGVGKTHLAVATLKAI   62 (180)
T ss_dssp             GGCCEEEECCSSSSSHHHHHHHHHHHH
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHHHH
Confidence            458999999999999999999987765

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=96.59  E-value=0.0046  Score=61.93  Aligned_cols=99  Identities=18%  Similarity=0.230  Sum_probs=59.4

Q ss_pred             HHHHHHHHHHHHHHh-------cCCCceEEeccCCCcHhHHHHHHHHHc---CCeEEEEEecCCCCh---hhHH------
Q psy12736        430 EDAREHLTRIHRALR-------LSRGHCMVVGVEGGGKRSLVRLASFAA---GYQVFTIQLSRGYNE---ASFK------  490 (567)
Q Consensus       430 ~dai~hi~ri~RvL~-------~p~Gh~LLvG~~GsGr~sl~rlaa~i~---~~~~~~i~~~k~y~~---~~f~------  490 (567)
                      ..+++.+....+-..       .|.+++||+|++|+||+++++..|...   +..++.+..+.--..   .++.      
T Consensus        23 ~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~~~~~~~~~~~~~~~~~~~~~~~~l~g~~~~~  102 (311)
T 4fcw_A           23 DEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAVSRLIGAPPGY  102 (311)
T ss_dssp             HHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHHHSCGGGEEEEEGGGCCSTTHHHHHHCCCTTS
T ss_pred             HHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHHHcCCCcceEEeecccccccccHHHhcCCCCcc
Confidence            455555554433322       346899999999999999999887765   445777765432111   1110      


Q ss_pred             ------HHHHHHHHHhccCCCcEEEEEecCcccchhhhHHhh-hccCCc
Q psy12736        491 ------EDLKSLYNLLGVKNQATVFLFTAAEIVEEGYQVFTI-QLSRGY  532 (567)
Q Consensus       491 ------edLk~~~~~ag~~~~~~vfl~~d~qi~~e~fle~in-lL~~Ge  532 (567)
                            ..+...+..    ....++++++-+-..+.....+- +|..|.
T Consensus       103 ~~~~~~~~~~~~~~~----~~~~vl~lDEi~~l~~~~~~~Ll~~le~~~  147 (311)
T 4fcw_A          103 VGYEEGGQLTEAVRR----RPYSVILFDAIEKAHPDVFNILLQMLDDGR  147 (311)
T ss_dssp             TTTTTCCHHHHHHHH----CSSEEEEEETGGGSCHHHHHHHHHHHHHSE
T ss_pred             ccccccchHHHHHHh----CCCeEEEEeChhhcCHHHHHHHHHHHhcCE
Confidence                  122233332    23467888887777776666666 666554

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.57  E-value=0.0098  Score=62.65  Aligned_cols=102  Identities=13%  Similarity=0.157  Sum_probs=68.4

Q ss_pred             ccccccChHHHHHHHHHHHHHHhhhhcccCcceEEecHHHHHHHHHHHHHHhcCCCceEEeccCCCcHhHHHHHHHHHcC
Q psy12736        393 YYEDLLDYSAVGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVRLASFAAG  472 (567)
Q Consensus       393 ~Y~~v~d~~~l~~~~~~~l~~yn~~~~~~~~~~lvlf~dai~hi~ri~RvL~~p~Gh~LLvG~~GsGr~sl~rlaa~i~~  472 (567)
                      .|..+.-.+..++.+.+.+.-.-..            .+..      .+.-..|...+||.|++|+||+++++-.|.-++
T Consensus       180 ~~~DIgGld~~k~~L~e~v~~Pl~~------------pe~f------~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~~  241 (437)
T 4b4t_I          180 SYSDIGGLESQIQEIKESVELPLTH------------PELY------EEMGIKPPKGVILYGAPGTGKTLLAKAVANQTS  241 (437)
T ss_dssp             CGGGTCSCHHHHHHHHHHHHHHHHC------------CHHH------HHHTCCCCSEEEEESSTTTTHHHHHHHHHHHHT
T ss_pred             cceecCcHHHHHHHHHHHHHHHHhC------------HHHH------HhCCCCCCCCCceECCCCchHHHHHHHHHHHhC
Confidence            4666666677777676665432211            0111      122223445699999999999999999999999


Q ss_pred             CeEEEEEec----CCCChhhHHHHHHHHHHHhccCCCcEEEEEecCc
Q psy12736        473 YQVFTIQLS----RGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAE  515 (567)
Q Consensus       473 ~~~~~i~~~----k~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~q  515 (567)
                      ..++.+..+    +.++..+  .-++.++..|. +..|++++++|-+
T Consensus       242 ~~fi~v~~s~l~sk~vGese--k~ir~lF~~Ar-~~aP~IIfiDEiD  285 (437)
T 4b4t_I          242 ATFLRIVGSELIQKYLGDGP--RLCRQIFKVAG-ENAPSIVFIDEID  285 (437)
T ss_dssp             CEEEEEESGGGCCSSSSHHH--HHHHHHHHHHH-HTCSEEEEEEEES
T ss_pred             CCEEEEEHHHhhhccCchHH--HHHHHHHHHHH-hcCCcEEEEehhh
Confidence            999999744    3445443  45777777774 5678888887643

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=96.55  E-value=0.0065  Score=54.02  Aligned_cols=87  Identities=13%  Similarity=0.091  Sum_probs=56.0

Q ss_pred             HHHHHHHHHHHHHhcCCCceEEeccCCCcHhHHHHHHHHHc---CCeEEEEEecCCCChhhHHHHHHHHHHHhccCCCcE
Q psy12736        431 DAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVRLASFAA---GYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQAT  507 (567)
Q Consensus       431 dai~hi~ri~RvL~~p~Gh~LLvG~~GsGr~sl~rlaa~i~---~~~~~~i~~~k~y~~~~f~edLk~~~~~ag~~~~~~  507 (567)
                      .+++.+.+..+.+.....|+||.|++|+||+++++..+..+   +..++ +....-.+.    .+++..+..+.    .-
T Consensus         8 ~~~~~~~~~~~~~a~~~~~vll~G~~GtGKt~lA~~i~~~~~~~~~~~v-~~~~~~~~~----~~~~~~~~~a~----~g   78 (145)
T 3n70_A            8 EWINQYRRRLQQLSETDIAVWLYGAPGTGRMTGARYLHQFGRNAQGEFV-YRELTPDNA----PQLNDFIALAQ----GG   78 (145)
T ss_dssp             HHHHHHHHHHHHHTTCCSCEEEESSTTSSHHHHHHHHHHSSTTTTSCCE-EEECCTTTS----SCHHHHHHHHT----TS
T ss_pred             HHHHHHHHHHHHHhCCCCCEEEECCCCCCHHHHHHHHHHhCCccCCCEE-EECCCCCcc----hhhhcHHHHcC----Cc
Confidence            44555555444445667899999999999999999988876   66777 776643332    23444555552    23


Q ss_pred             EEEEecCcccchhhhHHhh
Q psy12736        508 VFLFTAAEIVEEGYQVFTI  526 (567)
Q Consensus       508 vfl~~d~qi~~e~fle~in  526 (567)
                      +++++|-+-......+.+-
T Consensus        79 ~l~ldei~~l~~~~q~~Ll   97 (145)
T 3n70_A           79 TLVLSHPEHLTREQQYHLV   97 (145)
T ss_dssp             CEEEECGGGSCHHHHHHHH
T ss_pred             EEEEcChHHCCHHHHHHHH
Confidence            4667776655555544444

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.54  E-value=0.0072  Score=64.01  Aligned_cols=68  Identities=13%  Similarity=0.227  Sum_probs=52.5

Q ss_pred             cCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEec----CCCChhhHHHHHHHHHHHhccCCCcEEEEEecCc
Q psy12736        445 LSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLS----RGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAE  515 (567)
Q Consensus       445 ~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~----k~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~q  515 (567)
                      .|...+||.|++|+||+++++-.|.-++..++.+..+    +..+..+  ..++.++..|- ...|++++++|-+
T Consensus       213 ~~prGvLLyGPPGTGKTllAkAiA~e~~~~f~~v~~s~l~~~~vGese--~~ir~lF~~A~-~~aP~IifiDEiD  284 (434)
T 4b4t_M          213 RAPKGALMYGPPGTGKTLLARACAAQTNATFLKLAAPQLVQMYIGEGA--KLVRDAFALAK-EKAPTIIFIDELD  284 (434)
T ss_dssp             CCCCEEEEESCTTSSHHHHHHHHHHHHTCEEEEEEGGGGCSSCSSHHH--HHHHHHHHHHH-HHCSEEEEEECTH
T ss_pred             CCCCeeEEECcCCCCHHHHHHHHHHHhCCCEEEEehhhhhhcccchHH--HHHHHHHHHHH-hcCCeEEeecchh
Confidence            4456699999999999999999999999999999754    3344443  56777777664 4568888887643

>1sxj_A Activator 1 95 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=96.53  E-value=0.0041  Score=67.56  Aligned_cols=88  Identities=14%  Similarity=0.163  Sum_probs=56.4

Q ss_pred             CCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCChhhHHHHHHHH---------HHHh----ccCCCcEEEEEec
Q psy12736        447 RGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSL---------YNLL----GVKNQATVFLFTA  513 (567)
Q Consensus       447 ~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~~~~f~edLk~~---------~~~a----g~~~~~~vfl~~d  513 (567)
                      ..++||.|++|+||+++++..|...++.+++++.+...+.....+.++.+         +..+    ...+++.|++++|
T Consensus        77 ~~~lLL~GppGtGKTtla~~la~~l~~~~i~in~s~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~vliIDE  156 (516)
T 1sxj_A           77 FRAAMLYGPPGIGKTTAAHLVAQELGYDILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDE  156 (516)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHHTTCEEEEECTTSCCCHHHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECS
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcCCCEEEEeCCCcchHHHHHHHHHHHhccccHHHHHhhhhhhhhccCCCeEEEEEC
Confidence            45789999999999999999999999999988766544432222222211         1111    1236788999988


Q ss_pred             Ccccc---hhhhHHhh-hccCCccc
Q psy12736        514 AEIVE---EGYQVFTI-QLSRGYNE  534 (567)
Q Consensus       514 ~qi~~---e~fle~in-lL~~Gevp  534 (567)
                      .+-..   ...++.++ ++..+.+|
T Consensus       157 id~l~~~~~~~l~~L~~~l~~~~~~  181 (516)
T 1sxj_A          157 VDGMSGGDRGGVGQLAQFCRKTSTP  181 (516)
T ss_dssp             GGGCCTTSTTHHHHHHHHHHHCSSC
T ss_pred             CCccchhhHHHHHHHHHHHHhcCCC
Confidence            76543   23445555 55554443

>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=96.52  E-value=0.0046  Score=62.50  Aligned_cols=89  Identities=11%  Similarity=0.109  Sum_probs=59.4

Q ss_pred             EEecHHHHHHHHHHHHHHhcC-CCce-EEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCChhhHHHHHHHHHHHhccC
Q psy12736        426 LVLFEDAREHLTRIHRALRLS-RGHC-MVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVK  503 (567)
Q Consensus       426 lvlf~dai~hi~ri~RvL~~p-~Gh~-LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~~~~f~edLk~~~~~ag~~  503 (567)
                      ++--.++++.+.+.   +... ..|+ |+.|++|+||+++++..|...+.+++.++.+. .+....++.++.........
T Consensus        28 ivg~~~~~~~l~~~---l~~~~~~~~~L~~G~~G~GKT~la~~la~~l~~~~~~i~~~~-~~~~~i~~~~~~~~~~~~~~  103 (324)
T 3u61_B           28 CILPAFDKETFKSI---TSKGKIPHIILHSPSPGTGKTTVAKALCHDVNADMMFVNGSD-CKIDFVRGPLTNFASAASFD  103 (324)
T ss_dssp             SCCCHHHHHHHHHH---HHTTCCCSEEEECSSTTSSHHHHHHHHHHHTTEEEEEEETTT-CCHHHHHTHHHHHHHBCCCS
T ss_pred             HhCcHHHHHHHHHH---HHcCCCCeEEEeeCcCCCCHHHHHHHHHHHhCCCEEEEcccc-cCHHHHHHHHHHHHhhcccC
Confidence            44444555444433   3332 2355 55566999999999999999999999988543 45555555555555555556


Q ss_pred             CCcEEEEEecCcccc
Q psy12736        504 NQATVFLFTAAEIVE  518 (567)
Q Consensus       504 ~~~~vfl~~d~qi~~  518 (567)
                      +.+.+++++|.+...
T Consensus       104 ~~~~vliiDEi~~l~  118 (324)
T 3u61_B          104 GRQKVIVIDEFDRSG  118 (324)
T ss_dssp             SCEEEEEEESCCCGG
T ss_pred             CCCeEEEEECCcccC
Confidence            688899999987665

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=96.51  E-value=0.0026  Score=67.90  Aligned_cols=119  Identities=14%  Similarity=0.077  Sum_probs=72.1

Q ss_pred             HHHHHhcCC--CeEEeccCCCCchhhHHHHHhccCCCcceeee-------------c----CCCCCceEEEEe--ecc--
Q psy12736        186 LSLMNEIKR--PCIVVGDTGTSKTATMMNFLRSLSPDKYLVIA-------------E----LPPTPAKFHYIF--NLR--  242 (567)
Q Consensus       186 l~~ll~~~~--pvLl~GptGtGKT~~i~~~l~~l~~~~~~~~~-------------e----gPp~gkk~v~iF--Nl~--  242 (567)
                      +...+..++  ++||+||+|||||++++.+.+.+.. .+..++             +    .+..+++.+ +|  .+.  
T Consensus        41 L~~~i~~~~~~~vLL~GppGtGKTtlAr~ia~~~~~-~f~~l~a~~~~~~~ir~~~~~a~~~~~~~~~~i-LfIDEI~~l  118 (447)
T 3pvs_A           41 LPRAIEAGHLHSMILWGPPGTGKTTLAEVIARYANA-DVERISAVTSGVKEIREAIERARQNRNAGRRTI-LFVDEVHRF  118 (447)
T ss_dssp             HHHHHHHTCCCEEEEECSTTSSHHHHHHHHHHHTTC-EEEEEETTTCCHHHHHHHHHHHHHHHHTTCCEE-EEEETTTCC
T ss_pred             HHHHHHcCCCcEEEEECCCCCcHHHHHHHHHHHhCC-CeEEEEeccCCHHHHHHHHHHHHHhhhcCCCcE-EEEeChhhh
Confidence            344455554  6999999999999999988876543 333333             0    222444555 44  110  


Q ss_pred             -------------------------c----h-hhhhhccccccccccCCHHHHHHHHHHhhhhh---hcC-----hHHHH
Q psy12736        243 -------------------------D----L-SRIIQGLTATEKIIFNTKEMFVRAWRNEFTRT---ICD-----RLNTD  284 (567)
Q Consensus       243 -------------------------D----~-~R~~rg~f~~~~~~~~s~~sl~~I~~~il~~~---~~~-----~i~~y  284 (567)
                                               +    + ..+.+ ++.++.+..++.+.+..|....+...   +..     .-+..
T Consensus       119 ~~~~q~~LL~~le~~~v~lI~att~n~~~~l~~aL~s-R~~v~~l~~l~~edi~~il~~~l~~~~~~~~~~~~~i~~~al  197 (447)
T 3pvs_A          119 NKSQQDAFLPHIEDGTITFIGATTENPSFELNSALLS-RARVYLLKSLSTEDIEQVLTQAMEDKTRGYGGQDIVLPDETR  197 (447)
T ss_dssp             ------CCHHHHHTTSCEEEEEESSCGGGSSCHHHHT-TEEEEECCCCCHHHHHHHHHHHHHCTTTSSTTSSEECCHHHH
T ss_pred             CHHHHHHHHHHHhcCceEEEecCCCCcccccCHHHhC-ceeEEeeCCcCHHHHHHHHHHHHHHHhhhhccccCcCCHHHH
Confidence                                     0    1 15666 78888899999999999998887641   110     11233


Q ss_pred             HHHHHhCCCCCCccccccChhhHHHHHhhhhc
Q psy12736        285 ELVIAELPPTPAKFHYIFNLRDLSRIIQGLTA  316 (567)
Q Consensus       285 ~~i~~~llptp~k~HY~FnlRDlsrv~qGi~~  316 (567)
                      +.+...         ..=|+|.+..+++-+..
T Consensus       198 ~~L~~~---------~~Gd~R~lln~Le~a~~  220 (447)
T 3pvs_A          198 RAIAEL---------VNGDARRALNTLEMMAD  220 (447)
T ss_dssp             HHHHHH---------HCSCHHHHHHHHHHHHH
T ss_pred             HHHHHH---------CCCCHHHHHHHHHHHHH
Confidence            333322         12477888877776654

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.51  E-value=0.014  Score=61.99  Aligned_cols=68  Identities=12%  Similarity=0.243  Sum_probs=52.9

Q ss_pred             cCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEec----CCCChhhHHHHHHHHHHHhccCCCcEEEEEecCc
Q psy12736        445 LSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLS----RGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAE  515 (567)
Q Consensus       445 ~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~----k~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~q  515 (567)
                      .|...+||.|++|+||+++++-.|.-++..++.+..+    +..+..+  ..++.++..|. ...|+++++++-+
T Consensus       213 ~~prGvLL~GPPGtGKTllAkAiA~e~~~~~~~v~~s~l~sk~~Gese--~~ir~~F~~A~-~~~P~IifiDEiD  284 (437)
T 4b4t_L          213 KPPKGVLLYGPPGTGKTLLAKAVAATIGANFIFSPASGIVDKYIGESA--RIIREMFAYAK-EHEPCIIFMDEVD  284 (437)
T ss_dssp             CCCCEEEEESCTTSSHHHHHHHHHHHHTCEEEEEEGGGTCCSSSSHHH--HHHHHHHHHHH-HSCSEEEEEECCC
T ss_pred             CCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEehhhhccccchHHH--HHHHHHHHHHH-hcCCceeeeeccc
Confidence            4455699999999999999999999999999999754    3344443  45777777774 5678888887654

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=96.50  E-value=0.0019  Score=60.65  Aligned_cols=24  Identities=21%  Similarity=0.264  Sum_probs=21.9

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+++|+||+|||||++++.+...+
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~~~   78 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIANEL   78 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHH
Confidence            899999999999999999887765

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=96.50  E-value=0.0018  Score=63.70  Aligned_cols=38  Identities=16%  Similarity=0.292  Sum_probs=30.5

Q ss_pred             hhHHHHHHHHHhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        180 TKLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       180 vR~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+....+..+...+.|+||+||+|||||++++.+-+..
T Consensus        16 ~~~~~~~~~~~~~~~~vll~G~~GtGKt~la~~i~~~~   53 (265)
T 2bjv_A           16 LEVLEQVSHLAPLDKPVLIIGERGTGKELIASRLHYLS   53 (265)
T ss_dssp             HHHHHHHHHHTTSCSCEEEECCTTSCHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhc
Confidence            34444566667789999999999999999999887754

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.49  E-value=0.013  Score=62.33  Aligned_cols=68  Identities=15%  Similarity=0.227  Sum_probs=53.0

Q ss_pred             cCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEec----CCCChhhHHHHHHHHHHHhccCCCcEEEEEecCc
Q psy12736        445 LSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLS----RGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAE  515 (567)
Q Consensus       445 ~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~----k~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~q  515 (567)
                      .|...+||.|++|+||+.++|-.|.-++..++.+..+    +.++..+  ..++.++..|. ...|+++++++-+
T Consensus       241 ~pprGILLyGPPGTGKTlLAkAiA~e~~~~fi~vs~s~L~sk~vGese--k~ir~lF~~Ar-~~aP~IIfiDEiD  312 (467)
T 4b4t_H          241 DPPKGILLYGPPGTGKTLCARAVANRTDATFIRVIGSELVQKYVGEGA--RMVRELFEMAR-TKKACIIFFDEID  312 (467)
T ss_dssp             CCCSEEEECSCTTSSHHHHHHHHHHHHTCEEEEEEGGGGCCCSSSHHH--HHHHHHHHHHH-HTCSEEEEEECCT
T ss_pred             CCCCceEeeCCCCCcHHHHHHHHHhccCCCeEEEEhHHhhcccCCHHH--HHHHHHHHHHH-hcCCceEeecccc
Confidence            3455699999999999999999999999999999754    3345443  56778887774 4678888887654

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=96.48  E-value=0.0062  Score=59.40  Aligned_cols=67  Identities=18%  Similarity=0.195  Sum_probs=46.1

Q ss_pred             CCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCC--hhhHHHHHHHHHHHhccCCCcEEEEEecC
Q psy12736        447 RGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYN--EASFKEDLKSLYNLLGVKNQATVFLFTAA  514 (567)
Q Consensus       447 ~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~--~~~f~edLk~~~~~ag~~~~~~vfl~~d~  514 (567)
                      ..+++|+|++|+||++++|..|...+..++.+..+.-.+  ..+....++.++..+. .+.|.+++++|-
T Consensus        45 ~~~vll~G~~GtGKT~la~~la~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~a~-~~~~~il~iDei  113 (257)
T 1lv7_A           45 PKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVGVGASRVRDMFEQAK-KAAPCIIFIDEI  113 (257)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHTCCEEEECSCSSTTSCCCCCHHHHHHHHHHHH-TTCSEEEEETTH
T ss_pred             CCeEEEECcCCCCHHHHHHHHHHHcCCCEEEEeHHHHHHHhhhhhHHHHHHHHHHHH-HcCCeeehhhhh
Confidence            345999999999999999999999888888776432111  1112345666776663 355777777664

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.48  E-value=0.014  Score=61.80  Aligned_cols=100  Identities=16%  Similarity=0.217  Sum_probs=67.1

Q ss_pred             ccccccChHHHHHHHHHHHHHHhhhhcccCcceEEecHHHHHHHHHHHHH-HhcCCCceEEeccCCCcHhHHHHHHHHHc
Q psy12736        393 YYEDLLDYSAVGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRA-LRLSRGHCMVVGVEGGGKRSLVRLASFAA  471 (567)
Q Consensus       393 ~Y~~v~d~~~l~~~~~~~l~~yn~~~~~~~~~~lvlf~dai~hi~ri~Rv-L~~p~Gh~LLvG~~GsGr~sl~rlaa~i~  471 (567)
                      .|..+.-.+..++.+.+.+.-.-..            .+..      .+. +..|+ .+||.|++|+||++++|-.|.-+
T Consensus       170 ~~~digGl~~~k~~l~e~v~~pl~~------------p~~~------~~~g~~~pr-GiLL~GPPGtGKT~lakAiA~~~  230 (428)
T 4b4t_K          170 TYADVGGLDMQKQEIREAVELPLVQ------------ADLY------EQIGIDPPR-GVLLYGPPGTGKTMLVKAVANST  230 (428)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHHHHHC------------HHHH------HHHCCCCCC-EEEEESCTTTTHHHHHHHHHHHH
T ss_pred             CHHHhccHHHHHHHHHHHHHHHHhC------------HHHH------HhCCCCCCc-eEEEECCCCCCHHHHHHHHHHHh
Confidence            3555555666666666665433221            1111      121 23344 59999999999999999999999


Q ss_pred             CCeEEEEEecC----CCChhhHHHHHHHHHHHhccCCCcEEEEEecC
Q psy12736        472 GYQVFTIQLSR----GYNEASFKEDLKSLYNLLGVKNQATVFLFTAA  514 (567)
Q Consensus       472 ~~~~~~i~~~k----~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~  514 (567)
                      +..++.+..+.    ..+..+  .-++.++..|. +..|+++++++-
T Consensus       231 ~~~~~~v~~~~l~~~~~Ge~e--~~ir~lF~~A~-~~aP~IifiDEi  274 (428)
T 4b4t_K          231 KAAFIRVNGSEFVHKYLGEGP--RMVRDVFRLAR-ENAPSIIFIDEV  274 (428)
T ss_dssp             TCEEEEEEGGGTCCSSCSHHH--HHHHHHHHHHH-HTCSEEEEEECT
T ss_pred             CCCeEEEecchhhccccchhH--HHHHHHHHHHH-HcCCCeeechhh
Confidence            99999998553    334433  56788888774 567888888764

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=96.37  E-value=0.0066  Score=63.32  Aligned_cols=72  Identities=14%  Similarity=0.234  Sum_probs=51.4

Q ss_pred             hcCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCC--hhhHHHHHHHHHHHhccCCCcEEEEEecCcc
Q psy12736        444 RLSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYN--EASFKEDLKSLYNLLGVKNQATVFLFTAAEI  516 (567)
Q Consensus       444 ~~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~--~~~f~edLk~~~~~ag~~~~~~vfl~~d~qi  516 (567)
                      ..|..++||.|++|+||+++++..|...+..++.+..+.-.+  ..+....++.++..+. ...+.+++++|-+-
T Consensus       145 ~~~~~~vLL~GppGtGKT~la~aia~~~~~~~~~v~~~~l~~~~~g~~~~~~~~~~~~a~-~~~~~il~iDEid~  218 (389)
T 3vfd_A          145 RAPARGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTSKYVGEGEKLVRALFAVAR-ELQPSIIFIDQVDS  218 (389)
T ss_dssp             GCCCSEEEEESSTTSCHHHHHHHHHHHTTCEEEEECSCCC-------CHHHHHHHHHHHH-HSSSEEEEEETGGG
T ss_pred             CCCCceEEEECCCCCCHHHHHHHHHHhhcCcEEEeeHHHhhccccchHHHHHHHHHHHHH-hcCCeEEEEECchh
Confidence            456778999999999999999999999999999987654222  1223445666666654 34567888887643

>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=96.36  E-value=0.0062  Score=61.80  Aligned_cols=71  Identities=15%  Similarity=0.242  Sum_probs=52.9

Q ss_pred             cCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCC--ChhhHHHHHHHHHHHhccCCCcEEEEEecCcc
Q psy12736        445 LSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGY--NEASFKEDLKSLYNLLGVKNQATVFLFTAAEI  516 (567)
Q Consensus       445 ~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y--~~~~f~edLk~~~~~ag~~~~~~vfl~~d~qi  516 (567)
                      .|..++||.|++|+||+++++..|...+..++.+..+.-.  -..+....++.++..+. ..+|.+++++|-+-
T Consensus        49 ~~~~~vLl~GppGtGKT~la~aia~~~~~~~~~v~~~~l~~~~~g~~~~~~~~~f~~a~-~~~~~vl~iDEid~  121 (322)
T 3eie_A           49 KPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMAR-ENKPSIIFIDQVDA  121 (322)
T ss_dssp             CCCCEEEEECSSSSCHHHHHHHHHHHHTCEEEEEEHHHHHTTTGGGHHHHHHHHHHHHH-HTSSEEEEEECGGG
T ss_pred             CCCCeEEEECCCCCcHHHHHHHHHHHHCCCEEEEchHHHhhcccchHHHHHHHHHHHHH-hcCCeEEEechhhh
Confidence            4667899999999999999999999999999998754211  12234556777777664 45778888887653

>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=96.35  E-value=0.014  Score=55.07  Aligned_cols=75  Identities=17%  Similarity=0.266  Sum_probs=48.5

Q ss_pred             CceEEeccCCCcHhHHHHHHHHHcCC------------------------eEEEEEecCCCChhhHHHHHHHHHHHhc--
Q psy12736        448 GHCMVVGVEGGGKRSLVRLASFAAGY------------------------QVFTIQLSRGYNEASFKEDLKSLYNLLG--  501 (567)
Q Consensus       448 Gh~LLvG~~GsGr~sl~rlaa~i~~~------------------------~~~~i~~~k~y~~~~f~edLk~~~~~ag--  501 (567)
                      +.++|.|++|+||+++++..+...+.                        .++.+....    ....++++.++..+.  
T Consensus        46 ~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~  121 (250)
T 1njg_A           46 HAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLIEIDAAS----RTKVEDTRDLLDNVQYA  121 (250)
T ss_dssp             SEEEEECSTTSCHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHTTCCSSEEEEETTC----GGGHHHHHHHHHSCCCS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhccCCcceEEecCcc----cccHHHHHHHHHHhhhc
Confidence            35799999999999999877654432                        233333221    123456666666554  


Q ss_pred             -cCCCcEEEEEecCcccchhhhHHhh
Q psy12736        502 -VKNQATVFLFTAAEIVEEGYQVFTI  526 (567)
Q Consensus       502 -~~~~~~vfl~~d~qi~~e~fle~in  526 (567)
                       ..+++.+++++|.+-.++..++.+-
T Consensus       122 ~~~~~~~vlviDe~~~l~~~~~~~l~  147 (250)
T 1njg_A          122 PARGRFKVYLIDEVHMLSRHSFNALL  147 (250)
T ss_dssp             CSSSSSEEEEEETGGGSCHHHHHHHH
T ss_pred             hhcCCceEEEEECcccccHHHHHHHH
Confidence             3567899999998876655554443

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=96.35  E-value=0.0016  Score=60.98  Aligned_cols=27  Identities=22%  Similarity=0.530  Sum_probs=24.3

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhccCC
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      .+|++|+||+|+|||++++.++...+.
T Consensus         1 ~RpIVi~GPSG~GK~Tl~~~L~~~~~~   27 (186)
T 1ex7_A            1 SRPIVISGPSGTGKSTLLKKLFAEYPD   27 (186)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHCTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhCCC
Confidence            379999999999999999999988764

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=96.34  E-value=0.0013  Score=61.71  Aligned_cols=31  Identities=35%  Similarity=0.364  Sum_probs=24.2

Q ss_pred             HHHHhcC--CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        187 SLMNEIK--RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       187 ~~ll~~~--~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..++..+  .+++++||+|||||++++.+.+.+
T Consensus        30 ~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~   62 (226)
T 2chg_A           30 KGYVERKNIPHLLFSGPPGTGKTATAIALARDL   62 (226)
T ss_dssp             HHHHHTTCCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            3344444  469999999999999999988765

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A

Probab=96.32  E-value=0.0029  Score=63.33  Aligned_cols=79  Identities=11%  Similarity=0.109  Sum_probs=52.7

Q ss_pred             CceEEeccCCCcHhHHHHHHHHHc-----CCeEEEEEecCCCChhhHHHHHHHHHHHhccC-CCcEEEEEecCcccchhh
Q psy12736        448 GHCMVVGVEGGGKRSLVRLASFAA-----GYQVFTIQLSRGYNEASFKEDLKSLYNLLGVK-NQATVFLFTAAEIVEEGY  521 (567)
Q Consensus       448 Gh~LLvG~~GsGr~sl~rlaa~i~-----~~~~~~i~~~k~y~~~~f~edLk~~~~~ag~~-~~~~vfl~~d~qi~~e~f  521 (567)
                      .|+||.|++|+||+++++..+...     +..+..++.+...+....++.++......... +++.+++++|.+-.....
T Consensus        39 ~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~  118 (319)
T 2chq_A           39 PHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVVRHKIKEFARTAPIGGAPFKIIFLDEADALTADA  118 (319)
T ss_dssp             CCEEEESSSSSSHHHHHHHHHHHHHTTCHHHHCEEEETTSTTCTTTSSHHHHHHHHSCCSSSCCCEEEEEETGGGSCHHH
T ss_pred             CeEEEECcCCcCHHHHHHHHHHHhcCCcccCCeEEEeCccccChHHHHHHHHHHHhcCCCCCCCceEEEEeCCCcCCHHH
Confidence            479999999999999998776553     23466777665555555555555555444443 567888888877665544


Q ss_pred             hHHhh
Q psy12736        522 QVFTI  526 (567)
Q Consensus       522 le~in  526 (567)
                      .+.+-
T Consensus       119 ~~~L~  123 (319)
T 2chq_A          119 QAALR  123 (319)
T ss_dssp             HHTTG
T ss_pred             HHHHH
Confidence            44444

>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*

Probab=96.30  E-value=0.0085  Score=60.29  Aligned_cols=79  Identities=11%  Similarity=0.147  Sum_probs=53.4

Q ss_pred             CCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCChhhHHHHHHHHHHHhccCCCcEEEEEecCcccchhhhHHh
Q psy12736        446 SRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEGYQVFT  525 (567)
Q Consensus       446 p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~qi~~e~fle~i  525 (567)
                      +..++||.|++|+||+++++..+...+..++.+..+.....    .++...+..+  ...+.+++++|-+-......+.+
T Consensus        37 ~~~~vll~G~~GtGKT~la~~i~~~~~~~~~~~~~~~~~~~----~~l~~~l~~~--~~~~~~l~lDEi~~l~~~~~~~L  110 (324)
T 1hqc_A           37 PLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEKP----GDLAAILANS--LEEGDILFIDEIHRLSRQAEEHL  110 (324)
T ss_dssp             CCCCCEEECCTTCCCHHHHHHHHHHHTCCEEEECTTTCCSH----HHHHHHHTTT--CCTTCEEEETTTTSCCHHHHHHH
T ss_pred             CCCcEEEECCCCCCHHHHHHHHHHHhCCCEEEEeccccCCh----HHHHHHHHHh--ccCCCEEEEECCcccccchHHHH
Confidence            45789999999999999999999888888877765433333    3444444431  23566788888776665555544


Q ss_pred             h-hccC
Q psy12736        526 I-QLSR  530 (567)
Q Consensus       526 n-lL~~  530 (567)
                      - +|..
T Consensus       111 ~~~l~~  116 (324)
T 1hqc_A          111 YPAMED  116 (324)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            4 4443

>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=96.29  E-value=0.0066  Score=64.65  Aligned_cols=28  Identities=18%  Similarity=0.152  Sum_probs=23.8

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhccCC
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      ..+++||+||+|||||++++.+.+.+..
T Consensus       166 ~~~~vLL~GppGtGKT~lA~aia~~~~~  193 (444)
T 2zan_A          166 PWRGILLFGPPGTGKSYLAKAVATEANN  193 (444)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHHHHHCCS
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHcCC
Confidence            3478999999999999999998877633

>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=96.27  E-value=0.013  Score=60.31  Aligned_cols=89  Identities=18%  Similarity=0.204  Sum_probs=60.7

Q ss_pred             EEecHHHHHHHHHHHHH----------HhcCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCC--hhhHHHHH
Q psy12736        426 LVLFEDAREHLTRIHRA----------LRLSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYN--EASFKEDL  493 (567)
Q Consensus       426 lvlf~dai~hi~ri~Rv----------L~~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~--~~~f~edL  493 (567)
                      ++=..++++.+.+....          +..+..++||.|++|+||+++++..|...+..++.+..+.-.+  ..+....+
T Consensus        86 i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~~~~~~i~~~~l~~~~~g~~~~~~  165 (357)
T 3d8b_A           86 IAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQSGATFFSISASSLTSKWVGEGEKMV  165 (357)
T ss_dssp             SCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHHTTCEEEEEEGGGGCCSSTTHHHHHH
T ss_pred             hCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHHcCCeEEEEehHHhhccccchHHHHH
Confidence            33345555555544332          3345678999999999999999999999999999997654322  22344556


Q ss_pred             HHHHHHhccCCCcEEEEEecCc
Q psy12736        494 KSLYNLLGVKNQATVFLFTAAE  515 (567)
Q Consensus       494 k~~~~~ag~~~~~~vfl~~d~q  515 (567)
                      +.++..+. ..++.+++++|-+
T Consensus       166 ~~~~~~a~-~~~~~vl~iDEid  186 (357)
T 3d8b_A          166 RALFAVAR-CQQPAVIFIDEID  186 (357)
T ss_dssp             HHHHHHHH-HTCSEEEEEETHH
T ss_pred             HHHHHHHH-hcCCeEEEEeCch
Confidence            66666654 3567788888753

>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=96.26  E-value=0.004  Score=63.07  Aligned_cols=51  Identities=16%  Similarity=0.169  Sum_probs=33.0

Q ss_pred             CCCCccccccCcchhhHHHHHHHHHhc----CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        166 DKSFGDILVPTTDSTKLTWILSLMNEI----KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       166 ~~~~~~i~VpT~dtvR~~~ll~~ll~~----~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ...|.+.++..........+.. ++..    +.|++|+||+|||||++++.+.+.+
T Consensus         7 ~~~f~~fv~g~~~~~a~~~~~~-~~~~~~~~~~~lll~G~~GtGKT~la~~i~~~~   61 (324)
T 1l8q_A            7 KYTLENFIVGEGNRLAYEVVKE-ALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEA   61 (324)
T ss_dssp             TCCSSSCCCCTTTHHHHHHHHH-HHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHH
T ss_pred             CCCcccCCCCCcHHHHHHHHHH-HHhCcCCCCCeEEEECCCCCcHHHHHHHHHHHH
Confidence            3345554443333334444333 4433    3699999999999999999987765

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=96.26  E-value=0.016  Score=57.53  Aligned_cols=71  Identities=15%  Similarity=0.311  Sum_probs=50.2

Q ss_pred             HhcCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCC--hhhHHHHHHHHHHHhccCCCcEEEEEecCc
Q psy12736        443 LRLSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYN--EASFKEDLKSLYNLLGVKNQATVFLFTAAE  515 (567)
Q Consensus       443 L~~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~--~~~f~edLk~~~~~ag~~~~~~vfl~~d~q  515 (567)
                      +..|+| ++|+|++|+||++|+|..|...+...+.+.-..-.+  ..+....++.++..+. ...|.+.++++-+
T Consensus        41 l~~~~G-vlL~Gp~GtGKTtLakala~~~~~~~i~i~g~~l~~~~~~~~~~~i~~vf~~a~-~~~p~i~~~Deid  113 (274)
T 2x8a_A           41 LVTPAG-VLLAGPPGCGKTLLAKAVANESGLNFISVKGPELLNMYVGESERAVRQVFQRAK-NSAPCVIFFDEVD  113 (274)
T ss_dssp             CCCCSE-EEEESSTTSCHHHHHHHHHHHTTCEEEEEETTTTCSSTTHHHHHHHHHHHHHHH-HTCSEEEEEETCT
T ss_pred             CCCCCe-EEEECCCCCcHHHHHHHHHHHcCCCEEEEEcHHHHhhhhhHHHHHHHHHHHHHH-hcCCCeEeeehhh
Confidence            455677 999999999999999999999998877776432211  2345566777777763 2356666666543

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=96.24  E-value=0.015  Score=57.86  Aligned_cols=72  Identities=14%  Similarity=0.217  Sum_probs=51.1

Q ss_pred             hcCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCC--hhhHHHHHHHHHHHhccCCCcEEEEEecCcc
Q psy12736        444 RLSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYN--EASFKEDLKSLYNLLGVKNQATVFLFTAAEI  516 (567)
Q Consensus       444 ~~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~--~~~f~edLk~~~~~ag~~~~~~vfl~~d~qi  516 (567)
                      ..|..++||.|++|+||+++++..|...+..++.+..+.-.+  ..+....++.++..+. ...|.+++++|-+-
T Consensus        51 ~~~~~~vll~Gp~GtGKT~la~~la~~~~~~~~~i~~~~l~~~~~~~~~~~~~~~~~~~~-~~~~~vl~iDEid~  124 (297)
T 3b9p_A           51 RAPAKGLLLFGPPGNGKTLLARAVATECSATFLNISAASLTSKYVGDGEKLVRALFAVAR-HMQPSIIFIDEVDS  124 (297)
T ss_dssp             GCCCSEEEEESSSSSCHHHHHHHHHHHTTCEEEEEESTTTSSSSCSCHHHHHHHHHHHHH-HTCSEEEEEETGGG
T ss_pred             CCCCCeEEEECcCCCCHHHHHHHHHHHhCCCeEEeeHHHHhhcccchHHHHHHHHHHHHH-HcCCcEEEeccHHH
Confidence            456778999999999999999999999999999887654221  1123344555555553 35677888887543

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.17  E-value=0.0037  Score=66.28  Aligned_cols=27  Identities=19%  Similarity=0.208  Sum_probs=23.0

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ..+-+||+||||||||++++.+...+.
T Consensus       214 ~prGvLLyGPPGTGKTllAkAiA~e~~  240 (434)
T 4b4t_M          214 APKGALMYGPPGTGKTLLARACAAQTN  240 (434)
T ss_dssp             CCCEEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             CCCeeEEECcCCCCHHHHHHHHHHHhC
Confidence            456799999999999999999877653

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=96.15  E-value=0.01  Score=61.38  Aligned_cols=77  Identities=16%  Similarity=0.247  Sum_probs=47.6

Q ss_pred             hcCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecC----CCChhhHHHHHHHHHHHhc---cCCCcEEEEEecCcc
Q psy12736        444 RLSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSR----GYNEASFKEDLKSLYNLLG---VKNQATVFLFTAAEI  516 (567)
Q Consensus       444 ~~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k----~y~~~~f~edLk~~~~~ag---~~~~~~vfl~~d~qi  516 (567)
                      ..+.+|+||.|++|+||+++++..|...+..++.+..+.    +|.-.+....+..++..+.   ....+.+++++|.+-
T Consensus        69 ~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~vl~iDEi~~  148 (376)
T 1um8_A           69 ELSKSNILLIGPTGSGKTLMAQTLAKHLDIPIAISDATSLTEAGYVGEDVENILTRLLQASDWNVQKAQKGIVFIDEIDK  148 (376)
T ss_dssp             TCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEGGGCC--------CTHHHHHHHHHTTTCHHHHTTSEEEEETGGG
T ss_pred             ccCCCCEEEECCCCCCHHHHHHHHHHHhCCCEEEecchhhhhcCcCCccHHHHHHHHHhhccchhhhcCCeEEEEcCHHH
Confidence            446789999999999999999999999999998887543    2211122233444443321   012456777787765


Q ss_pred             cchh
Q psy12736        517 VEEG  520 (567)
Q Consensus       517 ~~e~  520 (567)
                      ....
T Consensus       149 l~~~  152 (376)
T 1um8_A          149 ISRL  152 (376)
T ss_dssp             C---
T ss_pred             Hhhh
Confidence            5444

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=96.13  E-value=0.017  Score=65.63  Aligned_cols=96  Identities=15%  Similarity=0.267  Sum_probs=64.5

Q ss_pred             HHHHHHhc-CCCceEEeccCCCcHhHHHHHHHHHc----------CCeEEEEEecCC----CChhhHHHHHHHHHHHhcc
Q psy12736        438 RIHRALRL-SRGHCMVVGVEGGGKRSLVRLASFAA----------GYQVFTIQLSRG----YNEASFKEDLKSLYNLLGV  502 (567)
Q Consensus       438 ri~RvL~~-p~Gh~LLvG~~GsGr~sl~rlaa~i~----------~~~~~~i~~~k~----y~~~~f~edLk~~~~~ag~  502 (567)
                      ++.++|.. ...|+||+|++|+||+++++..+...          +..++.+....-    -...+|.+.++.++..+..
T Consensus       197 ~l~~~l~~~~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~~~~l~~~~~~~g~~e~~l~~~~~~~~~  276 (758)
T 1r6b_X          197 RAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDFEKRFKALLKQLEQ  276 (758)
T ss_dssp             HHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCCCSSCHHHHHHHHHHHHSS
T ss_pred             HHHHHHhccCCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEcHHHHhccccccchHHHHHHHHHHHHHh
Confidence            44445554 46689999999999999998777653          667777654321    1234677888988887753


Q ss_pred             CCCcEEEEEecCccc---------chhhhHHhh-hccCCccc
Q psy12736        503 KNQATVFLFTAAEIV---------EEGYQVFTI-QLSRGYNE  534 (567)
Q Consensus       503 ~~~~~vfl~~d~qi~---------~e~fle~in-lL~~Gevp  534 (567)
                       .++.+++++|-+-.         .......++ ++..|++.
T Consensus       277 -~~~~iL~IDEi~~l~~~~~~~~~~~~~~~~L~~~l~~~~~~  317 (758)
T 1r6b_X          277 -DTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSGKIR  317 (758)
T ss_dssp             -SSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSSCCCE
T ss_pred             -cCCeEEEEechHHHhhcCCCCcchHHHHHHHHHHHhCCCeE
Confidence             35678888887654         233345566 77777765

>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=96.12  E-value=0.023  Score=61.01  Aligned_cols=70  Identities=19%  Similarity=0.260  Sum_probs=49.8

Q ss_pred             cCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCC--hhhHHHHHHHHHHHhccCCCcEEEEEecCcc
Q psy12736        445 LSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYN--EASFKEDLKSLYNLLGVKNQATVFLFTAAEI  516 (567)
Q Consensus       445 ~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~--~~~f~edLk~~~~~ag~~~~~~vfl~~d~qi  516 (567)
                      .|.| +||+|++|+||++++|..|.-.+..++.+..+.-..  ...-...++.++..|- .+.|.+++++|-+-
T Consensus        48 ~p~g-vLL~GppGtGKT~Laraia~~~~~~f~~is~~~~~~~~~g~~~~~~r~lf~~A~-~~~p~ILfIDEid~  119 (476)
T 2ce7_A           48 MPKG-ILLVGPPGTGKTLLARAVAGEANVPFFHISGSDFVELFVGVGAARVRDLFAQAK-AHAPCIVFIDEIDA  119 (476)
T ss_dssp             CCSE-EEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGTTTCCTTHHHHHHHHHHHHHH-HTCSEEEEEETGGG
T ss_pred             CCCe-EEEECCCCCCHHHHHHHHHHHcCCCeeeCCHHHHHHHHhcccHHHHHHHHHHHH-hcCCCEEEEechhh
Confidence            4555 999999999999999999999999999987553211  0111234566666663 35688888887643

>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=96.09  E-value=0.014  Score=58.94  Aligned_cols=72  Identities=19%  Similarity=0.296  Sum_probs=45.1

Q ss_pred             HHHHhcCC---CceEEeccCCCcHhHHHHHHHHHc---CCeEEEEEecCCCChhhHHHHHHHHHHHhcc------CCCcE
Q psy12736        440 HRALRLSR---GHCMVVGVEGGGKRSLVRLASFAA---GYQVFTIQLSRGYNEASFKEDLKSLYNLLGV------KNQAT  507 (567)
Q Consensus       440 ~RvL~~p~---Gh~LLvG~~GsGr~sl~rlaa~i~---~~~~~~i~~~k~y~~~~f~edLk~~~~~ag~------~~~~~  507 (567)
                      .+++..|.   .+++|.|++|+||+++++..+...   +..++.++..      ++.+++...+.....      ..++.
T Consensus        27 ~~~~~~~~~~~~~lll~G~~GtGKT~la~~i~~~~~~~~~~~~~i~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~  100 (324)
T 1l8q_A           27 KEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSAD------DFAQAMVEHLKKGTINEFRNMYKSVD  100 (324)
T ss_dssp             HHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHH------HHHHHHHHHHHHTCHHHHHHHHHTCS
T ss_pred             HHHHhCcCCCCCeEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEHH------HHHHHHHHHHHcCcHHHHHHHhcCCC
Confidence            34445553   578999999999999999888766   7888887643      233333322221110      12366


Q ss_pred             EEEEecCccc
Q psy12736        508 VFLFTAAEIV  517 (567)
Q Consensus       508 vfl~~d~qi~  517 (567)
                      +++++|-|-.
T Consensus       101 vL~iDEi~~l  110 (324)
T 1l8q_A          101 LLLLDDVQFL  110 (324)
T ss_dssp             EEEEECGGGG
T ss_pred             EEEEcCcccc
Confidence            7888886554

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=96.09  E-value=0.017  Score=58.59  Aligned_cols=72  Identities=18%  Similarity=0.270  Sum_probs=51.0

Q ss_pred             cCCCceEEeccCCCcHhHHHHHHHHHc-CCeEEEEEecCCCC--hhhHHHHHHHHHHHhccCCCcEEEEEecCccc
Q psy12736        445 LSRGHCMVVGVEGGGKRSLVRLASFAA-GYQVFTIQLSRGYN--EASFKEDLKSLYNLLGVKNQATVFLFTAAEIV  517 (567)
Q Consensus       445 ~p~Gh~LLvG~~GsGr~sl~rlaa~i~-~~~~~~i~~~k~y~--~~~f~edLk~~~~~ag~~~~~~vfl~~d~qi~  517 (567)
                      .|..++||.|++|+||+++++..|..+ +..++.+..+.-.+  ..+....++.++..+. ..+|.+++++|-+-.
T Consensus        43 ~~~~~iLL~GppGtGKT~la~ala~~~~~~~~~~i~~~~l~~~~~g~~~~~~~~lf~~a~-~~~~~vl~iDEid~l  117 (322)
T 1xwi_A           43 TPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLAR-ENKPSIIFIDEIDSL  117 (322)
T ss_dssp             CCCSEEEEESSSSSCHHHHHHHHHHHTTSCEEEEEECCSSCCSSCCSCHHHHHHHHHHHH-HTSSEEEEEETTTGG
T ss_pred             CCCceEEEECCCCccHHHHHHHHHHHcCCCcEEEEEhHHHHhhhhhHHHHHHHHHHHHHH-hcCCcEEEeecHHHh
Confidence            566789999999999999999888877 88888887543211  1122345666776663 456888888876543

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.08  E-value=0.0062  Score=63.78  Aligned_cols=28  Identities=21%  Similarity=0.214  Sum_probs=23.7

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ...+-+||.||||||||++++.+-....
T Consensus       180 ~~prGvLL~GPPGTGKTllAkAiA~e~~  207 (405)
T 4b4t_J          180 AQPKGVILYGPPGTGKTLLARAVAHHTD  207 (405)
T ss_dssp             CCCCCEEEESCSSSSHHHHHHHHHHHHT
T ss_pred             CCCCceEEeCCCCCCHHHHHHHHHHhhC
Confidence            3467899999999999999999877653

>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=96.07  E-value=0.0068  Score=60.71  Aligned_cols=72  Identities=15%  Similarity=0.259  Sum_probs=46.5

Q ss_pred             CceEEeccCCCcHhHHHHHHHHHc-----CCeEEEEEecCCCChhhHHHHHHHHHH-Hhcc-CCCcEEEEEecCcccch
Q psy12736        448 GHCMVVGVEGGGKRSLVRLASFAA-----GYQVFTIQLSRGYNEASFKEDLKSLYN-LLGV-KNQATVFLFTAAEIVEE  519 (567)
Q Consensus       448 Gh~LLvG~~GsGr~sl~rlaa~i~-----~~~~~~i~~~k~y~~~~f~edLk~~~~-~ag~-~~~~~vfl~~d~qi~~e  519 (567)
                      .|+||.|++|+||+++++..+...     +..++.++.+...+..+.++-++.+.. ..+. .+++.+++++|.+-...
T Consensus        43 ~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~viiiDe~~~l~~  121 (323)
T 1sxj_B           43 PHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGIDVVRNQIKHFAQKKLHLPPGKHKIVILDEADSMTA  121 (323)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSHHHHHTHHHHHHHBCCCCCTTCCEEEEEESGGGSCH
T ss_pred             CeEEEECcCCCCHHHHHHHHHHHhcCCcccCCEEEecCccccChHHHHHHHHHHHhccccCCCCCceEEEEECcccCCH
Confidence            469999999999999998776553     334666665544455544444443332 1233 45688888998776544

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=96.07  E-value=0.0021  Score=58.72  Aligned_cols=27  Identities=22%  Similarity=0.420  Sum_probs=23.4

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ...+++|+||+|||||++++.+.+.+.
T Consensus        42 ~~~~~ll~G~~G~GKT~l~~~~~~~~~   68 (195)
T 1jbk_A           42 TKNNPVLIGEPGVGKTAIVEGLAQRII   68 (195)
T ss_dssp             SSCEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHHHH
Confidence            357899999999999999999887653

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=96.06  E-value=0.0028  Score=64.52  Aligned_cols=37  Identities=5%  Similarity=-0.014  Sum_probs=28.3

Q ss_pred             HHHHHHHHHhc--CCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        182 LTWILSLMNEI--KRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       182 ~~~ll~~ll~~--~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ....+...+..  +.+++++||||||||++++.+++.+.
T Consensus        32 i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L~   70 (318)
T 3te6_A           32 IFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELI   70 (318)
T ss_dssp             HHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            33355555554  45699999999999999999998764

>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=96.04  E-value=0.046  Score=56.08  Aligned_cols=77  Identities=14%  Similarity=-0.026  Sum_probs=51.0

Q ss_pred             ceEEeccCCCcHhHHHHHHHHHc----CCeEEEEEecCCCChhh----------------------HHHHHHHHHHHhcc
Q psy12736        449 HCMVVGVEGGGKRSLVRLASFAA----GYQVFTIQLSRGYNEAS----------------------FKEDLKSLYNLLGV  502 (567)
Q Consensus       449 h~LLvG~~GsGr~sl~rlaa~i~----~~~~~~i~~~k~y~~~~----------------------f~edLk~~~~~ag~  502 (567)
                      +++|.|++|+||+++++..+...    +..++.++.....+..+                      ..+.+...+..   
T Consensus        46 ~~li~G~~G~GKTtl~~~l~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~---  122 (389)
T 1fnn_A           46 RATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRE---  122 (389)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCCSHHHHHHHHHHHTTCCCCSSCCCHHHHHHHHHHHHHH---
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHhhhcCeeEEEEeCccCCCHHHHHHHHHHHhCccCCCCCCCHHHHHHHHHHHHhh---
Confidence            68999999999999998877665    56677777544332222                      22222222222   


Q ss_pred             CCCcEEEEEecCcccchhhhHHhh-hc
Q psy12736        503 KNQATVFLFTAAEIVEEGYQVFTI-QL  528 (567)
Q Consensus       503 ~~~~~vfl~~d~qi~~e~fle~in-lL  528 (567)
                      .+++.+++++|.+-.++..++.+- ++
T Consensus       123 ~~~~~vlilDE~~~l~~~~~~~L~~~~  149 (389)
T 1fnn_A          123 RDLYMFLVLDDAFNLAPDILSTFIRLG  149 (389)
T ss_dssp             TTCCEEEEEETGGGSCHHHHHHHHHHT
T ss_pred             cCCeEEEEEECccccchHHHHHHHHHH
Confidence            356899999998877777766664 44

>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=96.03  E-value=0.013  Score=58.32  Aligned_cols=73  Identities=14%  Similarity=0.252  Sum_probs=47.4

Q ss_pred             CCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCC----CChhhHHHHHHHHHHHh-c-c--CCCcEEEEEecCccc
Q psy12736        446 SRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRG----YNEASFKEDLKSLYNLL-G-V--KNQATVFLFTAAEIV  517 (567)
Q Consensus       446 p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~----y~~~~f~edLk~~~~~a-g-~--~~~~~vfl~~d~qi~  517 (567)
                      +.+++||.|++|+||+++++..|...+..++.+..+.-    |-..+-...++.++..+ | +  .+.+.|++++|-+-.
T Consensus        49 ~~~~vll~G~~GtGKT~la~~la~~l~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vl~iDEi~~l  128 (310)
T 1ofh_A           49 TPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKI  128 (310)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGGSSCCSGGGSTTHHHHHHHHTTTTCHHHHHHHCEEEEECGGGG
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEcchhcccCCccCccHHHHHHHHHHHhhHHHhhccCCCEEEEEChhhc
Confidence            46789999999999999999999998999998876542    21111112233433322 0 0  023668888876654


Q ss_pred             c
Q psy12736        518 E  518 (567)
Q Consensus       518 ~  518 (567)
                      .
T Consensus       129 ~  129 (310)
T 1ofh_A          129 C  129 (310)
T ss_dssp             S
T ss_pred             C
Confidence            3

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A*

Probab=96.03  E-value=0.018  Score=61.36  Aligned_cols=66  Identities=14%  Similarity=0.110  Sum_probs=48.8

Q ss_pred             CCCceEEeccCCCcHhHHHHHHHHHcC--CeEEEEEecCC----CChhhHHHHHHHHHHHh-c-cCCCcEEEEEecC
Q psy12736        446 SRGHCMVVGVEGGGKRSLVRLASFAAG--YQVFTIQLSRG----YNEASFKEDLKSLYNLL-G-VKNQATVFLFTAA  514 (567)
Q Consensus       446 p~Gh~LLvG~~GsGr~sl~rlaa~i~~--~~~~~i~~~k~----y~~~~f~edLk~~~~~a-g-~~~~~~vfl~~d~  514 (567)
                      |.+++||.|++|+||+++++..|...+  ..++.+..+.-    .+..+   .++.++..| | ....|.+++++|-
T Consensus        62 ~~~~iLl~GppGtGKT~la~ala~~l~~~~~~~~~~~~~~~~~~~~~~~---~~~~~f~~a~~~~~~~~~il~iDEi  135 (456)
T 2c9o_A           62 AGRAVLLAGPPGTGKTALALAIAQELGSKVPFCPMVGSEVYSTEIKKTE---VLMENFRRAIGLRIKETKEVYEGEV  135 (456)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHHHHCTTSCEEEEEGGGGCCSSSCHHH---HHHHHHHHTEEEEEEEEEEEEEEEE
T ss_pred             CCCeEEEECCCcCCHHHHHHHHHHHhCCCceEEEEeHHHHHHHhhhhhH---HHHHHHHHHHhhhhcCCcEEEEech
Confidence            567899999999999999999999988  77888875432    33332   388888887 2 2456777776653

>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=96.00  E-value=0.0095  Score=61.45  Aligned_cols=71  Identities=15%  Similarity=0.306  Sum_probs=51.1

Q ss_pred             cCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecC---CCChhhHHHHHHHHHHHhccCCCcEEEEEecCccc
Q psy12736        445 LSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSR---GYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIV  517 (567)
Q Consensus       445 ~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k---~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~qi~  517 (567)
                      .|..++||.|++|+||+++++..|...+..++.+..+.   .|- .+....++.++..+. .++|.+++++|-+-.
T Consensus        82 ~~~~~iLL~GppGtGKT~la~ala~~~~~~~~~v~~~~l~~~~~-g~~~~~~~~~f~~a~-~~~~~vl~iDEid~l  155 (355)
T 2qp9_X           82 KPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWM-GESEKLVKQLFAMAR-ENKPSIIFIDQVDAL  155 (355)
T ss_dssp             CCCCCEEEECSTTSCHHHHHHHHHHHHTCEEEEEEHHHHHSCC----CHHHHHHHHHHHH-HTSSEEEEEECGGGG
T ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEeeHHHHhhhhc-chHHHHHHHHHHHHH-HcCCeEEEEechHhh
Confidence            45568999999999999999999999999999986432   221 122345666666653 457888888876643

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=95.99  E-value=0.0067  Score=65.05  Aligned_cols=82  Identities=12%  Similarity=0.251  Sum_probs=50.4

Q ss_pred             EEecHHHHHHHHHHHHHHh-cCCCceEEeccCCCcHhHHHHHHHHH----------cCCeEEEEEecCCCChhhHHHHHH
Q psy12736        426 LVLFEDAREHLTRIHRALR-LSRGHCMVVGVEGGGKRSLVRLASFA----------AGYQVFTIQLSRGYNEASFKEDLK  494 (567)
Q Consensus       426 lvlf~dai~hi~ri~RvL~-~p~Gh~LLvG~~GsGr~sl~rlaa~i----------~~~~~~~i~~~k~y~~~~f~edLk  494 (567)
                      ++=-++.++.+..   +|. ...+|+||+|++|+||+++++..|..          .+..++.++.+.. ...+|.+.++
T Consensus       182 iiGr~~~i~~l~~---~l~r~~~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~~-~~g~~e~~~~  257 (468)
T 3pxg_A          182 VIGRSKEIQRVIE---VLSRRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMGTK-YRGEFEDRLK  257 (468)
T ss_dssp             CCCCHHHHHHHHH---HHHCSSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC-----------CTTHH
T ss_pred             ccCcHHHHHHHHH---HHhccCCCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeCCcc-ccchHHHHHH
Confidence            4445556665544   443 35679999999999999999987766          3778888877622 2345556777


Q ss_pred             HHHHHhccCCCcEEEEEe
Q psy12736        495 SLYNLLGVKNQATVFLFT  512 (567)
Q Consensus       495 ~~~~~ag~~~~~~vfl~~  512 (567)
                      .++..+.. ..+.+++++
T Consensus       258 ~~~~~~~~-~~~~iLfiD  274 (468)
T 3pxg_A          258 KVMDEIRQ-AGNIILFID  274 (468)
T ss_dssp             HHHHHHHT-CCCCEEEEC
T ss_pred             HHHHHHHh-cCCeEEEEe
Confidence            87776643 345555554

>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=95.99  E-value=0.0044  Score=60.33  Aligned_cols=27  Identities=15%  Similarity=0.282  Sum_probs=23.2

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ....++||+||+|||||++++.+.+.+
T Consensus        37 ~~~~~vll~G~~GtGKT~la~~la~~~   63 (262)
T 2qz4_A           37 KVPKGALLLGPPGCGKTLLAKAVATEA   63 (262)
T ss_dssp             CCCCEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            345789999999999999999887765

>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=95.97  E-value=0.012  Score=66.89  Aligned_cols=69  Identities=19%  Similarity=0.277  Sum_probs=55.3

Q ss_pred             cCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEe----cCCCChhhHHHHHHHHHHHhccCCCcEEEEEecCcc
Q psy12736        445 LSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQL----SRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEI  516 (567)
Q Consensus       445 ~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~----~k~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~qi  516 (567)
                      .|..++||.|++|+||+.++|..|.-++..++.+..    ++.++..  ...++.++..|- ++.|.++++++-+.
T Consensus       236 ~~p~GILL~GPPGTGKT~LAraiA~elg~~~~~v~~~~l~sk~~ges--e~~lr~lF~~A~-~~~PsIIfIDEiDa  308 (806)
T 3cf2_A          236 KPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGES--ESNLRKAFEEAE-KNAPAIIFIDELDA  308 (806)
T ss_dssp             CCCCEEEEECCTTSCHHHHHHHHHTTTTCEEEEEEHHHHHSSCTTHH--HHHHHHHHHHHT-TSCSEEEEEESGGG
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHHHHhCCeEEEEEhHHhhcccchHH--HHHHHHHHHHHH-HcCCeEEEEehhcc
Confidence            345679999999999999999999999999999973    4555544  366888888884 67899999887544

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=95.96  E-value=0.011  Score=59.25  Aligned_cols=65  Identities=14%  Similarity=0.132  Sum_probs=47.2

Q ss_pred             ceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecC---CCChhhHHHHHHHHHHHhc---cCCCcEEEEEecC
Q psy12736        449 HCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSR---GYNEASFKEDLKSLYNLLG---VKNQATVFLFTAA  514 (567)
Q Consensus       449 h~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k---~y~~~~f~edLk~~~~~ag---~~~~~~vfl~~d~  514 (567)
                      .+||.|++|+||+++++..|.-.+..++.+..+.   .|- .+-...++.++..|.   ....|.|++++|-
T Consensus        38 ~lLl~GppGtGKT~la~aiA~~l~~~~i~v~~~~l~~~~~-g~~~~~i~~~f~~a~~~~~~~~~~vl~iDEi  108 (293)
T 3t15_A           38 ILGIWGGKGQGKSFQCELVFRKMGINPIMMSAGELESGNA-GEPAKLIRQRYREAAEIIRKGNMCCLFINDL  108 (293)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHTCCCEEEEHHHHHCC----HHHHHHHHHHHHHHHHHTTSSCCCEEEECC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCEEEEeHHHhhhccC-chhHHHHHHHHHHHHHHHhcCCCeEEEEech
Confidence            5788899999999999999999999999997432   221 112345666776662   3567888888875

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=95.96  E-value=0.022  Score=61.50  Aligned_cols=69  Identities=17%  Similarity=0.248  Sum_probs=48.8

Q ss_pred             cCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCC--hhhHHHHHHHHHHHhccCCCcEEEEEecCc
Q psy12736        445 LSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYN--EASFKEDLKSLYNLLGVKNQATVFLFTAAE  515 (567)
Q Consensus       445 ~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~--~~~f~edLk~~~~~ag~~~~~~vfl~~d~q  515 (567)
                      .|.| +||+|++|+||++|+|..|...+..++.+..+.-..  .......++.++..+. ...|.++++++-+
T Consensus        63 ip~G-vLL~GppGtGKTtLaraIa~~~~~~~i~i~g~~~~~~~~g~~~~~v~~lfq~a~-~~~p~il~IDEId  133 (499)
T 2dhr_A           63 IPKG-VLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAK-RHAPCIVFIDEID  133 (499)
T ss_dssp             CCSE-EEEECSSSSSHHHHHHHHHHHTTCCEEEEEGGGGTSSCTTHHHHHHHHHTTTSS-SSSSCEEEEECGG
T ss_pred             CCce-EEEECCCCCCHHHHHHHHHHHhCCCEEEEehhHHHHhhhhhHHHHHHHHHHHHH-hcCCCEEEEehHH
Confidence            4666 999999999999999999999998888886542111  1233455666666653 3456777777664

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20

Probab=95.91  E-value=0.014  Score=58.54  Aligned_cols=74  Identities=12%  Similarity=0.139  Sum_probs=46.0

Q ss_pred             CceEEeccCCCcHhHHHHHHHHHcC-----CeEEEEEecCCCChhhHHHHHHHHHHHhccC-CCcEEEEEecCcccchhh
Q psy12736        448 GHCMVVGVEGGGKRSLVRLASFAAG-----YQVFTIQLSRGYNEASFKEDLKSLYNLLGVK-NQATVFLFTAAEIVEEGY  521 (567)
Q Consensus       448 Gh~LLvG~~GsGr~sl~rlaa~i~~-----~~~~~i~~~k~y~~~~f~edLk~~~~~ag~~-~~~~vfl~~d~qi~~e~f  521 (567)
                      +|+||.|++|+||+++++..+....     ..++.+..+...+....++.++......... +++.+++++|.+-.....
T Consensus        47 ~~~ll~G~~G~GKT~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~  126 (327)
T 1iqp_A           47 PHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERGINVIREKVKEFARTKPIGGASFKIIFLDEADALTQDA  126 (327)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHHHHHTTHHHHHHHHHSCCGGGCSCEEEEEETGGGSCHHH
T ss_pred             CeEEEECcCCCCHHHHHHHHHHHhcCCcccCceEEeeccccCchHHHHHHHHHHHhhCCcCCCCCeEEEEeCCCcCCHHH
Confidence            4799999999999999987765532     2355565443223333444444444333333 567888888877655443

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.90  E-value=0.0067  Score=64.34  Aligned_cols=27  Identities=19%  Similarity=0.257  Sum_probs=23.2

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      -.+-+||+||||||||++++.+...+.
T Consensus       214 ~prGvLL~GPPGtGKTllAkAiA~e~~  240 (437)
T 4b4t_L          214 PPKGVLLYGPPGTGKTLLAKAVAATIG  240 (437)
T ss_dssp             CCCEEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHhC
Confidence            357899999999999999999877653

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=95.88  E-value=0.0072  Score=62.35  Aligned_cols=70  Identities=13%  Similarity=0.182  Sum_probs=47.9

Q ss_pred             CCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCC----CChhhHHHHHHHHHHHhcc---CCCcEEEEEecCc
Q psy12736        446 SRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRG----YNEASFKEDLKSLYNLLGV---KNQATVFLFTAAE  515 (567)
Q Consensus       446 p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~----y~~~~f~edLk~~~~~ag~---~~~~~vfl~~d~q  515 (567)
                      |.+|+||.|++|+||++++|..|...+..++.+..+.-    |--.+....++.++..+..   ...+.++++++-+
T Consensus        50 ~~~~vll~GppGtGKT~la~~ia~~~~~~~~~~~~~~l~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~vl~lDEid  126 (363)
T 3hws_A           50 GKSNILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQKCDYDVQKAQRGIVYIDQID  126 (363)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHTTCHHHHHHHTHHHHHHHHHTTTCHHHHHHCEEEEECHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHcCCCEEEechHHhcccccccccHHHHHHHHHHHhhhhHHhcCCcEEEEeChh
Confidence            67899999999999999999999999999999876531    1111112334455544421   1346677787765

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=95.85  E-value=0.0045  Score=61.23  Aligned_cols=27  Identities=22%  Similarity=0.222  Sum_probs=23.8

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ....++||+||+|||||++++.+.+.+
T Consensus        49 ~~~~~~ll~G~~GtGKT~la~~la~~~   75 (285)
T 3h4m_A           49 EPPKGILLYGPPGTGKTLLAKAVATET   75 (285)
T ss_dssp             CCCSEEEEESSSSSSHHHHHHHHHHHT
T ss_pred             CCCCeEEEECCCCCcHHHHHHHHHHHh
Confidence            457889999999999999999987765

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=95.82  E-value=0.035  Score=53.86  Aligned_cols=101  Identities=17%  Similarity=0.239  Sum_probs=61.8

Q ss_pred             cccccChHHHHHHHHHHHHHHhhhhcccCcceEEecHHHHHHHHHHHHHHhcCCCceEEeccCCCcHhHHHHHHHHHcCC
Q psy12736        394 YEDLLDYSAVGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVRLASFAAGY  473 (567)
Q Consensus       394 Y~~v~d~~~l~~~~~~~l~~yn~~~~~~~~~~lvlf~dai~hi~ri~RvL~~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~  473 (567)
                      ++++.-.+..+..+++....|...             .++..+.     ++.|.| ++|+|++|+||+++++..|...+.
T Consensus        15 ~~~i~g~~~~~~~l~~l~~~~~~~-------------~~~~~~~-----~~~~~g-~ll~G~~G~GKTtl~~~i~~~~~~   75 (254)
T 1ixz_A           15 FKDVAGAEEAKEELKEIVEFLKNP-------------SRFHEMG-----ARIPKG-VLLVGPPGVGKTHLARAVAGEARV   75 (254)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHHHCH-------------HHHHHTT-----CCCCSE-EEEECCTTSSHHHHHHHHHHHTTC
T ss_pred             HHHhCCcHHHHHHHHHHHHHHHCH-------------HHHHHcC-----CCCCCe-EEEECCCCCCHHHHHHHHHHHhCC
Confidence            445555556666666655555322             1122111     345677 999999999999999999998887


Q ss_pred             eEEEEEecC--CCChhhHHHHHHHHHHHhccCCCcEEEEEecC
Q psy12736        474 QVFTIQLSR--GYNEASFKEDLKSLYNLLGVKNQATVFLFTAA  514 (567)
Q Consensus       474 ~~~~i~~~k--~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~  514 (567)
                      ..+.+.-..  .....+....++.++..+. ...|.++++++-
T Consensus        76 ~~i~~~~~~~~~~~~~~~~~~i~~~~~~~~-~~~~~i~~~Dei  117 (254)
T 1ixz_A           76 PFITASGSDFVEMFVGVGAARVRDLFETAK-RHAPCIVFIDEI  117 (254)
T ss_dssp             CEEEEEHHHHHHSCTTHHHHHHHHHHHHHT-TSSSEEEEEETH
T ss_pred             CEEEeeHHHHHHHHhhHHHHHHHHHHHHHH-hcCCeEEEehhh
Confidence            777665321  0111233456777777764 235667777665

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=95.81  E-value=0.0046  Score=63.53  Aligned_cols=37  Identities=32%  Similarity=0.517  Sum_probs=27.3

Q ss_pred             HHHHHHHHHhcC---CCeEEeccCCCCchhhHHHHHhccC
Q psy12736        182 LTWILSLMNEIK---RPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       182 ~~~ll~~ll~~~---~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ...+.+.+-...   +++||+||+|||||++++.+.+.+.
T Consensus        56 l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~la~~l~   95 (368)
T 3uk6_A           56 AGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQALG   95 (368)
T ss_dssp             HHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHHHHHhc
Confidence            334444444433   4699999999999999999988764

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=95.78  E-value=0.0059  Score=59.85  Aligned_cols=26  Identities=27%  Similarity=0.331  Sum_probs=22.8

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..+++||+||+|||||++++.+.+.+
T Consensus        43 ~~~~vll~G~~GtGKT~la~~la~~~   68 (268)
T 2r62_A           43 IPKGVLLVGPPGTGKTLLAKAVAGEA   68 (268)
T ss_dssp             CCSCCCCBCSSCSSHHHHHHHHHHHH
T ss_pred             CCceEEEECCCCCcHHHHHHHHHHHh
Confidence            36789999999999999999987765

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=95.77  E-value=0.029  Score=54.80  Aligned_cols=96  Identities=10%  Similarity=0.119  Sum_probs=59.0

Q ss_pred             HHHHHHHHHHHHHhcCCCceEEeccCCCcHhHHHHHHHHHcC---CeEEEEEecCCCChhhHHHHHH-------------
Q psy12736        431 DAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVRLASFAAG---YQVFTIQLSRGYNEASFKEDLK-------------  494 (567)
Q Consensus       431 dai~hi~ri~RvL~~p~Gh~LLvG~~GsGr~sl~rlaa~i~~---~~~~~i~~~k~y~~~~f~edLk-------------  494 (567)
                      .++..+.+..+.+....+++||.|++|+||+++++..+....   ..++.++.+.- ........|-             
T Consensus        13 ~~~~~~~~~~~~~~~~~~~vll~G~~GtGKt~la~~i~~~~~~~~~~~~~v~~~~~-~~~~~~~~l~g~~~~~~~g~~~~   91 (265)
T 2bjv_A           13 NSFLEVLEQVSHLAPLDKPVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAAL-NENLLDSELFGHEAGAFTGAQKR   91 (265)
T ss_dssp             HHHHHHHHHHHHHTTSCSCEEEECCTTSCHHHHHHHHHHTSTTTTSCEEEEEGGGS-CHHHHHHHHHCCC---------C
T ss_pred             HHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhcCccCCCeEEEecCCC-ChhHHHHHhcCCccccccccccc
Confidence            455555544444445568999999999999999999887764   56777776532 2221122221             


Q ss_pred             --HHHHHhccCCCcEEEEEecCcccchhhhHHhh-hccCC
Q psy12736        495 --SLYNLLGVKNQATVFLFTAAEIVEEGYQVFTI-QLSRG  531 (567)
Q Consensus       495 --~~~~~ag~~~~~~vfl~~d~qi~~e~fle~in-lL~~G  531 (567)
                        ..+..+    ..-+++++|-+-......+.+. +|..|
T Consensus        92 ~~~~l~~a----~~~~l~lDEi~~l~~~~q~~Ll~~l~~~  127 (265)
T 2bjv_A           92 HPGRFERA----DGGTLFLDELATAPMMVQEKLLRVIEYG  127 (265)
T ss_dssp             CCCHHHHT----TTSEEEEESGGGSCHHHHHHHHHHHHHC
T ss_pred             ccchhhhc----CCcEEEEechHhcCHHHHHHHHHHHHhC
Confidence              011112    2347778888777766666666 66654

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.76  E-value=0.009  Score=63.53  Aligned_cols=28  Identities=18%  Similarity=0.216  Sum_probs=23.8

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ...+-+||+||||||||++++.+-+.+.
T Consensus       241 ~pprGILLyGPPGTGKTlLAkAiA~e~~  268 (467)
T 4b4t_H          241 DPPKGILLYGPPGTGKTLCARAVANRTD  268 (467)
T ss_dssp             CCCSEEEECSCTTSSHHHHHHHHHHHHT
T ss_pred             CCCCceEeeCCCCCcHHHHHHHHHhccC
Confidence            4567899999999999999998877643

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A

Probab=95.75  E-value=0.004  Score=62.35  Aligned_cols=32  Identities=38%  Similarity=0.406  Sum_probs=24.9

Q ss_pred             HHHHHhcCC--CeEEeccCCCCchhhHHHHHhcc
Q psy12736        186 LSLMNEIKR--PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       186 l~~ll~~~~--pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +..++..+.  |+|++||+|||||++++.+.+.+
T Consensus        29 l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l   62 (319)
T 2chq_A           29 LKGYVERKNIPHLLFSGPPGTGKTATAIALARDL   62 (319)
T ss_dssp             HHTTTTTTCCCCEEEESSSSSSHHHHHHHHHHHH
T ss_pred             HHHHHhCCCCCeEEEECcCCcCHHHHHHHHHHHh
Confidence            334444444  79999999999999999887764

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=95.71  E-value=0.0027  Score=57.84  Aligned_cols=27  Identities=30%  Similarity=0.405  Sum_probs=23.5

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ...+++++||+|||||++++.+.+.+.
T Consensus        42 ~~~~vll~G~~G~GKT~la~~~~~~~~   68 (187)
T 2p65_A           42 TKNNPILLGDPGVGKTAIVEGLAIKIV   68 (187)
T ss_dssp             SSCEEEEESCGGGCHHHHHHHHHHHHH
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHHHH
Confidence            367899999999999999999887653

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=95.70  E-value=0.01  Score=64.40  Aligned_cols=38  Identities=37%  Similarity=0.420  Sum_probs=31.7

Q ss_pred             HHHHHHHhcCCCeEEeccCCCCchhhHHHHHhccCCCc
Q psy12736        184 WILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLSPDK  221 (567)
Q Consensus       184 ~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~~~~  221 (567)
                      ..+...+..+..++++||||||||++++.++.-+++..
T Consensus       251 ~~l~~~v~~g~~i~I~GptGSGKTTlL~aL~~~i~~~~  288 (511)
T 2oap_1          251 AYLWLAIEHKFSAIVVGETASGKTTTLNAIMMFIPPDA  288 (511)
T ss_dssp             HHHHHHHHTTCCEEEEESTTSSHHHHHHHHGGGSCTTC
T ss_pred             HHHHHHHhCCCEEEEECCCCCCHHHHHHHHHhhCCCCC
Confidence            44567788999999999999999999999887776543

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G

Probab=95.70  E-value=0.0071  Score=61.54  Aligned_cols=28  Identities=25%  Similarity=0.302  Sum_probs=24.5

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ....|+||+||+|||||++++.+.+.+.
T Consensus        43 ~~~~~vLl~G~~GtGKT~la~~la~~~~   70 (350)
T 1g8p_A           43 PGIGGVLVFGDRGTGKSTAVRALAALLP   70 (350)
T ss_dssp             GGGCCEEEECCGGGCTTHHHHHHHHHSC
T ss_pred             CCCceEEEECCCCccHHHHHHHHHHhCc
Confidence            3567899999999999999999888765

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=95.66  E-value=0.025  Score=57.07  Aligned_cols=87  Identities=7%  Similarity=0.022  Sum_probs=53.4

Q ss_pred             HHHHHhcCC---CeEEeccCCCCchhhHHHHHhccCCCcceeee--------------c----CCCCCceEEEEe-e---
Q psy12736        186 LSLMNEIKR---PCIVVGDTGTSKTATMMNFLRSLSPDKYLVIA--------------E----LPPTPAKFHYIF-N---  240 (567)
Q Consensus       186 l~~ll~~~~---pvLl~GptGtGKT~~i~~~l~~l~~~~~~~~~--------------e----gPp~gkk~v~iF-N---  240 (567)
                      +..++..++   .+|+.||+|||||++++.+.+.+. ..+..++              +    .|..|++.++++ +   
T Consensus        38 l~~~l~~~~~~~~~L~~G~~G~GKT~la~~la~~l~-~~~~~i~~~~~~~~~i~~~~~~~~~~~~~~~~~~vliiDEi~~  116 (324)
T 3u61_B           38 FKSITSKGKIPHIILHSPSPGTGKTTVAKALCHDVN-ADMMFVNGSDCKIDFVRGPLTNFASAASFDGRQKVIVIDEFDR  116 (324)
T ss_dssp             HHHHHHTTCCCSEEEECSSTTSSHHHHHHHHHHHTT-EEEEEEETTTCCHHHHHTHHHHHHHBCCCSSCEEEEEEESCCC
T ss_pred             HHHHHHcCCCCeEEEeeCcCCCCHHHHHHHHHHHhC-CCEEEEcccccCHHHHHHHHHHHHhhcccCCCCeEEEEECCcc
Confidence            444555443   457778899999999999887763 2233332              0    344455555244 2   


Q ss_pred             cc--ch----------------------------hhhhhccccccccccCCHHHHHHHHHHhhh
Q psy12736        241 LR--DL----------------------------SRIIQGLTATEKIIFNTKEMFVRAWRNEFT  274 (567)
Q Consensus       241 l~--D~----------------------------~R~~rg~f~~~~~~~~s~~sl~~I~~~il~  274 (567)
                      +.  +.                            .++.+ +|.++.++.|+.+....|+..++.
T Consensus       117 l~~~~~~~~L~~~le~~~~~~~iI~~~n~~~~l~~~l~s-R~~~i~~~~~~~~e~~~il~~~~~  179 (324)
T 3u61_B          117 SGLAESQRHLRSFMEAYSSNCSIIITANNIDGIIKPLQS-RCRVITFGQPTDEDKIEMMKQMIR  179 (324)
T ss_dssp             GGGHHHHHHHHHHHHHHGGGCEEEEEESSGGGSCTTHHH-HSEEEECCCCCHHHHHHHHHHHHH
T ss_pred             cCcHHHHHHHHHHHHhCCCCcEEEEEeCCccccCHHHHh-hCcEEEeCCCCHHHHHHHHHHHHH
Confidence            11  10                            05556 778888899998887776665544

>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=95.66  E-value=0.026  Score=51.66  Aligned_cols=63  Identities=19%  Similarity=0.145  Sum_probs=39.9

Q ss_pred             CCceEEeccCCCcHhHHHHHHHHHc----CCeEEEEEecCCCChhhHHHHHHHHHHHhccC------CCcEEEEEecCc
Q psy12736        447 RGHCMVVGVEGGGKRSLVRLASFAA----GYQVFTIQLSRGYNEASFKEDLKSLYNLLGVK------NQATVFLFTAAE  515 (567)
Q Consensus       447 ~Gh~LLvG~~GsGr~sl~rlaa~i~----~~~~~~i~~~k~y~~~~f~edLk~~~~~ag~~------~~~~vfl~~d~q  515 (567)
                      +.+++|+|++|+||++|++..+...    |..+..+      +..++.+.++..+......      .++-+++++|-+
T Consensus        38 g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~llilDE~~  110 (180)
T 3ec2_A           38 GKGLTFVGSPGVGKTHLAVATLKAIYEKKGIRGYFF------DTKDLIFRLKHLMDEGKDTKFLKTVLNSPVLVLDDLG  110 (180)
T ss_dssp             CCEEEECCSSSSSHHHHHHHHHHHHHHHSCCCCCEE------EHHHHHHHHHHHHHHTCCSHHHHHHHTCSEEEEETCS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHHcCCeEEEE------EHHHHHHHHHHHhcCchHHHHHHHhcCCCEEEEeCCC
Confidence            4467999999999999998877654    5544443      3445555555544332211      245677777765

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=95.60  E-value=0.027  Score=59.87  Aligned_cols=88  Identities=14%  Similarity=0.104  Sum_probs=54.0

Q ss_pred             HHHHHHhcCC--CceEEeccCCCcHhHHHHHHHHHc-----CCeEEEEEecCCCChhhHHHHHHHHHHHhc-------cC
Q psy12736        438 RIHRALRLSR--GHCMVVGVEGGGKRSLVRLASFAA-----GYQVFTIQLSRGYNEASFKEDLKSLYNLLG-------VK  503 (567)
Q Consensus       438 ri~RvL~~p~--Gh~LLvG~~GsGr~sl~rlaa~i~-----~~~~~~i~~~k~y~~~~f~edLk~~~~~ag-------~~  503 (567)
                      .+.++...|+  .+++|.|++|+||++|++..+...     +..+..+...      ++..++...+....       ..
T Consensus       119 ~~~~~a~~~~~~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~~~------~~~~~~~~~~~~~~~~~~~~~~~  192 (440)
T 2z4s_A          119 AALEVAKHPGRYNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSE------KFLNDLVDSMKEGKLNEFREKYR  192 (440)
T ss_dssp             HHHHHHHSTTSSCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEEHH------HHHHHHHHHHHTTCHHHHHHHHT
T ss_pred             HHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHH------HHHHHHHHHHHcccHHHHHHHhc
Confidence            3445555664  578999999999999999888766     6777776533      33444433332211       11


Q ss_pred             CCcEEEEEecCcccc------hhhhHHhh-hccCC
Q psy12736        504 NQATVFLFTAAEIVE------EGYQVFTI-QLSRG  531 (567)
Q Consensus       504 ~~~~vfl~~d~qi~~------e~fle~in-lL~~G  531 (567)
                      .++.+++++|-+-..      +.++..+| +...|
T Consensus       193 ~~~~vL~IDEi~~l~~~~~~q~~l~~~l~~l~~~~  227 (440)
T 2z4s_A          193 KKVDILLIDDVQFLIGKTGVQTELFHTFNELHDSG  227 (440)
T ss_dssp             TTCSEEEEECGGGGSSCHHHHHHHHHHHHHHHTTT
T ss_pred             CCCCEEEEeCcccccCChHHHHHHHHHHHHHHHCC
Confidence            256788888865433      34556655 54433

>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=95.59  E-value=0.017  Score=59.08  Aligned_cols=73  Identities=16%  Similarity=0.260  Sum_probs=45.9

Q ss_pred             Cc-eEEeccCCCcHhHHHHHHHHHcCC------------------------eEEEEEecCCCChhhHHHHHHHHHHHh--
Q psy12736        448 GH-CMVVGVEGGGKRSLVRLASFAAGY------------------------QVFTIQLSRGYNEASFKEDLKSLYNLL--  500 (567)
Q Consensus       448 Gh-~LLvG~~GsGr~sl~rlaa~i~~~------------------------~~~~i~~~k~y~~~~f~edLk~~~~~a--  500 (567)
                      +| +|+.|++|+||+++++..+...++                        +++.+.....-+..+    ++.++..+  
T Consensus        38 ~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~l~~~~~~  113 (373)
T 1jr3_A           38 HHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLIEIDAASRTKVED----TRDLLDNVQY  113 (373)
T ss_dssp             CSEEEEESCTTSSHHHHHHHHHHHHSCTTCSCSSCCSSSHHHHHHHTSCCSSCEEEETTCSCCSSC----HHHHHHHTTS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhccCCCceEEecccccCCHHH----HHHHHHHHhh
Confidence            45 589999999999999877765543                        345554433233333    33344333  


Q ss_pred             -ccCCCcEEEEEecCcccchhhhHH
Q psy12736        501 -GVKNQATVFLFTAAEIVEEGYQVF  524 (567)
Q Consensus       501 -g~~~~~~vfl~~d~qi~~e~fle~  524 (567)
                       ...+++.+++++|.+-.+....+.
T Consensus       114 ~~~~~~~~vliiDe~~~l~~~~~~~  138 (373)
T 1jr3_A          114 APARGRFKVYLIDEVHMLSRHSFNA  138 (373)
T ss_dssp             CCSSSSSEEEEEECGGGSCHHHHHH
T ss_pred             ccccCCeEEEEEECcchhcHHHHHH
Confidence             345678899999987765544333

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=95.57  E-value=0.01  Score=59.87  Aligned_cols=37  Identities=16%  Similarity=0.232  Sum_probs=29.1

Q ss_pred             hHHHHHHHHHhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        181 KLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       181 R~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +....+......+.|||++||||||||++++.+-...
T Consensus        13 ~~~~~~~~~a~~~~~vLi~Ge~GtGKt~lAr~i~~~~   49 (304)
T 1ojl_A           13 HLLNEIAMVAPSDATVLIHGDSGTGKELVARALHACS   49 (304)
T ss_dssp             HHHHHHHHHCSTTSCEEEESCTTSCHHHHHHHHHHHS
T ss_pred             HHHHHHHHHhCCCCcEEEECCCCchHHHHHHHHHHhC
Confidence            3444455556688999999999999999998887654

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=95.57  E-value=0.051  Score=54.40  Aligned_cols=68  Identities=13%  Similarity=0.278  Sum_probs=48.0

Q ss_pred             cCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCC----CChhhHHHHHHHHHHHhccCCCcEEEEEecCc
Q psy12736        445 LSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRG----YNEASFKEDLKSLYNLLGVKNQATVFLFTAAE  515 (567)
Q Consensus       445 ~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~----y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~q  515 (567)
                      .|..++||.|++|+||++++|..|...+..++.+..+.-    ++..  ...++.++..|. ...|.+++++|-+
T Consensus        47 ~~~~~vLL~Gp~GtGKT~la~ala~~~~~~~i~v~~~~l~~~~~g~~--~~~~~~~f~~a~-~~~p~il~iDEid  118 (301)
T 3cf0_A           47 TPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGES--EANVREIFDKAR-QAAPCVLFFDELD  118 (301)
T ss_dssp             CCCSEEEEECSSSSSHHHHHHHHHHHTTCEEEEECHHHHHHHHHTTC--TTHHHHHHHHHH-HTCSEEEEECSTT
T ss_pred             CCCceEEEECCCCcCHHHHHHHHHHHhCCCEEEEEhHHHHhhhcCch--HHHHHHHHHHHH-hcCCeEEEEEChH
Confidence            455678999999999999999999999998888753210    1111  134566666663 3467888888754

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=95.56  E-value=0.0053  Score=58.07  Aligned_cols=32  Identities=19%  Similarity=0.240  Sum_probs=24.9

Q ss_pred             HHHHhcCC---CeEEeccCCCCchhhHHHHHhccC
Q psy12736        187 SLMNEIKR---PCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       187 ~~ll~~~~---pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ..++..+.   +++++||+|||||++++.+.+.+.
T Consensus        36 ~~~l~~~~~~~~~ll~G~~G~GKT~l~~~~~~~~~   70 (250)
T 1njg_A           36 ANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLN   70 (250)
T ss_dssp             HHHHHHTCCCSEEEEECSTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            33444444   699999999999999999887653

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=95.53  E-value=0.0048  Score=62.62  Aligned_cols=30  Identities=13%  Similarity=0.145  Sum_probs=25.2

Q ss_pred             HHhcCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        189 MNEIKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       189 ll~~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .+..+.|+||+||+|||||++++.+-+.+.
T Consensus        42 ~l~~~~~vll~G~pGtGKT~la~~la~~~~   71 (331)
T 2r44_A           42 GICTGGHILLEGVPGLAKTLSVNTLAKTMD   71 (331)
T ss_dssp             HHHHTCCEEEESCCCHHHHHHHHHHHHHTT
T ss_pred             HHHcCCeEEEECCCCCcHHHHHHHHHHHhC
Confidence            344588999999999999999998877654

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=95.53  E-value=0.037  Score=56.11  Aligned_cols=91  Identities=15%  Similarity=0.177  Sum_probs=53.8

Q ss_pred             EecHHHHHHHHHHHHHHhcC-CCceEEeccCCCcHhHHHHHHHHHcC------CeEEEEEecCCCChhhHHHHHHHHHHH
Q psy12736        427 VLFEDAREHLTRIHRALRLS-RGHCMVVGVEGGGKRSLVRLASFAAG------YQVFTIQLSRGYNEASFKEDLKSLYNL  499 (567)
Q Consensus       427 vlf~dai~hi~ri~RvL~~p-~Gh~LLvG~~GsGr~sl~rlaa~i~~------~~~~~i~~~k~y~~~~f~edLk~~~~~  499 (567)
                      +--+++++.+.   +.+... .+|+||.|++|+||+++++..+...+      ..+..+..+..-+...+++.++.....
T Consensus        40 ~g~~~~~~~l~---~~l~~~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  116 (353)
T 1sxj_D           40 TAQDHAVTVLK---KTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKVKNFARL  116 (353)
T ss_dssp             CSCCTTHHHHH---HHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHTTHHHHHHHS
T ss_pred             hCCHHHHHHHH---HHHhcCCCCEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEccccccchHHHHHHHHHHhhh
Confidence            33344444443   334443 26899999999999999988776532      356666655444555555555544332


Q ss_pred             hc----------c-CCCcEEEEEecCcccchh
Q psy12736        500 LG----------V-KNQATVFLFTAAEIVEEG  520 (567)
Q Consensus       500 ag----------~-~~~~~vfl~~d~qi~~e~  520 (567)
                      ..          . .+.+.+++++|.+-....
T Consensus       117 ~~~~~~~~~~~~~~~~~~~vliiDE~~~l~~~  148 (353)
T 1sxj_D          117 TVSKPSKHDLENYPCPPYKIIILDEADSMTAD  148 (353)
T ss_dssp             CCCCCCTTHHHHSCCCSCEEEEETTGGGSCHH
T ss_pred             cccccchhhcccCCCCCceEEEEECCCccCHH
Confidence            11          1 234567788876655443

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=95.53  E-value=0.0072  Score=58.95  Aligned_cols=26  Identities=27%  Similarity=0.340  Sum_probs=22.6

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..++++|+||+|||||++++.+...+
T Consensus        44 ~~~~vll~G~~GtGKT~la~~la~~~   69 (257)
T 1lv7_A           44 IPKGVLMVGPPGTGKTLLAKAIAGEA   69 (257)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCeEEEECcCCCCHHHHHHHHHHHc
Confidence            36689999999999999999887764

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=95.51  E-value=0.0087  Score=60.53  Aligned_cols=33  Identities=18%  Similarity=0.238  Sum_probs=26.2

Q ss_pred             HHHHHHhc-----CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        185 ILSLMNEI-----KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       185 ll~~ll~~-----~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+..++.+     +.+++|+||+|||||.++..+...+
T Consensus       139 ~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~~~  176 (308)
T 2qgz_A          139 AILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHEL  176 (308)
T ss_dssp             HHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            34445554     7899999999999999998887654

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=95.51  E-value=0.0057  Score=56.51  Aligned_cols=27  Identities=7%  Similarity=0.340  Sum_probs=23.6

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .|+.+.++||+|+|||++++.++..++
T Consensus         4 ~g~~i~i~GpsGsGKSTL~~~L~~~~~   30 (180)
T 1kgd_A            4 MRKTLVLLGAHGVGRRHIKNTLITKHP   30 (180)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhCC
Confidence            467899999999999999999887654

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=95.48  E-value=0.013  Score=51.84  Aligned_cols=90  Identities=11%  Similarity=0.041  Sum_probs=52.9

Q ss_pred             HHHHHHHHHHHHHHhcCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCChhhHHHH-HHHHHHHhccCCCcEE
Q psy12736        430 EDAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKED-LKSLYNLLGVKNQATV  508 (567)
Q Consensus       430 ~dai~hi~ri~RvL~~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~~~~f~ed-Lk~~~~~ag~~~~~~v  508 (567)
                      ..+++.+.+..+.......++||.|++|+||++++|..+..++ .++.++.+      +..++ ++..+..+.    .-+
T Consensus        10 s~~~~~l~~~~~~~~~~~~~vll~G~~GtGKt~lA~~i~~~~~-~~~~~~~~------~~~~~~~~~~~~~a~----~~~   78 (143)
T 3co5_A           10 SAAIQEMNREVEAAAKRTSPVFLTGEAGSPFETVARYFHKNGT-PWVSPARV------EYLIDMPMELLQKAE----GGV   78 (143)
T ss_dssp             CHHHHHHHHHHHHHHTCSSCEEEEEETTCCHHHHHGGGCCTTS-CEECCSST------THHHHCHHHHHHHTT----TSE
T ss_pred             CHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhCC-CeEEechh------hCChHhhhhHHHhCC----CCe
Confidence            3455555555444445677899999999999999987766555 44444322      22222 344555542    235


Q ss_pred             EEEecCcccchhhhHHhh-hccC
Q psy12736        509 FLFTAAEIVEEGYQVFTI-QLSR  530 (567)
Q Consensus       509 fl~~d~qi~~e~fle~in-lL~~  530 (567)
                      ++++|-+-........+- +|..
T Consensus        79 l~lDei~~l~~~~q~~Ll~~l~~  101 (143)
T 3co5_A           79 LYVGDIAQYSRNIQTGITFIIGK  101 (143)
T ss_dssp             EEEEECTTCCHHHHHHHHHHHHH
T ss_pred             EEEeChHHCCHHHHHHHHHHHHh
Confidence            667776655555444444 4443

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=95.44  E-value=0.026  Score=57.65  Aligned_cols=69  Identities=13%  Similarity=0.178  Sum_probs=45.5

Q ss_pred             CCCceEEeccCCCcHhHHHHHHHHHc------CCeEEEEEecCCC----------------------ChhhHHHHHHHHH
Q psy12736        446 SRGHCMVVGVEGGGKRSLVRLASFAA------GYQVFTIQLSRGY----------------------NEASFKEDLKSLY  497 (567)
Q Consensus       446 p~Gh~LLvG~~GsGr~sl~rlaa~i~------~~~~~~i~~~k~y----------------------~~~~f~edLk~~~  497 (567)
                      +.++++|.|++|+||+++++..+...      +..++.+......                      +..+..+.+...+
T Consensus        44 ~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l  123 (386)
T 2qby_A           44 KPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRVLADLLESLDVKVPFTGLSIAELYRRLVKAV  123 (386)
T ss_dssp             CCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHHCSHHHHHHHHTTTTSCCCCSSSCCHHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHH
Confidence            35678999999999999999877765      7778777743211                      1223233333333


Q ss_pred             HHhccCCCcEEEEEecCccc
Q psy12736        498 NLLGVKNQATVFLFTAAEIV  517 (567)
Q Consensus       498 ~~ag~~~~~~vfl~~d~qi~  517 (567)
                      .   ..+++.+++++|-+-.
T Consensus       124 ~---~~~~~~vlilDE~~~l  140 (386)
T 2qby_A          124 R---DYGSQVVIVLDEIDAF  140 (386)
T ss_dssp             H---TCCSCEEEEEETHHHH
T ss_pred             h---ccCCeEEEEEcChhhh
Confidence            3   2456899999876543

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=95.43  E-value=0.0062  Score=57.30  Aligned_cols=28  Identities=21%  Similarity=0.457  Sum_probs=22.4

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      +.++.+.|+||+|+|||++++.++...+
T Consensus         2 ~~g~~i~lvGpsGaGKSTLl~~L~~~~~   29 (198)
T 1lvg_A            2 AGPRPVVLSGPSGAGKSTLLKKLFQEHS   29 (198)
T ss_dssp             ---CCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhCc
Confidence            3578999999999999999998877554

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=95.41  E-value=0.015  Score=66.16  Aligned_cols=83  Identities=13%  Similarity=0.282  Sum_probs=52.8

Q ss_pred             eEEecHHHHHHHHHHHHHHhc-CCCceEEeccCCCcHhHHHHHHHHHc----------CCeEEEEEecCCCChhhHHHHH
Q psy12736        425 DLVLFEDAREHLTRIHRALRL-SRGHCMVVGVEGGGKRSLVRLASFAA----------GYQVFTIQLSRGYNEASFKEDL  493 (567)
Q Consensus       425 ~lvlf~dai~hi~ri~RvL~~-p~Gh~LLvG~~GsGr~sl~rlaa~i~----------~~~~~~i~~~k~y~~~~f~edL  493 (567)
                      .+|=-++.++.+..   +|.. ...|+||+|++|+||+++++..|...          ++.++.++....| ..+|.+.+
T Consensus       181 ~iiG~~~~i~~l~~---~l~~~~~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~~~~g~~~-~G~~e~~l  256 (758)
T 3pxi_A          181 PVIGRSKEIQRVIE---VLSRRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMGTKY-RGEFEDRL  256 (758)
T ss_dssp             CCCCCHHHHHHHHH---HHHCSSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC-----------CTTH
T ss_pred             CccCchHHHHHHHH---HHhCCCCCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEEecccccc-cchHHHHH
Confidence            35555666665544   3443 46799999999999999999887764          7888877763223 23566678


Q ss_pred             HHHHHHhccCCCcEEEEEe
Q psy12736        494 KSLYNLLGVKNQATVFLFT  512 (567)
Q Consensus       494 k~~~~~ag~~~~~~vfl~~  512 (567)
                      +.++..+.. +.+.+++++
T Consensus       257 ~~~~~~~~~-~~~~iLfiD  274 (758)
T 3pxi_A          257 KKVMDEIRQ-AGNIILFID  274 (758)
T ss_dssp             HHHHHHHHT-CCCCEEEEC
T ss_pred             HHHHHHHHh-cCCEEEEEc
Confidence            888877754 456666665

>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=95.40  E-value=0.029  Score=60.42  Aligned_cols=68  Identities=16%  Similarity=0.242  Sum_probs=51.2

Q ss_pred             cCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecC---CCChhhHHHHHHHHHHHhccCCCcEEEEEecC
Q psy12736        445 LSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSR---GYNEASFKEDLKSLYNLLGVKNQATVFLFTAA  514 (567)
Q Consensus       445 ~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k---~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~  514 (567)
                      .+..++||.|++|+||++++|..|..++..++.++...   .|- .+....++.++..|. .+.|.+++++|-
T Consensus       236 ~~~~~vLL~GppGtGKT~lAraia~~~~~~fv~vn~~~l~~~~~-g~~~~~~~~~f~~A~-~~~p~iLfLDEI  306 (489)
T 3hu3_A          236 KPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLA-GESESNLRKAFEEAE-KNAPAIIFIDEL  306 (489)
T ss_dssp             CCCCEEEEECSTTSSHHHHHHHHHHHCSSEEEEEEHHHHHTSCT-THHHHHHHHHHHHHH-HTCSEEEEEESH
T ss_pred             CCCCcEEEECcCCCCHHHHHHHHHHHhCCCEEEEEchHhhhhhc-chhHHHHHHHHHHHH-hcCCcEEEecch
Confidence            45567999999999999999999999999999987432   221 233456777887774 456788888875

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=95.38  E-value=0.01  Score=60.18  Aligned_cols=25  Identities=20%  Similarity=0.178  Sum_probs=22.2

Q ss_pred             CCeEEeccCCCCchhhHHHHHhccC
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .++||+||+|||||++++.+.+.+.
T Consensus        56 ~~vll~G~~GtGKT~la~~ia~~~~   80 (338)
T 3pfi_A           56 DHILFSGPAGLGKTTLANIISYEMS   80 (338)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CeEEEECcCCCCHHHHHHHHHHHhC
Confidence            6999999999999999999877653

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=95.38  E-value=0.0064  Score=61.10  Aligned_cols=27  Identities=15%  Similarity=0.155  Sum_probs=23.6

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..++++||+||+|||||++++.+...+
T Consensus        47 ~~~~~vLL~Gp~GtGKT~la~ala~~~   73 (301)
T 3cf0_A           47 TPSKGVLFYGPPGCGKTLLAKAIANEC   73 (301)
T ss_dssp             CCCSEEEEECSSSSSHHHHHHHHHHHT
T ss_pred             CCCceEEEECCCCcCHHHHHHHHHHHh
Confidence            457789999999999999999888764

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=95.29  E-value=0.0058  Score=61.14  Aligned_cols=26  Identities=23%  Similarity=0.264  Sum_probs=21.8

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+.|+||+||+|||||++++.+.+.+
T Consensus        66 ~~~~vll~G~~GtGKT~la~~la~~l   91 (309)
T 3syl_A           66 PTLHMSFTGNPGTGKTTVALKMAGLL   91 (309)
T ss_dssp             CCCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHH
Confidence            35579999999999999998776654

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=95.26  E-value=0.052  Score=53.55  Aligned_cols=69  Identities=19%  Similarity=0.264  Sum_probs=46.7

Q ss_pred             hcCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecC--CCChhhHHHHHHHHHHHhccCCCcEEEEEecC
Q psy12736        444 RLSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSR--GYNEASFKEDLKSLYNLLGVKNQATVFLFTAA  514 (567)
Q Consensus       444 ~~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k--~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~  514 (567)
                      ..|.| ++|+|++|+||++|++..+...+...+.+....  .....+....++.++..+. ...|.++++++-
T Consensus        71 ~~~~g-vll~Gp~GtGKTtl~~~i~~~~~~~~i~~~~~~~~~~~~~~~~~~i~~~~~~~~-~~~~~i~~iDei  141 (278)
T 1iy2_A           71 RIPKG-VLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAK-RHAPCIVFIDEI  141 (278)
T ss_dssp             CCCCE-EEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHHSTTTHHHHHHHHHHHHHH-TSCSEEEEEETH
T ss_pred             CCCCe-EEEECCCcChHHHHHHHHHHHcCCCEEEecHHHHHHHHhhHHHHHHHHHHHHHH-hcCCcEEehhhh
Confidence            44667 999999999999999999998887776665321  0111233455677777764 234666777665

>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*

Probab=95.22  E-value=0.012  Score=59.06  Aligned_cols=27  Identities=19%  Similarity=0.191  Sum_probs=23.2

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ...+++++||+|||||++++.+.+.+.
T Consensus        37 ~~~~vll~G~~GtGKT~la~~i~~~~~   63 (324)
T 1hqc_A           37 PLEHLLLFGPPGLGKTTLAHVIAHELG   63 (324)
T ss_dssp             CCCCCEEECCTTCCCHHHHHHHHHHHT
T ss_pred             CCCcEEEECCCCCCHHHHHHHHHHHhC
Confidence            448999999999999999999877653

>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=95.20  E-value=0.0081  Score=56.72  Aligned_cols=27  Identities=11%  Similarity=0.305  Sum_probs=24.3

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .++.+.|+||+|+|||++++.++...+
T Consensus        18 ~g~~ivl~GPSGaGKsTL~~~L~~~~~   44 (197)
T 3ney_A           18 GRKTLVLIGASGVGRSHIKNALLSQNP   44 (197)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CCCEEEEECcCCCCHHHHHHHHHhhCC
Confidence            588999999999999999999988765

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=95.17  E-value=0.0078  Score=59.96  Aligned_cols=26  Identities=19%  Similarity=0.330  Sum_probs=23.3

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ...++||+||||||||++++.+.+.+
T Consensus        49 ~~~~vll~G~~GtGKT~la~~la~~l   74 (310)
T 1ofh_A           49 TPKNILMIGPTGVGKTEIARRLAKLA   74 (310)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999999988765

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=95.16  E-value=0.067  Score=54.22  Aligned_cols=78  Identities=14%  Similarity=0.031  Sum_probs=48.9

Q ss_pred             HHHHhc-CCCceEEeccCCCcHhHHHHHHHHHc----------CCeEEEEEecCCCCh------------------hhHH
Q psy12736        440 HRALRL-SRGHCMVVGVEGGGKRSLVRLASFAA----------GYQVFTIQLSRGYNE------------------ASFK  490 (567)
Q Consensus       440 ~RvL~~-p~Gh~LLvG~~GsGr~sl~rlaa~i~----------~~~~~~i~~~k~y~~------------------~~f~  490 (567)
                      .+.+.. +.++++|.|++|+||+++++.++.-.          .+.++.|+.....+.                  .+..
T Consensus        37 ~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~~~~~~~I~~~L~g~~~~~~~~~  116 (318)
T 3te6_A           37 YDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDALYEKIWFAISKENLCGDISL  116 (318)
T ss_dssp             HHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC--HHHHHHHHHHHSCCC--CCCCH
T ss_pred             HHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCCHHHHHHHHHHHhcCCCCCchHHH
Confidence            444444 55688999999999999999887765          345666653322111                  1113


Q ss_pred             HHHHHHHHHh-ccCCCcEEEEEecCccc
Q psy12736        491 EDLKSLYNLL-GVKNQATVFLFTAAEIV  517 (567)
Q Consensus       491 edLk~~~~~a-g~~~~~~vfl~~d~qi~  517 (567)
                      +.|+..+... ...++++++++++-+..
T Consensus       117 ~~L~~~f~~~~~~~~~~~ii~lDE~d~l  144 (318)
T 3te6_A          117 EALNFYITNVPKAKKRKTLILIQNPENL  144 (318)
T ss_dssp             HHHHHHHHHSCGGGSCEEEEEEECCSSS
T ss_pred             HHHHHHHHHhhhccCCceEEEEecHHHh
Confidence            4456666553 34567888888876543

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=95.16  E-value=0.012  Score=60.90  Aligned_cols=36  Identities=25%  Similarity=0.411  Sum_probs=31.3

Q ss_pred             HHHHHHHhcCCCeEEeccCCCCchhhHHHHHhccCC
Q psy12736        184 WILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       184 ~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      ..++..+..|..++++||+|+|||++++.++.-.++
T Consensus       166 ~~l~~~i~~G~~i~ivG~sGsGKSTll~~l~~~~~~  201 (361)
T 2gza_A          166 SFLRRAVQLERVIVVAGETGSGKTTLMKALMQEIPF  201 (361)
T ss_dssp             HHHHHHHHTTCCEEEEESSSSCHHHHHHHHHTTSCT
T ss_pred             HHHHHHHhcCCEEEEECCCCCCHHHHHHHHHhcCCC
Confidence            456778899999999999999999999998876654

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=95.13  E-value=0.0084  Score=56.44  Aligned_cols=31  Identities=19%  Similarity=0.306  Sum_probs=26.0

Q ss_pred             HHhcCCCeEEeccCCCCchhhHHHHHhccCC
Q psy12736        189 MNEIKRPCIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       189 ll~~~~pvLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      .+..++.++++||+|||||++++.+...++.
T Consensus         8 ~~~~~~~i~l~G~sGsGKsTl~~~L~~~~~~   38 (204)
T 2qor_A            8 HMARIPPLVVCGPSGVGKGTLIKKVLSEFPS   38 (204)
T ss_dssp             -CCCCCCEEEECCTTSCHHHHHHHHHHHCTT
T ss_pred             ccccCCEEEEECCCCCCHHHHHHHHHHhCcc
Confidence            3456889999999999999999998887753

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=95.12  E-value=0.009  Score=64.56  Aligned_cols=32  Identities=13%  Similarity=0.135  Sum_probs=26.3

Q ss_pred             HHHHHhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        186 LSLMNEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       186 l~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +...+..+.||||+||||||||++++.+-..+
T Consensus        34 l~~al~~~~~VLL~GpPGtGKT~LAraLa~~l   65 (500)
T 3nbx_X           34 CLLAALSGESVFLLGPPGIAKSLIARRLKFAF   65 (500)
T ss_dssp             HHHHHHHTCEEEEECCSSSSHHHHHHHGGGGB
T ss_pred             HHHHHhcCCeeEeecCchHHHHHHHHHHHHHH
Confidence            34445678999999999999999999886655

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=95.08  E-value=0.0078  Score=59.93  Aligned_cols=26  Identities=15%  Similarity=0.165  Sum_probs=23.1

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..+++||+||+|||||++++.+.+.+
T Consensus        53 ~~~~vll~Gp~GtGKT~la~~la~~~   78 (297)
T 3b9p_A           53 PAKGLLLFGPPGNGKTLLARAVATEC   78 (297)
T ss_dssp             CCSEEEEESSSSSCHHHHHHHHHHHT
T ss_pred             CCCeEEEECcCCCCHHHHHHHHHHHh
Confidence            46899999999999999999887765

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=95.07  E-value=0.01  Score=60.37  Aligned_cols=32  Identities=25%  Similarity=0.352  Sum_probs=25.4

Q ss_pred             HHHHHhcC--CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        186 LSLMNEIK--RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       186 l~~ll~~~--~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +..++..+  .+++|+||+|||||++++.+.+.+
T Consensus        49 l~~~l~~~~~~~~ll~G~~G~GKT~la~~la~~l   82 (353)
T 1sxj_D           49 LKKTLKSANLPHMLFYGPPGTGKTSTILALTKEL   82 (353)
T ss_dssp             HHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHHhcCCCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            44455555  569999999999999999887654

>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=95.06  E-value=0.0087  Score=58.93  Aligned_cols=26  Identities=15%  Similarity=0.097  Sum_probs=22.4

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ...++||+||+|||||++++.+.+..
T Consensus        63 ~~~~vLl~G~~GtGKT~la~~ia~~~   88 (272)
T 1d2n_A           63 PLVSVLLEGPPHSGKTALAAKIAEES   88 (272)
T ss_dssp             SEEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHh
Confidence            34689999999999999999887764

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=94.98  E-value=0.02  Score=60.78  Aligned_cols=52  Identities=17%  Similarity=0.193  Sum_probs=32.1

Q ss_pred             CCCCCccccccCcchhhHHHHHHHHHhc---CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        165 GDKSFGDILVPTTDSTKLTWILSLMNEI---KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       165 ~~~~~~~i~VpT~dtvR~~~ll~~ll~~---~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +...|.+.++-.........+ ..+...   ..|++|+||+|||||++++.+.+.+
T Consensus       100 ~~~tfd~fv~g~~n~~a~~~~-~~~a~~~~~~~~lll~Gp~G~GKTtLa~aia~~l  154 (440)
T 2z4s_A          100 PDYTFENFVVGPGNSFAYHAA-LEVAKHPGRYNPLFIYGGVGLGKTHLLQSIGNYV  154 (440)
T ss_dssp             TTCSGGGCCCCTTTHHHHHHH-HHHHHSTTSSCCEEEECSSSSSHHHHHHHHHHHH
T ss_pred             CCCChhhcCCCCchHHHHHHH-HHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            344555544432222323333 334433   4699999999999999998877654

>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=94.97  E-value=0.011  Score=56.03  Aligned_cols=29  Identities=14%  Similarity=0.172  Sum_probs=25.0

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhccCC
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      ..+.-+.++||+|+|||++++.++..+++
T Consensus         6 ~~g~~i~l~GpsGsGKsTl~~~L~~~~~~   34 (208)
T 3tau_A            6 ERGLLIVLSGPSGVGKGTVREAVFKDPET   34 (208)
T ss_dssp             CCCCEEEEECCTTSCHHHHHHHHHHSTTC
T ss_pred             CCCcEEEEECcCCCCHHHHHHHHHhhCCC
Confidence            45778999999999999999999887654

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=94.96  E-value=0.014  Score=55.53  Aligned_cols=35  Identities=23%  Similarity=0.239  Sum_probs=26.8

Q ss_pred             CCCceEEeccCCCcHhHHHHHHHHHc---CCeEEEEEe
Q psy12736        446 SRGHCMVVGVEGGGKRSLVRLASFAA---GYQVFTIQL  480 (567)
Q Consensus       446 p~Gh~LLvG~~GsGr~sl~rlaa~i~---~~~~~~i~~  480 (567)
                      +.++++|.|++|+||+++++..+...   +..+..++.
T Consensus        51 ~~~~~ll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~   88 (242)
T 3bos_A           51 GVQAIYLWGPVKSGRTHLIHAACARANELERRSFYIPL   88 (242)
T ss_dssp             SCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEG
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEH
Confidence            46688999999999999998776543   356666654

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=94.95  E-value=0.059  Score=54.80  Aligned_cols=86  Identities=12%  Similarity=0.132  Sum_probs=50.6

Q ss_pred             HHHHHHHHHHHHHHhcC-CCceEEeccCCCcHhHHHHHHHHHcC-----CeEEEEEecCCCChhhHHHHHHHHHHHh-cc
Q psy12736        430 EDAREHLTRIHRALRLS-RGHCMVVGVEGGGKRSLVRLASFAAG-----YQVFTIQLSRGYNEASFKEDLKSLYNLL-GV  502 (567)
Q Consensus       430 ~dai~hi~ri~RvL~~p-~Gh~LLvG~~GsGr~sl~rlaa~i~~-----~~~~~i~~~k~y~~~~f~edLk~~~~~a-g~  502 (567)
                      .++++++..   .+... -.|++|.|++|+||+++++..|....     ..+.+++.+...+..+.++.++.+.... ..
T Consensus        31 ~~~~~~L~~---~i~~g~~~~~ll~Gp~G~GKTtla~~la~~l~~~~~~~~~~~~~~~~~~~~~~ir~~i~~~~~~~~~~  107 (340)
T 1sxj_C           31 NEVITTVRK---FVDEGKLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGIDVVRNQIKDFASTRQIF  107 (340)
T ss_dssp             HHHHHHHHH---HHHTTCCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCSHHHHHTHHHHHHHBCCSS
T ss_pred             HHHHHHHHH---HHhcCCCceEEEECCCCCCHHHHHHHHHHHHcCCCccceEEEEcCcccccHHHHHHHHHHHHhhcccC
Confidence            344554433   33332 24799999999999999998877632     2355666555455555555444433221 12


Q ss_pred             CCCcEEEEEecCcccc
Q psy12736        503 KNQATVFLFTAAEIVE  518 (567)
Q Consensus       503 ~~~~~vfl~~d~qi~~  518 (567)
                      .+..-++++++.+-..
T Consensus       108 ~~~~~viiiDe~~~l~  123 (340)
T 1sxj_C          108 SKGFKLIILDEADAMT  123 (340)
T ss_dssp             SCSCEEEEETTGGGSC
T ss_pred             CCCceEEEEeCCCCCC
Confidence            3346677777765443

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=94.94  E-value=0.016  Score=59.64  Aligned_cols=37  Identities=16%  Similarity=0.185  Sum_probs=27.8

Q ss_pred             hHHHHHHHHHhcCC--CeEEeccCCCCchhhHHHHHhcc
Q psy12736        181 KLTWILSLMNEIKR--PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       181 R~~~ll~~ll~~~~--pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +....+..++..+.  +++++||+|||||++++.+.+.+
T Consensus        31 ~l~~~l~~~~~~~~~~~vll~G~~G~GKT~la~~l~~~~   69 (384)
T 2qby_B           31 DAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEI   69 (384)
T ss_dssp             HHHHHHHHHHTTCCCCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHH
Confidence            33445555555544  59999999999999999988765

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=94.94  E-value=0.0092  Score=55.90  Aligned_cols=28  Identities=25%  Similarity=0.283  Sum_probs=23.3

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +..++.++|+||+|||||++.+.+...+
T Consensus        22 ~~~~~~i~l~G~~GsGKsTl~~~La~~l   49 (199)
T 3vaa_A           22 SNAMVRIFLTGYMGAGKTTLGKAFARKL   49 (199)
T ss_dssp             --CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cCCCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            3467889999999999999999887765

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=94.92  E-value=0.015  Score=55.13  Aligned_cols=39  Identities=18%  Similarity=0.149  Sum_probs=27.4

Q ss_pred             hhHHHHHHHHHhc---CCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        180 TKLTWILSLMNEI---KRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       180 vR~~~ll~~ll~~---~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      +.....++.+++.   +.++++.||||||||+++..+.+.+.
T Consensus        42 ~~f~~~l~~~~~~iPkkn~ili~GPPGtGKTt~a~ala~~l~   83 (212)
T 1tue_A           42 ITFLGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFIQ   83 (212)
T ss_dssp             HHHHHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3344445555553   22499999999999999988877654

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20

Probab=94.90  E-value=0.011  Score=59.32  Aligned_cols=32  Identities=22%  Similarity=0.323  Sum_probs=25.3

Q ss_pred             HHHHHhcCC--CeEEeccCCCCchhhHHHHHhcc
Q psy12736        186 LSLMNEIKR--PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       186 l~~ll~~~~--pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +..++..+.  |++++||+|||||++++.+.+.+
T Consensus        37 l~~~l~~~~~~~~ll~G~~G~GKT~la~~l~~~l   70 (327)
T 1iqp_A           37 LKHYVKTGSMPHLLFAGPPGVGKTTAALALAREL   70 (327)
T ss_dssp             HHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHh
Confidence            334555554  79999999999999999987765

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.89  E-value=0.0082  Score=63.53  Aligned_cols=25  Identities=28%  Similarity=0.337  Sum_probs=21.9

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+-+||+||||||||++++.+-+.+
T Consensus       206 prGiLL~GPPGtGKT~lakAiA~~~  230 (428)
T 4b4t_K          206 PRGVLLYGPPGTGKTMLVKAVANST  230 (428)
T ss_dssp             CCEEEEESCTTTTHHHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHh
Confidence            3459999999999999999988765

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=94.89  E-value=0.013  Score=59.72  Aligned_cols=34  Identities=21%  Similarity=0.326  Sum_probs=27.3

Q ss_pred             HHHHHHhcCCC--eEEeccCCCCchhhHHHHHhccC
Q psy12736        185 ILSLMNEIKRP--CIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       185 ll~~ll~~~~p--vLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .+...++.|..  ++|+||+|||||++++.+.+.+.
T Consensus        36 ~L~~~i~~g~~~~~ll~Gp~G~GKTtla~~la~~l~   71 (340)
T 1sxj_C           36 TVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIY   71 (340)
T ss_dssp             HHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHc
Confidence            45566667754  99999999999999999877653

>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=94.84  E-value=0.0096  Score=60.38  Aligned_cols=25  Identities=16%  Similarity=0.171  Sum_probs=21.8

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+++||+||+|||||++++.+.+.+
T Consensus        51 ~~~vLl~GppGtGKT~la~aia~~~   75 (322)
T 3eie_A           51 TSGILLYGPPGTGKSYLAKAVATEA   75 (322)
T ss_dssp             CCEEEEECSSSSCHHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHH
Confidence            4569999999999999999887764

>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=94.83  E-value=0.015  Score=59.31  Aligned_cols=36  Identities=22%  Similarity=0.267  Sum_probs=30.3

Q ss_pred             HHHHHHHHhcCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        183 TWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       183 ~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ...++..+..|..++++||+|+|||++++.++.-++
T Consensus       161 l~~l~~~i~~g~~v~i~G~~GsGKTTll~~l~g~~~  196 (330)
T 2pt7_A          161 ISAIKDGIAIGKNVIVCGGTGSGKTTYIKSIMEFIP  196 (330)
T ss_dssp             HHHHHHHHHHTCCEEEEESTTSCHHHHHHHGGGGSC
T ss_pred             HhhhhhhccCCCEEEEECCCCCCHHHHHHHHhCCCc
Confidence            345667788999999999999999999998877654

>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=94.80  E-value=0.037  Score=58.83  Aligned_cols=71  Identities=18%  Similarity=0.284  Sum_probs=46.9

Q ss_pred             cCCCceEEeccCCCcHhHHHHHHHHHc-CCeEEEEEecCCCCh--hhHHHHHHHHHHHhccCCCcEEEEEecCcc
Q psy12736        445 LSRGHCMVVGVEGGGKRSLVRLASFAA-GYQVFTIQLSRGYNE--ASFKEDLKSLYNLLGVKNQATVFLFTAAEI  516 (567)
Q Consensus       445 ~p~Gh~LLvG~~GsGr~sl~rlaa~i~-~~~~~~i~~~k~y~~--~~f~edLk~~~~~ag~~~~~~vfl~~d~qi  516 (567)
                      .|..++||.|++|+||+++++..|..+ +..++.+..+.-.+.  .+....++.++..+. ...|.|++++|-+-
T Consensus       165 ~~~~~vLL~GppGtGKT~lA~aia~~~~~~~~~~v~~~~l~~~~~g~~~~~~~~~f~~a~-~~~~~vl~iDEid~  238 (444)
T 2zan_A          165 TPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLAR-ENKPSIIFIDEIDS  238 (444)
T ss_dssp             CCCSEEEEECSTTSSHHHHHHHHHHHCCSSEEEEECCC---------CCCTHHHHHHHHH-HSCSEEEEESCTTT
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHcCCCCEEEEeHHHHHhhhcchHHHHHHHHHHHHH-HcCCeEEEEechHh
Confidence            466789999999999999999988887 788888865432110  011123455555553 35678888887653

>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=94.79  E-value=0.019  Score=55.82  Aligned_cols=25  Identities=20%  Similarity=0.259  Sum_probs=21.3

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+.++|+||+|||||++++.+...+
T Consensus        49 ~~g~ll~G~~G~GKTtl~~~i~~~~   73 (254)
T 1ixz_A           49 PKGVLLVGPPGVGKTHLARAVAGEA   73 (254)
T ss_dssp             CSEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHh
Confidence            3459999999999999999887654

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=94.79  E-value=0.061  Score=54.72  Aligned_cols=80  Identities=15%  Similarity=0.212  Sum_probs=50.9

Q ss_pred             HHHHHHHHhcCC-Cc-eEEeccCCCcHhHHHHHHHHHcCC------------------------eEEEEEec---CCCCh
Q psy12736        436 LTRIHRALRLSR-GH-CMVVGVEGGGKRSLVRLASFAAGY------------------------QVFTIQLS---RGYNE  486 (567)
Q Consensus       436 i~ri~RvL~~p~-Gh-~LLvG~~GsGr~sl~rlaa~i~~~------------------------~~~~i~~~---k~y~~  486 (567)
                      +.++.+.++..+ +| .||.|++|+||+++++..|....+                        ++..+...   +..+.
T Consensus        11 ~~~l~~~i~~~~~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~~~~i   90 (334)
T 1a5t_A           11 FEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKGKNTLGV   90 (334)
T ss_dssp             HHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTTCSSBCH
T ss_pred             HHHHHHHHHcCCcceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccccCCCCCH
Confidence            445555666544 56 689999999999999877654332                        35555543   34555


Q ss_pred             hhHHHHHHHHHHHhc---cCCCcEEEEEecCcccch
Q psy12736        487 ASFKEDLKSLYNLLG---VKNQATVFLFTAAEIVEE  519 (567)
Q Consensus       487 ~~f~edLk~~~~~ag---~~~~~~vfl~~d~qi~~e  519 (567)
                      .    +++.+...+.   ..+..-|+++++.+-..+
T Consensus        91 ~----~ir~l~~~~~~~~~~~~~kvviIdead~l~~  122 (334)
T 1a5t_A           91 D----AVREVTEKLNEHARLGGAKVVWVTDAALLTD  122 (334)
T ss_dssp             H----HHHHHHHHTTSCCTTSSCEEEEESCGGGBCH
T ss_pred             H----HHHHHHHHHhhccccCCcEEEEECchhhcCH
Confidence            4    4455554443   356678888888776654

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=94.78  E-value=0.011  Score=64.09  Aligned_cols=25  Identities=24%  Similarity=0.325  Sum_probs=22.7

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+++||+||+|||||++++.+.+.+
T Consensus        77 ~~~lLL~GppGtGKTtla~~la~~l  101 (516)
T 1sxj_A           77 FRAAMLYGPPGIGKTTAAHLVAQEL  101 (516)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHc
Confidence            3799999999999999999988876

>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=94.74  E-value=0.011  Score=60.24  Aligned_cols=24  Identities=21%  Similarity=0.266  Sum_probs=21.8

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+++|+||+|||||++++-+...+
T Consensus        52 ~~~ll~Gp~G~GKTTLa~~ia~~l   75 (334)
T 1in4_A           52 DHVLLAGPPGLGKTTLAHIIASEL   75 (334)
T ss_dssp             CCEEEESSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHh
Confidence            789999999999999999887765

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=94.73  E-value=0.013  Score=60.48  Aligned_cols=26  Identities=31%  Similarity=0.379  Sum_probs=23.0

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ...++||+||||||||++++.+-+.+
T Consensus        50 ~~~~vll~GppGtGKT~la~~ia~~~   75 (363)
T 3hws_A           50 GKSNILLIGPTGSGKTLLAETLARLL   75 (363)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHc
Confidence            46799999999999999999887765

>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=94.72  E-value=0.012  Score=60.77  Aligned_cols=25  Identities=16%  Similarity=0.171  Sum_probs=22.5

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+++||+||+|||||++++.+.+.+
T Consensus        84 ~~~iLL~GppGtGKT~la~ala~~~  108 (355)
T 2qp9_X           84 TSGILLYGPPGTGKSYLAKAVATEA  108 (355)
T ss_dssp             CCCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CceEEEECCCCCcHHHHHHHHHHHh
Confidence            4679999999999999999988765

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=94.71  E-value=0.023  Score=56.19  Aligned_cols=25  Identities=20%  Similarity=0.259  Sum_probs=21.3

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+.++|+||+|||||++++.+...+
T Consensus        73 ~~gvll~Gp~GtGKTtl~~~i~~~~   97 (278)
T 1iy2_A           73 PKGVLLVGPPGVGKTHLARAVAGEA   97 (278)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCeEEEECCCcChHHHHHHHHHHHc
Confidence            3459999999999999999887654

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=94.70  E-value=0.08  Score=53.46  Aligned_cols=53  Identities=21%  Similarity=0.149  Sum_probs=39.1

Q ss_pred             EEecHHHHHHHHHHHHHHhcCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecC
Q psy12736        426 LVLFEDAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSR  482 (567)
Q Consensus       426 lvlf~dai~hi~ri~RvL~~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k  482 (567)
                      ++=-+++++.+...   +.. ++|+||.|++|+||+++++..|...+..++.+..+.
T Consensus        29 i~g~~~~~~~l~~~---l~~-~~~vll~G~pGtGKT~la~~la~~~~~~~~~i~~~~   81 (331)
T 2r44_A           29 VVGQKYMINRLLIG---ICT-GGHILLEGVPGLAKTLSVNTLAKTMDLDFHRIQFTP   81 (331)
T ss_dssp             CCSCHHHHHHHHHH---HHH-TCCEEEESCCCHHHHHHHHHHHHHTTCCEEEEECCT
T ss_pred             eeCcHHHHHHHHHH---HHc-CCeEEEECCCCCcHHHHHHHHHHHhCCCeEEEecCC
Confidence            33344555544332   322 689999999999999999999999898888877643

>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=94.69  E-value=0.016  Score=59.71  Aligned_cols=27  Identities=19%  Similarity=0.139  Sum_probs=23.6

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ...+++||+||+|||||++++.+.+.+
T Consensus       115 ~~~~~vLl~GppGtGKT~la~aia~~~  141 (357)
T 3d8b_A          115 GPPKGILLFGPPGTGKTLIGKCIASQS  141 (357)
T ss_dssp             SCCSEEEEESSTTSSHHHHHHHHHHHT
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHc
Confidence            356789999999999999999987764

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=94.67  E-value=0.01  Score=59.46  Aligned_cols=24  Identities=17%  Similarity=0.137  Sum_probs=21.2

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +.+||+||||||||++++.+.+.+
T Consensus        37 ~~lLl~GppGtGKT~la~aiA~~l   60 (293)
T 3t15_A           37 LILGIWGGKGQGKSFQCELVFRKM   60 (293)
T ss_dssp             SEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            458999999999999999988776

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=94.66  E-value=0.015  Score=55.59  Aligned_cols=30  Identities=17%  Similarity=0.276  Sum_probs=23.6

Q ss_pred             HHHhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        188 LMNEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       188 ~ll~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +-+..|..+.++||+|+|||++++.++..+
T Consensus        18 l~i~~G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           18 GSMNNIYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             ----CCCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eecCCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            335679999999999999999999887755

>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=94.64  E-value=0.014  Score=53.25  Aligned_cols=26  Identities=19%  Similarity=0.268  Sum_probs=22.5

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ++.++++|++|||||++.+.+...+.
T Consensus         3 ~~~i~l~G~~GsGKST~a~~La~~l~   28 (178)
T 1qhx_A            3 TRMIILNGGSSAGKSGIVRCLQSVLP   28 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHSS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhcC
Confidence            45689999999999999999887764

>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=94.61  E-value=0.23  Score=50.38  Aligned_cols=73  Identities=12%  Similarity=0.210  Sum_probs=43.7

Q ss_pred             CCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCChhhHHHHHHHHHHHhccCCCcEEEEEecCcccchhhhHHh
Q psy12736        446 SRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEGYQVFT  525 (567)
Q Consensus       446 p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~qi~~e~fle~i  525 (567)
                      +..|++|+|++|+||++|++..|...++++....-.-....    .|+..++...  . ...++++.+.+-......|.+
T Consensus        50 ~~~~~ll~Gp~G~GKTTLa~~ia~~l~~~~~~~sg~~~~~~----~~l~~~~~~~--~-~~~v~~iDE~~~l~~~~~e~L  122 (334)
T 1in4_A           50 VLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLVKQ----GDMAAILTSL--E-RGDVLFIDEIHRLNKAVEELL  122 (334)
T ss_dssp             CCCCEEEESSTTSSHHHHHHHHHHHHTCCEEEEETTTCCSH----HHHHHHHHHC--C-TTCEEEEETGGGCCHHHHHHH
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEechHhcCH----HHHHHHHHHc--c-CCCEEEEcchhhcCHHHHHHH
Confidence            44789999999999999999999998887654432211222    3455544332  2 233455555544433333333

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=94.58  E-value=0.015  Score=52.15  Aligned_cols=26  Identities=15%  Similarity=0.234  Sum_probs=23.5

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+.++.|+||+|||||++++.+...+
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~   60 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQA   60 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHH
Confidence            68899999999999999999887765

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.52  E-value=0.013  Score=61.83  Aligned_cols=26  Identities=23%  Similarity=0.225  Sum_probs=22.9

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..+-+||+||||||||++++.+-...
T Consensus       215 ~prGvLLyGPPGTGKTlLAkAiA~e~  240 (437)
T 4b4t_I          215 PPKGVILYGAPGTGKTLLAKAVANQT  240 (437)
T ss_dssp             CCSEEEEESSTTTTHHHHHHHHHHHH
T ss_pred             CCCCCceECCCCchHHHHHHHHHHHh
Confidence            45679999999999999999988765

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=94.41  E-value=0.014  Score=59.75  Aligned_cols=27  Identities=41%  Similarity=0.417  Sum_probs=23.7

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..+.+++++||+|||||++++.+.+.+
T Consensus        42 ~~~~~vll~G~~G~GKT~l~~~~~~~~   68 (387)
T 2v1u_A           42 EKPSNALLYGLTGTGKTAVARLVLRRL   68 (387)
T ss_dssp             CCCCCEEECBCTTSSHHHHHHHHHHHH
T ss_pred             CCCCcEEEECCCCCCHHHHHHHHHHHH
Confidence            356789999999999999999988765

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=94.40  E-value=0.1  Score=53.89  Aligned_cols=69  Identities=13%  Similarity=0.101  Sum_probs=42.9

Q ss_pred             CCceEE--eccCCCcHhHHHHHHHHHc---------CCeEEEEEecCCCChhhH----------------------HHHH
Q psy12736        447 RGHCMV--VGVEGGGKRSLVRLASFAA---------GYQVFTIQLSRGYNEASF----------------------KEDL  493 (567)
Q Consensus       447 ~Gh~LL--vG~~GsGr~sl~rlaa~i~---------~~~~~~i~~~k~y~~~~f----------------------~edL  493 (567)
                      .+++++  .|++|+||++|++..+...         +..++.+......+..++                      .+.+
T Consensus        50 ~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l  129 (412)
T 1w5s_A           50 DVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLYTILSLIVRQTGYPIQVRGAPALDILKAL  129 (412)
T ss_dssp             CEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHH
T ss_pred             CCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHH
Confidence            456778  8999999999998776543         455666664333332222                      2222


Q ss_pred             HHHHHHhccCCCcEEEEEecCcccc
Q psy12736        494 KSLYNLLGVKNQATVFLFTAAEIVE  518 (567)
Q Consensus       494 k~~~~~ag~~~~~~vfl~~d~qi~~  518 (567)
                      ...+.   ..+++++++++|.|-..
T Consensus       130 ~~~l~---~~~~~~llvlDe~~~l~  151 (412)
T 1w5s_A          130 VDNLY---VENHYLLVILDEFQSML  151 (412)
T ss_dssp             HHHHH---HHTCEEEEEEESTHHHH
T ss_pred             HHHHH---hcCCeEEEEEeCHHHHh
Confidence            22322   13578999999987653

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=94.38  E-value=0.02  Score=51.86  Aligned_cols=26  Identities=27%  Similarity=0.373  Sum_probs=21.7

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+..+.|+||+|||||++.+.+...+
T Consensus         3 ~~~~i~l~G~~GsGKSTl~~~La~~l   28 (173)
T 1kag_A            3 EKRNIFLVGPMGAGKSTIGRQLAQQL   28 (173)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHHHT
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHh
Confidence            35789999999999999998776654

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=94.36  E-value=0.017  Score=59.70  Aligned_cols=26  Identities=27%  Similarity=0.434  Sum_probs=23.1

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ...++||+||||||||++++.+.+.+
T Consensus        71 ~~~~ill~Gp~GtGKT~la~~la~~l   96 (376)
T 1um8_A           71 SKSNILLIGPTGSGKTLMAQTLAKHL   96 (376)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCCCEEEECCCCCCHHHHHHHHHHHh
Confidence            46799999999999999999887766

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A*

Probab=94.34  E-value=0.022  Score=60.69  Aligned_cols=25  Identities=32%  Similarity=0.530  Sum_probs=22.3

Q ss_pred             CCeEEeccCCCCchhhHHHHHhccC
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      +++||+||||||||++++.+-+.+.
T Consensus        64 ~~iLl~GppGtGKT~la~ala~~l~   88 (456)
T 2c9o_A           64 RAVLLAGPPGTGKTALALAIAQELG   88 (456)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CeEEEECCCcCCHHHHHHHHHHHhC
Confidence            5799999999999999998887764

>2gno_A DNA polymerase III, gamma subunit-related protein; structural genomics, joint center for structural genomics, J protein structure initiative; HET: DNA; 2.00A {Thermotoga maritima} SCOP: a.80.1.1 c.37.1.20

Probab=94.31  E-value=0.14  Score=51.40  Aligned_cols=78  Identities=12%  Similarity=0.127  Sum_probs=50.4

Q ss_pred             HHHHHHhcCCCc-eEEeccCCCcHhHHHHHHHHHc------CCeEEEEEecC-CCChhhHHHHHHHHHHHh---ccCCCc
Q psy12736        438 RIHRALRLSRGH-CMVVGVEGGGKRSLVRLASFAA------GYQVFTIQLSR-GYNEASFKEDLKSLYNLL---GVKNQA  506 (567)
Q Consensus       438 ri~RvL~~p~Gh-~LLvG~~GsGr~sl~rlaa~i~------~~~~~~i~~~k-~y~~~~f~edLk~~~~~a---g~~~~~  506 (567)
                      ++.+.+...++| .||.|++|+||+++++..|.-+      ..++..++.+. ..+..+    ++.+...+   ...+..
T Consensus         8 ~L~~~i~~~~~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~~~~~~~~id~----ir~li~~~~~~p~~~~~   83 (305)
T 2gno_A            8 TLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDD----IRTIKDFLNYSPELYTR   83 (305)
T ss_dssp             HHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCHHH----HHHHHHHHTSCCSSSSS
T ss_pred             HHHHHHHCCCCcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEcCCcCCCCHHH----HHHHHHHHhhccccCCc
Confidence            455667766654 5899999999999998877642      34677776553 456544    44444444   334556


Q ss_pred             EEEEEecCcccch
Q psy12736        507 TVFLFTAAEIVEE  519 (567)
Q Consensus       507 ~vfl~~d~qi~~e  519 (567)
                      -|+++++.+-...
T Consensus        84 kvviIdead~lt~   96 (305)
T 2gno_A           84 KYVIVHDCERMTQ   96 (305)
T ss_dssp             EEEEETTGGGBCH
T ss_pred             eEEEeccHHHhCH
Confidence            6777777665543

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=94.30  E-value=0.02  Score=53.47  Aligned_cols=27  Identities=15%  Similarity=0.182  Sum_probs=23.4

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..+.-+.|+||+|||||++++.+...+
T Consensus         4 ~~g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            4 EKGLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CCCCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            457789999999999999998887766

>1u0j_A DNA replication protein; AAA+ protein, P-loop atpases, helicase; HET: DNA ADP; 2.10A {Adeno-associated virus - 2} SCOP: c.37.1.20 PDB: 1s9h_A

Probab=94.28  E-value=0.036  Score=54.70  Aligned_cols=40  Identities=15%  Similarity=0.091  Sum_probs=31.0

Q ss_pred             chhhHHHHHHHHHhcC----CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        178 DSTKLTWILSLMNEIK----RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       178 dtvR~~~ll~~ll~~~----~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      |-+.....+..+++..    ..++|+||||||||.++..+.+..
T Consensus        85 ~~~~~~~~l~~~l~~~~~~~n~~~l~GppgtGKt~~a~ala~~~  128 (267)
T 1u0j_A           85 DPQYAASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             CHHHHHHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CHHHHHHHHHHHHhCCCCCCcEEEEECCCCCCHHHHHHHHHhhh
Confidence            4455666677788754    259999999999999999887753

>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=94.23  E-value=0.013  Score=54.17  Aligned_cols=26  Identities=12%  Similarity=0.101  Sum_probs=22.1

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ..|..+.++||+|||||++++.+...
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            45778999999999999999887654

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=94.23  E-value=0.017  Score=53.06  Aligned_cols=25  Identities=16%  Similarity=0.165  Sum_probs=22.0

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+.++++|++|||||++.+.+.+.+
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l   29 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLT   29 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            5679999999999999999887765

>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=94.16  E-value=0.02  Score=54.82  Aligned_cols=30  Identities=17%  Similarity=0.230  Sum_probs=24.3

Q ss_pred             HHhcCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        189 MNEIKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       189 ll~~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .+..|..+.|+||+|+|||++++.++...+
T Consensus        12 ~~~~G~ii~l~GpsGsGKSTLlk~L~g~~~   41 (219)
T 1s96_A           12 HMAQGTLYIVSAPSGAGKSSLIQALLKTQP   41 (219)
T ss_dssp             ---CCCEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             cCCCCcEEEEECCCCCCHHHHHHHHhccCC
Confidence            456788999999999999999999877665

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=94.15  E-value=0.02  Score=53.36  Aligned_cols=28  Identities=18%  Similarity=0.339  Sum_probs=23.4

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ..|.-+.|+||+|||||++++.+...++
T Consensus         5 ~~g~ii~l~Gp~GsGKSTl~~~L~~~~~   32 (205)
T 3tr0_A            5 NKANLFIISAPSGAGKTSLVRALVKALA   32 (205)
T ss_dssp             CCCCEEEEECCTTSCHHHHHHHHHHHSS
T ss_pred             CCCcEEEEECcCCCCHHHHHHHHHhhCC
Confidence            4577889999999999999998776653

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=94.12  E-value=0.031  Score=61.86  Aligned_cols=39  Identities=18%  Similarity=0.296  Sum_probs=32.5

Q ss_pred             HHHHHHHHHhcCCCeEEeccCCCCchhhHHHHHhccCCC
Q psy12736        182 LTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLSPD  220 (567)
Q Consensus       182 ~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~~~  220 (567)
                      ...-+...+..+.+++|+||+|||||++++.+...++..
T Consensus        49 ~l~~l~~~i~~g~~vll~Gp~GtGKTtlar~ia~~l~~~   87 (604)
T 3k1j_A           49 AVEVIKTAANQKRHVLLIGEPGTGKSMLGQAMAELLPTE   87 (604)
T ss_dssp             HHHHHHHHHHTTCCEEEECCTTSSHHHHHHHHHHTSCCS
T ss_pred             hHhhccccccCCCEEEEEeCCCCCHHHHHHHHhccCCcc
Confidence            335677778899999999999999999999988876544

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=94.07  E-value=0.016  Score=57.86  Aligned_cols=25  Identities=24%  Similarity=0.327  Sum_probs=21.8

Q ss_pred             CCeEEeccCCCCchhhHHHHHhccC
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .+++|+||+|||||++++.+...+.
T Consensus        48 ~~~ll~G~~GtGKt~la~~la~~~~   72 (311)
T 4fcw_A           48 GSFLFLGPTGVGKTELAKTLAATLF   72 (311)
T ss_dssp             EEEEEESCSSSSHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHHHHc
Confidence            5899999999999999998877653

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=94.07  E-value=0.026  Score=52.05  Aligned_cols=29  Identities=17%  Similarity=0.226  Sum_probs=24.2

Q ss_pred             HHhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        189 MNEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       189 ll~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ++..+..+.++|++|||||++.+.+.+.+
T Consensus         5 ~m~~~~~I~l~G~~GsGKsT~~~~La~~l   33 (196)
T 2c95_A            5 KLKKTNIIFVVGGPGSGKGTQCEKIVQKY   33 (196)
T ss_dssp             HHTTSCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             cCcCCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            45567789999999999999998877655

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=94.05  E-value=0.17  Score=50.70  Aligned_cols=97  Identities=15%  Similarity=0.166  Sum_probs=58.5

Q ss_pred             HHHHHHHHHHHHHhcCCCceEEeccCCCcHhHHHHHHHHHc---CCeEEEEEecCCCChhhHHHHH--------------
Q psy12736        431 DAREHLTRIHRALRLSRGHCMVVGVEGGGKRSLVRLASFAA---GYQVFTIQLSRGYNEASFKEDL--------------  493 (567)
Q Consensus       431 dai~hi~ri~RvL~~p~Gh~LLvG~~GsGr~sl~rlaa~i~---~~~~~~i~~~k~y~~~~f~edL--------------  493 (567)
                      .++..+.+..+.......++||.|++|+||+.++|..+..+   +..++.++.+.- ....+...|              
T Consensus         9 ~~~~~~~~~~~~~a~~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~~~v~v~~~~~-~~~l~~~~lfg~~~g~~tg~~~~   87 (304)
T 1ojl_A            9 PAMQHLLNEIAMVAPSDATVLIHGDSGTGKELVARALHACSARSDRPLVTLNCAAL-NESLLESELFGHEKGAFTGADKR   87 (304)
T ss_dssp             HHHHHHHHHHHHHCSTTSCEEEESCTTSCHHHHHHHHHHHSSCSSSCCCEEECSSC-CHHHHHHHHTCCCSSCCC---CC
T ss_pred             HHHHHHHHHHHHHhCCCCcEEEECCCCchHHHHHHHHHHhCcccCCCeEEEeCCCC-ChHHHHHHhcCccccccCchhhh
Confidence            45555555555555667899999999999999999888765   456777765531 111111111              


Q ss_pred             -HHHHHHhccCCCcEEEEEecCcccchhhhHHhh-hccCCc
Q psy12736        494 -KSLYNLLGVKNQATVFLFTAAEIVEEGYQVFTI-QLSRGY  532 (567)
Q Consensus       494 -k~~~~~ag~~~~~~vfl~~d~qi~~e~fle~in-lL~~Ge  532 (567)
                       ...+..|.    .-+++++|-+-........+- +|..++
T Consensus        88 ~~g~~~~a~----~g~L~LDEi~~l~~~~q~~Ll~~l~~~~  124 (304)
T 1ojl_A           88 REGRFVEAD----GGTLFLDEIGDISPLMQVRLLRAIQERE  124 (304)
T ss_dssp             CCCHHHHHT----TSEEEEESCTTCCHHHHHHHHHHHHSSB
T ss_pred             hcCHHHhcC----CCEEEEeccccCCHHHHHHHHHHHhcCE
Confidence             11222221    235677887766666655555 666654

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=94.04  E-value=0.18  Score=51.58  Aligned_cols=36  Identities=11%  Similarity=0.133  Sum_probs=29.7

Q ss_pred             CCceEEeccCCCcHhHHHHHHHHHc-----------CCeEEEEEecC
Q psy12736        447 RGHCMVVGVEGGGKRSLVRLASFAA-----------GYQVFTIQLSR  482 (567)
Q Consensus       447 ~Gh~LLvG~~GsGr~sl~rlaa~i~-----------~~~~~~i~~~k  482 (567)
                      .++++|.|++|+||+++++..+...           +..++.++...
T Consensus        45 ~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~~   91 (384)
T 2qby_B           45 KFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCRE   91 (384)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHHH
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECcc
Confidence            4578999999999999998887765           78888887554

>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=94.02  E-value=0.031  Score=60.28  Aligned_cols=27  Identities=22%  Similarity=0.228  Sum_probs=23.1

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ....++||+||+|||||++++.+.+.+
T Consensus       236 ~~~~~vLL~GppGtGKT~lAraia~~~  262 (489)
T 3hu3_A          236 KPPRGILLYGPPGTGKTLIARAVANET  262 (489)
T ss_dssp             CCCCEEEEECSTTSSHHHHHHHHHHHC
T ss_pred             CCCCcEEEECcCCCCHHHHHHHHHHHh
Confidence            456789999999999999999887654

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=94.02  E-value=0.023  Score=60.92  Aligned_cols=27  Identities=22%  Similarity=0.423  Sum_probs=23.2

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ....|+||+||||||||++++.+...+
T Consensus       199 ~~~~~~LL~G~pG~GKT~la~~la~~l  225 (468)
T 3pxg_A          199 RTKNNPVLIGEPGVGKTAIAEGLAQQI  225 (468)
T ss_dssp             SSSCEEEEESCTTTTTHHHHHHHHHHH
T ss_pred             cCCCCeEEECCCCCCHHHHHHHHHHHH
Confidence            356789999999999999999887664

>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=93.99  E-value=0.021  Score=51.33  Aligned_cols=22  Identities=14%  Similarity=0.234  Sum_probs=18.7

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      -++++||+|||||++.+.+ ..+
T Consensus         3 ~I~l~G~~GsGKsT~a~~L-~~~   24 (179)
T 3lw7_A            3 VILITGMPGSGKSEFAKLL-KER   24 (179)
T ss_dssp             EEEEECCTTSCHHHHHHHH-HHT
T ss_pred             EEEEECCCCCCHHHHHHHH-HHC
Confidence            4789999999999999887 543

>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=93.98  E-value=0.023  Score=51.98  Aligned_cols=26  Identities=15%  Similarity=0.203  Sum_probs=22.6

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .++.++++|++|||||++.+.+-..+
T Consensus        10 ~~~~i~i~G~~GsGKst~~~~l~~~~   35 (180)
T 3iij_A           10 LLPNILLTGTPGVGKTTLGKELASKS   35 (180)
T ss_dssp             CCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cCCeEEEEeCCCCCHHHHHHHHHHHh
Confidence            46789999999999999999877665

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=93.96  E-value=0.022  Score=56.50  Aligned_cols=25  Identities=16%  Similarity=0.169  Sum_probs=21.2

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+.++|+||+|||||++++.+...+
T Consensus        44 ~~GvlL~Gp~GtGKTtLakala~~~   68 (274)
T 2x8a_A           44 PAGVLLAGPPGCGKTLLAKAVANES   68 (274)
T ss_dssp             CSEEEEESSTTSCHHHHHHHHHHHT
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHc
Confidence            3459999999999999999887654

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=93.94  E-value=0.075  Score=47.47  Aligned_cols=72  Identities=18%  Similarity=0.063  Sum_probs=44.0

Q ss_pred             CCCceEEeccCCCcHhHHHHHHHHHc---CCeEEEEEecCCCChhhHHHHHHHHHHHhccCCCcEEEEEecCcccc----
Q psy12736        446 SRGHCMVVGVEGGGKRSLVRLASFAA---GYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVE----  518 (567)
Q Consensus       446 p~Gh~LLvG~~GsGr~sl~rlaa~i~---~~~~~~i~~~k~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~qi~~----  518 (567)
                      ++..+.|+|++|+||++|++..+...   |.....+....-... +             ...++-+++++|-+..+    
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~~~~g~~~~~~~~~~~~~~-~-------------~~~~~~lLilDE~~~~~~~~~  100 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQALEAGKNAAYIDAASMPLT-D-------------AAFEAEYLAVDQVEKLGNEEQ  100 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHHHTTTCCEEEEETTTSCCC-G-------------GGGGCSEEEEESTTCCCSHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEcHHHhhHH-H-------------HHhCCCEEEEeCccccChHHH
Confidence            56678999999999999999988765   655655543321111 0             11235566677655433    


Q ss_pred             hhhhHHhh-hccCC
Q psy12736        519 EGYQVFTI-QLSRG  531 (567)
Q Consensus       519 e~fle~in-lL~~G  531 (567)
                      +.+++.+| +...|
T Consensus       101 ~~l~~li~~~~~~g  114 (149)
T 2kjq_A          101 ALLFSIFNRFRNSG  114 (149)
T ss_dssp             HHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHcC
Confidence            34555566 55444

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=93.94  E-value=0.021  Score=59.41  Aligned_cols=26  Identities=19%  Similarity=0.188  Sum_probs=22.7

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..+++||+||+|||||++++.+.+.+
T Consensus       147 ~~~~vLL~GppGtGKT~la~aia~~~  172 (389)
T 3vfd_A          147 PARGLLLFGPPGNGKTMLAKAVAAES  172 (389)
T ss_dssp             CCSEEEEESSTTSCHHHHHHHHHHHT
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHhh
Confidence            35799999999999999999887664

>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=93.88  E-value=0.022  Score=51.26  Aligned_cols=23  Identities=17%  Similarity=0.185  Sum_probs=20.0

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      -++++|++|||||++.+.+...+
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~~~l   25 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLSKEL   25 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999887665

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=93.87  E-value=0.021  Score=55.77  Aligned_cols=67  Identities=16%  Similarity=0.275  Sum_probs=42.2

Q ss_pred             CCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCC---C-ChhhHHHHHHHHHHHhccCCCcEEEEEecCcc
Q psy12736        447 RGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRG---Y-NEASFKEDLKSLYNLLGVKNQATVFLFTAAEI  516 (567)
Q Consensus       447 ~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~---y-~~~~f~edLk~~~~~ag~~~~~~vfl~~d~qi  516 (567)
                      ..++||.|++|+||+++++..|...+..++.+..+.-   | +...  ..++.++..+. ...+.+++++|-+-
T Consensus        44 ~~~vll~G~~GtGKT~la~~la~~~~~~~~~v~~~~~~~~~~~~~~--~~~~~~~~~a~-~~~~~vl~iDEid~  114 (268)
T 2r62_A           44 PKGVLLVGPPGTGKTLLAKAVAGEAHVPFFSMGGSSFIEMFVGLGA--SRVRDLFETAK-KQAPSIIFIDEIDA  114 (268)
T ss_dssp             CSCCCCBCSSCSSHHHHHHHHHHHHTCCCCCCCSCTTTTSCSSSCS--SSSSTTHHHHH-HSCSCEEEESCGGG
T ss_pred             CceEEEECCCCCcHHHHHHHHHHHhCCCEEEechHHHHHhhcchHH--HHHHHHHHHHH-hcCCeEEEEeChhh
Confidence            3458999999999999999999888887777654321   1 1000  11233333332 23567888887643

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=93.85  E-value=0.044  Score=56.24  Aligned_cols=25  Identities=24%  Similarity=0.371  Sum_probs=22.4

Q ss_pred             CeEEeccCCCCchhhHHHHHhccCC
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      +++++||+|||||++++.+.+.+..
T Consensus        46 ~~li~G~~G~GKTtl~~~l~~~~~~   70 (389)
T 1fnn_A           46 RATLLGRPGTGKTVTLRKLWELYKD   70 (389)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHhh
Confidence            7999999999999999999887653

>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=93.72  E-value=0.028  Score=57.99  Aligned_cols=33  Identities=24%  Similarity=0.367  Sum_probs=26.4

Q ss_pred             HHHHHhcCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        186 LSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       186 l~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      -+.+...+.-++++||+|||||++++.++..++
T Consensus       116 ~~l~~~~~g~i~I~GptGSGKTTlL~~l~g~~~  148 (356)
T 3jvv_A          116 KRVSDVPRGLVLVTGPTGSGKSTTLAAMLDYLN  148 (356)
T ss_dssp             HHHHHCSSEEEEEECSTTSCHHHHHHHHHHHHH
T ss_pred             HHHHhCCCCEEEEECCCCCCHHHHHHHHHhccc
Confidence            344455666899999999999999999887654

>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=93.71  E-value=0.035  Score=55.42  Aligned_cols=32  Identities=22%  Similarity=0.288  Sum_probs=24.8

Q ss_pred             HHHHHhcCC--CeEEeccCCCCchhhHHHHHhcc
Q psy12736        186 LSLMNEIKR--PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       186 l~~ll~~~~--pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +..++.+++  +++++||+|||||++++.+.+.+
T Consensus        33 l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l   66 (323)
T 1sxj_B           33 LQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHEL   66 (323)
T ss_dssp             HHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHh
Confidence            344455543  59999999999999999887764

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=93.71  E-value=0.021  Score=56.21  Aligned_cols=29  Identities=21%  Similarity=0.383  Sum_probs=25.1

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      +..|.-+.++||+|||||++++.++.-++
T Consensus        22 i~~g~~v~i~Gp~GsGKSTll~~l~g~~~   50 (261)
T 2eyu_A           22 HRKMGLILVTGPTGSGKSTTIASMIDYIN   50 (261)
T ss_dssp             GCSSEEEEEECSTTCSHHHHHHHHHHHHH
T ss_pred             hCCCCEEEEECCCCccHHHHHHHHHHhCC
Confidence            66788999999999999999998877543

>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=93.68  E-value=0.037  Score=59.33  Aligned_cols=25  Identities=24%  Similarity=0.272  Sum_probs=21.8

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+++||+||+|||||++++.+....
T Consensus        49 p~gvLL~GppGtGKT~Laraia~~~   73 (476)
T 2ce7_A           49 PKGILLVGPPGTGKTLLARAVAGEA   73 (476)
T ss_dssp             CSEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHc
Confidence            4679999999999999999887654

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=93.67  E-value=0.026  Score=57.74  Aligned_cols=25  Identities=36%  Similarity=0.381  Sum_probs=22.7

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +.+++++||+|||||++++.+.+.+
T Consensus        45 ~~~vli~G~~G~GKTtl~~~l~~~~   69 (386)
T 2qby_A           45 PNNIFIYGLTGTGKTAVVKFVLSKL   69 (386)
T ss_dssp             CCCEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH
Confidence            6789999999999999999988765

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=93.61  E-value=0.22  Score=49.93  Aligned_cols=40  Identities=20%  Similarity=0.222  Sum_probs=27.9

Q ss_pred             HHHHHHhcCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEe
Q psy12736        438 RIHRALRLSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQL  480 (567)
Q Consensus       438 ri~RvL~~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~  480 (567)
                      ++.+.+.. ++.+++.|+.|+||++|++-.+.-.+  .+.+..
T Consensus        23 ~L~~~l~~-~~~v~i~G~~G~GKT~Ll~~~~~~~~--~~~~~~   62 (350)
T 2qen_A           23 KLEESLEN-YPLTLLLGIRRVGKSSLLRAFLNERP--GILIDC   62 (350)
T ss_dssp             HHHHHHHH-CSEEEEECCTTSSHHHHHHHHHHHSS--EEEEEH
T ss_pred             HHHHHHhc-CCeEEEECCCcCCHHHHHHHHHHHcC--cEEEEe
Confidence            33344443 37889999999999999987776554  444544

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=93.60  E-value=0.028  Score=50.98  Aligned_cols=21  Identities=19%  Similarity=0.378  Sum_probs=18.6

Q ss_pred             CeEEeccCCCCchhhHHHHHh
Q psy12736        195 PCIVVGDTGTSKTATMMNFLR  215 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~  215 (567)
                      -++++|++|||||++++.+..
T Consensus         4 ~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            4 IILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEecCCCCCHHHHHHHHHh
Confidence            478999999999999988776

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=93.56  E-value=0.026  Score=56.37  Aligned_cols=26  Identities=15%  Similarity=0.267  Sum_probs=22.0

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      +.-++++||+|||||++++.+...++
T Consensus        33 ~~livl~G~sGsGKSTla~~L~~~~~   58 (287)
T 1gvn_B           33 PTAFLLGGQPGSGKTSLRSAIFEETQ   58 (287)
T ss_dssp             CEEEEEECCTTSCTHHHHHHHHHHTT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            34588999999999999999987653

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=93.52  E-value=0.14  Score=49.97  Aligned_cols=57  Identities=12%  Similarity=0.104  Sum_probs=39.4

Q ss_pred             eEEeccCCCcHhHHHHHHHHHcCCeEEEEEec--------------------------------C-CCChhhHHHHHHHH
Q psy12736        450 CMVVGVEGGGKRSLVRLASFAAGYQVFTIQLS--------------------------------R-GYNEASFKEDLKSL  496 (567)
Q Consensus       450 ~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~--------------------------------k-~y~~~~f~edLk~~  496 (567)
                      ++++|++||||+++++..|--.++.++.....                                . .|+..+|.+..+.+
T Consensus         4 i~I~G~~GSGKSTla~~La~~~~~~~i~~D~~~~~~~~~~~t~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~   83 (253)
T 2ze6_A            4 HLIYGPTCSGKTDMAIQIAQETGWPVVALDRVQCCPQIATGSGRPLESELQSTRRIYLDSRPLTEGILDAESAHRRLIFE   83 (253)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHCCCEEECCSGGGCGGGTTTTTCCCGGGGTTCCEECSCCCCGGGCSCCHHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHhcCCCeEEeccHHhccCCCccccCCCCHHHHhCCCeEEEeeeccccccccHHHHHHHHHHH
Confidence            57999999999999997666667776654210                                0 46777888888888


Q ss_pred             HHHhccCCCcE
Q psy12736        497 YNLLGVKNQAT  507 (567)
Q Consensus       497 ~~~ag~~~~~~  507 (567)
                      + .+-..++.+
T Consensus        84 i-~~~~~g~~v   93 (253)
T 2ze6_A           84 V-DWRKSEEGL   93 (253)
T ss_dssp             H-HTTTTSSEE
T ss_pred             H-HHHhCCCCe
Confidence            7 543344443

>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=93.51  E-value=0.027  Score=51.63  Aligned_cols=26  Identities=19%  Similarity=0.299  Sum_probs=22.1

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      +..++++|++|||||++++.+...+.
T Consensus         3 ~~~I~i~G~~GsGKsT~~~~L~~~l~   28 (192)
T 1kht_A            3 NKVVVVTGVPGVGSTTSSQLAMDNLR   28 (192)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            56789999999999999988876653

>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=93.50  E-value=0.037  Score=58.41  Aligned_cols=35  Identities=23%  Similarity=0.283  Sum_probs=26.8

Q ss_pred             HHHHHH-hcCCCeEEeccCCCCchhhHHHHHhccCC
Q psy12736        185 ILSLMN-EIKRPCIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       185 ll~~ll-~~~~pvLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      +++.++ ..+.-++++||+|||||++++.++..+++
T Consensus       158 ~L~~l~~~~ggii~I~GpnGSGKTTlL~allg~l~~  193 (418)
T 1p9r_A          158 NFRRLIKRPHGIILVTGPTGSGKSTTLYAGLQELNS  193 (418)
T ss_dssp             HHHHHHTSSSEEEEEECSTTSCHHHHHHHHHHHHCC
T ss_pred             HHHHHHHhcCCeEEEECCCCCCHHHHHHHHHhhcCC
Confidence            333333 34567899999999999999999887654

>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=93.41  E-value=0.031  Score=51.71  Aligned_cols=23  Identities=26%  Similarity=0.505  Sum_probs=19.9

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+.++||+|+|||++++.+...+
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l   24 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            57899999999999998877654

>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=93.40  E-value=0.028  Score=58.35  Aligned_cols=30  Identities=20%  Similarity=0.360  Sum_probs=25.8

Q ss_pred             HHhcCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        189 MNEIKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       189 ll~~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .+..+..++++||+|||||++++.++..++
T Consensus       132 ~~~~g~~i~ivG~~GsGKTTll~~l~~~~~  161 (372)
T 2ewv_A          132 CHRKMGLILVTGPTGSGKSTTIASMIDYIN  161 (372)
T ss_dssp             TTSSSEEEEEECSSSSSHHHHHHHHHHHHH
T ss_pred             hhcCCCEEEEECCCCCCHHHHHHHHHhhcC
Confidence            356788899999999999999999887654

>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=93.38  E-value=0.039  Score=56.45  Aligned_cols=24  Identities=21%  Similarity=0.344  Sum_probs=20.9

Q ss_pred             CeEEeccCCCCchhhHHHHHhccC
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .++++||+|||||++++.+.+.+.
T Consensus        40 ~~ll~G~~G~GKT~la~~la~~l~   63 (373)
T 1jr3_A           40 AYLFSGTRGVGKTSIARLLAKGLN   63 (373)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            489999999999999998877654

>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=93.37  E-value=0.035  Score=52.27  Aligned_cols=30  Identities=10%  Similarity=0.235  Sum_probs=23.5

Q ss_pred             HHhcCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        189 MNEIKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       189 ll~~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      -+..|.-+.|+||+|+|||++++.+..-++
T Consensus        16 ~i~~Gei~~l~GpnGsGKSTLl~~l~gl~~   45 (207)
T 1znw_A           16 PAAVGRVVVLSGPSAVGKSTVVRCLRERIP   45 (207)
T ss_dssp             ---CCCEEEEECSTTSSHHHHHHHHHHHST
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHHhhCC
Confidence            356788999999999999999988776553

>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=93.36  E-value=0.022  Score=52.41  Aligned_cols=26  Identities=27%  Similarity=0.258  Sum_probs=21.6

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+.-++++|++|||||++++.+...+
T Consensus         4 ~~~~I~l~G~~GsGKST~~~~L~~~l   29 (193)
T 2rhm_A            4 TPALIIVTGHPATGKTTLSQALATGL   29 (193)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHc
Confidence            34568999999999999998877655

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=93.29  E-value=0.02  Score=52.37  Aligned_cols=23  Identities=13%  Similarity=0.313  Sum_probs=19.7

Q ss_pred             cCCCeEEeccCCCCchhhHHHHH
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFL  214 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l  214 (567)
                      .|.-+.++||+|||||++++.++
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            46678999999999999999743

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=93.22  E-value=0.16  Score=51.51  Aligned_cols=72  Identities=14%  Similarity=0.218  Sum_probs=51.4

Q ss_pred             ceEEeccCCCcHhHHHHHHHHHcCCeEEEEE--------------------------------ecCCCChhhHHHHHHHH
Q psy12736        449 HCMVVGVEGGGKRSLVRLASFAAGYQVFTIQ--------------------------------LSRGYNEASFKEDLKSL  496 (567)
Q Consensus       449 h~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~--------------------------------~~k~y~~~~f~edLk~~  496 (567)
                      .++|+|++||||+++++..|.-.+..++...                                +...|+..+|+++.+.+
T Consensus         7 ~i~i~GptGsGKTtla~~La~~l~~~iis~Ds~qvy~~~~igTakp~~~e~~gvph~lid~~~~~~~~~~~~F~~~a~~~   86 (323)
T 3crm_A            7 AIFLMGPTAAGKTDLAMALADALPCELISVDSALIYRGMDIGTAKPSRELLARYPHRLIDIRDPAESYSAAEFRADALAA   86 (323)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHSCEEEEEECTTTTBTTCCTTTTCCCHHHHHHSCEETSSCBCTTSCCCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCcEEeccchhhhcCCCcccCCCCHHHHcCCCEEEeeccCcccccCHHHHHHHHHHH
Confidence            4689999999999999887777777776652                                12567888999999888


Q ss_pred             HHHhccCCCcEEEEEecCcccchhh
Q psy12736        497 YNLLGVKNQATVFLFTAAEIVEEGY  521 (567)
Q Consensus       497 ~~~ag~~~~~~vfl~~d~qi~~e~f  521 (567)
                      +...-..+ .+++++-.+.+--.+.
T Consensus        87 i~~i~~~g-~~~IlvGGt~~y~~al  110 (323)
T 3crm_A           87 MAKATARG-RIPLLVGGTMLYYKAL  110 (323)
T ss_dssp             HHHHHHTT-CEEEEEESCHHHHHHH
T ss_pred             HHHHHHcC-CeEEEECCchhhHHHH
Confidence            87765444 4556666655433333

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=93.21  E-value=0.04  Score=55.49  Aligned_cols=31  Identities=16%  Similarity=0.120  Sum_probs=25.7

Q ss_pred             HHHHhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        187 SLMNEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       187 ~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..++..+..++++||+|+|||++++.+++..
T Consensus        25 ~~~l~~~~~v~i~G~~G~GKT~Ll~~~~~~~   55 (350)
T 2qen_A           25 EESLENYPLTLLLGIRRVGKSSLLRAFLNER   55 (350)
T ss_dssp             HHHHHHCSEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             HHHHhcCCeEEEECCCcCCHHHHHHHHHHHc
Confidence            3345557899999999999999999998764

>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=93.15  E-value=0.034  Score=51.96  Aligned_cols=30  Identities=20%  Similarity=0.244  Sum_probs=24.7

Q ss_pred             HHHhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        188 LMNEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       188 ~ll~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .....+.-+.++||+|||||++.+.+...+
T Consensus        20 ~~~~~g~~i~l~G~sGsGKSTl~~~La~~l   49 (200)
T 3uie_A           20 LLDQKGCVIWVTGLSGSGKSTLACALNQML   49 (200)
T ss_dssp             HHTSCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             hcCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            344567889999999999999998887665

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=93.12  E-value=0.025  Score=51.86  Aligned_cols=26  Identities=19%  Similarity=0.395  Sum_probs=21.8

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+..++++|++|||||++.+.+.+.+
T Consensus         3 ~g~~I~l~G~~GsGKST~~~~La~~l   28 (186)
T 3cm0_A            3 VGQAVIFLGPPGAGKGTQASRLAQEL   28 (186)
T ss_dssp             CEEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            45678999999999999998877654

>3llm_A ATP-dependent RNA helicase A; alpha-beta-alpha, structural genomics, structural genomics consortium, SGC, activator, ATP-binding, DNA-binding; HET: ADP; 2.80A {Homo sapiens}

Probab=93.06  E-value=0.035  Score=53.33  Aligned_cols=25  Identities=28%  Similarity=0.410  Sum_probs=20.8

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHHH
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNFL  214 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~l  214 (567)
                      +..|+.++++||||||||+.+...+
T Consensus        73 i~~g~~~~i~g~TGsGKTt~~~~~~   97 (235)
T 3llm_A           73 ISQNSVVIIRGATGCGKTTQVPQFI   97 (235)
T ss_dssp             HHHCSEEEEECCTTSSHHHHHHHHH
T ss_pred             HhcCCEEEEEeCCCCCcHHhHHHHH
Confidence            4468899999999999998776654

>1g41_A Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dependent proteolysis, chaperone; HET: ADP; 2.30A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1g3i_A* 1im2_A* 1kyi_A* 1g4a_E* 1g4b_E 1yyf_A* 1do0_A* 1do2_A* 1e94_E* 1hqy_E* 1ht1_E* 1ht2_E*

Probab=93.05  E-value=0.11  Score=55.15  Aligned_cols=36  Identities=17%  Similarity=0.302  Sum_probs=32.8

Q ss_pred             CCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEec
Q psy12736        446 SRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLS  481 (567)
Q Consensus       446 p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~  481 (567)
                      +.+|+||.|++|+||++++|..|...+..++.+..+
T Consensus        49 ~~~~iLl~GppGtGKT~lar~lA~~l~~~~~~v~~~   84 (444)
T 1g41_A           49 TPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEAT   84 (444)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEGG
T ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHcCCCceeecch
Confidence            568899999999999999999999999999998754

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=93.04  E-value=0.036  Score=51.77  Aligned_cols=26  Identities=23%  Similarity=0.316  Sum_probs=22.2

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+.-+.|+||+|||||++++.+...+
T Consensus        28 ~g~~i~l~G~~GsGKSTl~~~L~~~~   53 (200)
T 4eun_A           28 PTRHVVVMGVSGSGKTTIAHGVADET   53 (200)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhh
Confidence            46779999999999999998876654

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=93.04  E-value=0.43  Score=47.84  Aligned_cols=43  Identities=19%  Similarity=0.381  Sum_probs=31.3

Q ss_pred             HHHHHHHHhcCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEec
Q psy12736        436 LTRIHRALRLSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLS  481 (567)
Q Consensus       436 i~ri~RvL~~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~  481 (567)
                      +.++.+ +..  +.+++.|++|+||++|++-.+.-.+.....+...
T Consensus        22 l~~L~~-l~~--~~v~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~   64 (357)
T 2fna_A           22 IEKLKG-LRA--PITLVLGLRRTGKSSIIKIGINELNLPYIYLDLR   64 (357)
T ss_dssp             HHHHHH-TCS--SEEEEEESTTSSHHHHHHHHHHHHTCCEEEEEGG
T ss_pred             HHHHHH-hcC--CcEEEECCCCCCHHHHHHHHHHhcCCCEEEEEch
Confidence            334555 544  6899999999999999987776655555566654

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=93.00  E-value=0.042  Score=61.29  Aligned_cols=29  Identities=28%  Similarity=0.352  Sum_probs=22.7

Q ss_pred             HHhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        189 MNEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       189 ll~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+.++-..|+.||||||||.++...+..+
T Consensus       201 al~~~~~~lI~GPPGTGKT~ti~~~I~~l  229 (646)
T 4b3f_X          201 ALSQKELAIIHGPPGTGKTTTVVEIILQA  229 (646)
T ss_dssp             HHHCSSEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HhcCCCceEEECCCCCCHHHHHHHHHHHH
Confidence            34445578999999999999998877654

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=92.99  E-value=0.12  Score=56.44  Aligned_cols=36  Identities=25%  Similarity=0.286  Sum_probs=32.2

Q ss_pred             CCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEec
Q psy12736        446 SRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLS  481 (567)
Q Consensus       446 p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~  481 (567)
                      ++.+++|+|++|+||++++|..|...+..+..+.+.
T Consensus       107 ~g~~vll~Gp~GtGKTtlar~ia~~l~~~~~~i~~~  142 (543)
T 3m6a_A          107 KGPILCLAGPPGVGKTSLAKSIAKSLGRKFVRISLG  142 (543)
T ss_dssp             CSCEEEEESSSSSSHHHHHHHHHHHHTCEEEEECCC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhcCCCeEEEEec
Confidence            566899999999999999999999999888888654

>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=92.98  E-value=0.04  Score=50.77  Aligned_cols=25  Identities=20%  Similarity=0.205  Sum_probs=21.6

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .+..++|+|++|||||++.+.+-..
T Consensus         9 ~~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A            9 KGINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHh
Confidence            4677999999999999999877665

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=92.96  E-value=0.036  Score=50.81  Aligned_cols=24  Identities=25%  Similarity=0.307  Sum_probs=20.8

Q ss_pred             CeEEeccCCCCchhhHHHHHhccC
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .++++|++|||||++++.+.+.+.
T Consensus         3 ~I~i~G~~GsGKsT~~~~L~~~l~   26 (194)
T 1nks_A            3 IGIVTGIPGVGKSTVLAKVKEILD   26 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            478999999999999998877653

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=92.94  E-value=0.038  Score=54.02  Aligned_cols=24  Identities=17%  Similarity=0.243  Sum_probs=20.7

Q ss_pred             CeEEeccCCCCchhhHHHHHhccC
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      -++++||+|||||++.+.+...+.
T Consensus         3 li~I~G~~GSGKSTla~~La~~~~   26 (253)
T 2ze6_A            3 LHLIYGPTCSGKTDMAIQIAQETG   26 (253)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhcCC
Confidence            478999999999999999877654

>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=92.92  E-value=0.041  Score=51.93  Aligned_cols=27  Identities=19%  Similarity=0.381  Sum_probs=23.5

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .++-++++||||+|||+++..+.++..
T Consensus        33 ~g~~ilI~GpsGsGKStLA~~La~~g~   59 (205)
T 2qmh_A           33 YGLGVLITGDSGVGKSETALELVQRGH   59 (205)
T ss_dssp             TTEEEEEECCCTTTTHHHHHHHHTTTC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhCC
Confidence            477899999999999999999887653

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=92.92  E-value=0.11  Score=55.91  Aligned_cols=28  Identities=25%  Similarity=0.266  Sum_probs=24.6

Q ss_pred             CCCceEEeccCCCcHhHHHHHHHHHcCC
Q psy12736        446 SRGHCMVVGVEGGGKRSLVRLASFAAGY  473 (567)
Q Consensus       446 p~Gh~LLvG~~GsGr~sl~rlaa~i~~~  473 (567)
                      .++|+||.|++|+||+++++..|...+.
T Consensus        40 ~~~~VLL~GpPGtGKT~LAraLa~~l~~   67 (500)
T 3nbx_X           40 SGESVFLLGPPGIAKSLIARRLKFAFQN   67 (500)
T ss_dssp             HTCEEEEECCSSSSHHHHHHHGGGGBSS
T ss_pred             cCCeeEeecCchHHHHHHHHHHHHHHhh
Confidence            4789999999999999999988877643

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=92.89  E-value=0.032  Score=53.38  Aligned_cols=27  Identities=15%  Similarity=0.233  Sum_probs=17.5

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHH-hcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFL-RSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l-~~l  217 (567)
                      ..|.-+.|+||+|||||++++.+. ..+
T Consensus        25 ~~G~ii~l~Gp~GsGKSTl~~~L~~~~~   52 (231)
T 3lnc_A           25 SVGVILVLSSPSGCGKTTVANKLLEKQK   52 (231)
T ss_dssp             ECCCEEEEECSCC----CHHHHHHC---
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            467889999999999999998887 554

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=92.88  E-value=0.038  Score=51.58  Aligned_cols=25  Identities=16%  Similarity=0.259  Sum_probs=21.3

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..-++|+|++|||||++++.+...+
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~l   42 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEAC   42 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3469999999999999999877665

>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=92.82  E-value=0.055  Score=47.93  Aligned_cols=24  Identities=17%  Similarity=0.433  Sum_probs=21.3

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..++++|++|+|||++++.++...
T Consensus         6 ~~i~v~G~~~~GKssl~~~l~~~~   29 (168)
T 1z2a_A            6 IKMVVVGNGAVGKSSMIQRYCKGI   29 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEEEECcCCCCHHHHHHHHHcCC
Confidence            468999999999999999998754

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=92.76  E-value=0.047  Score=49.69  Aligned_cols=24  Identities=17%  Similarity=0.367  Sum_probs=20.7

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +.++++|++|||||++.+.+-..+
T Consensus         5 ~~i~i~G~~GsGKsTla~~La~~l   28 (175)
T 1via_A            5 KNIVFIGFMGSGKSTLARALAKDL   28 (175)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHc
Confidence            369999999999999998877655

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=92.75  E-value=0.12  Score=48.22  Aligned_cols=32  Identities=16%  Similarity=0.198  Sum_probs=27.1

Q ss_pred             CCceEEeccCCCcHhHHHHHHHHHcCCeEEEE
Q psy12736        447 RGHCMVVGVEGGGKRSLVRLASFAAGYQVFTI  478 (567)
Q Consensus       447 ~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i  478 (567)
                      +-.++|+|++||||+|+++..|-..++.++..
T Consensus        25 ~~~i~l~G~~GsGKsTl~~~La~~l~~~~i~~   56 (199)
T 3vaa_A           25 MVRIFLTGYMGAGKTTLGKAFARKLNVPFIDL   56 (199)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHTCCEEEH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHcCCCEEcc
Confidence            34789999999999999999888888877654

>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=92.75  E-value=0.036  Score=50.33  Aligned_cols=25  Identities=20%  Similarity=0.373  Sum_probs=20.9

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +..+.|+||+|||||++.+.+...+
T Consensus         8 g~~i~l~G~~GsGKSTl~~~l~~~~   32 (175)
T 1knq_A            8 HHIYVLMGVSGSGKSAVASEVAHQL   32 (175)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHhh
Confidence            5578999999999999998876543

>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=92.73  E-value=0.042  Score=51.04  Aligned_cols=26  Identities=23%  Similarity=0.257  Sum_probs=22.6

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+..+.|+|++|||||++++.+-+.+
T Consensus         3 ~~~~I~l~G~~GsGKsT~~~~L~~~l   28 (204)
T 2v54_A            3 RGALIVFEGLDKSGKTTQCMNIMESI   28 (204)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHTS
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            46779999999999999999887765

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=92.70  E-value=0.026  Score=62.38  Aligned_cols=24  Identities=25%  Similarity=0.457  Sum_probs=21.2

Q ss_pred             CeEEeccCCCCchhhHHHHHhccC
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ||||+||||||||++++.+-+.++
T Consensus       329 ~vLL~GppGtGKT~LAr~la~~~~  352 (595)
T 3f9v_A          329 HILIIGDPGTAKSQMLQFISRVAP  352 (595)
T ss_dssp             CEEEEESSCCTHHHHHHSSSTTCS
T ss_pred             ceEEECCCchHHHHHHHHHHHhCC
Confidence            999999999999999988766554

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=92.67  E-value=0.079  Score=57.15  Aligned_cols=26  Identities=19%  Similarity=0.247  Sum_probs=21.7

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .+.++|+||+|||||++++.+.....
T Consensus        64 p~GvLL~GppGtGKTtLaraIa~~~~   89 (499)
T 2dhr_A           64 PKGVLLVGPPGVGKTHLARAVAGEAR   89 (499)
T ss_dssp             CSEEEEECSSSSSHHHHHHHHHHHTT
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHhC
Confidence            35699999999999999998776543

>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=92.66  E-value=0.047  Score=50.28  Aligned_cols=22  Identities=23%  Similarity=0.403  Sum_probs=19.2

Q ss_pred             CCeEEeccCCCCchhhHHHHHh
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLR  215 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~  215 (567)
                      .-+.++||+|+|||++++.+..
T Consensus         3 ~ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            3 KLYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHhc
Confidence            3578999999999999998865

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G

Probab=92.60  E-value=0.14  Score=51.66  Aligned_cols=29  Identities=28%  Similarity=0.311  Sum_probs=25.0

Q ss_pred             hcCCCceEEeccCCCcHhHHHHHHHHHcC
Q psy12736        444 RLSRGHCMVVGVEGGGKRSLVRLASFAAG  472 (567)
Q Consensus       444 ~~p~Gh~LLvG~~GsGr~sl~rlaa~i~~  472 (567)
                      ....||+||.|++|+||++++|..+...+
T Consensus        42 ~~~~~~vLl~G~~GtGKT~la~~la~~~~   70 (350)
T 1g8p_A           42 DPGIGGVLVFGDRGTGKSTAVRALAALLP   70 (350)
T ss_dssp             CGGGCCEEEECCGGGCTTHHHHHHHHHSC
T ss_pred             CCCCceEEEECCCCccHHHHHHHHHHhCc
Confidence            34568999999999999999998888765

>1g41_A Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dependent proteolysis, chaperone; HET: ADP; 2.30A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1g3i_A* 1im2_A* 1kyi_A* 1g4a_E* 1g4b_E 1yyf_A* 1do0_A* 1do2_A* 1e94_E* 1hqy_E* 1ht1_E* 1ht2_E*

Probab=92.60  E-value=0.054  Score=57.45  Aligned_cols=26  Identities=19%  Similarity=0.349  Sum_probs=22.6

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ..++||+||||||||++++.+-..+.
T Consensus        50 ~~~iLl~GppGtGKT~lar~lA~~l~   75 (444)
T 1g41_A           50 PKNILMIGPTGVGKTEIARRLAKLAN   75 (444)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHHcC
Confidence            47899999999999999998877653

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=92.60  E-value=0.05  Score=47.93  Aligned_cols=23  Identities=17%  Similarity=0.393  Sum_probs=20.4

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .++++|++|+|||++++++....
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~~   25 (161)
T 2dyk_A            3 KVVIVGRPNVGKSSLFNRLLKKR   25 (161)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999998753

>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=92.56  E-value=0.046  Score=55.64  Aligned_cols=24  Identities=29%  Similarity=0.474  Sum_probs=21.1

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .|++++||+|||||++++.+.+.+
T Consensus        37 ~~~ll~Gp~G~GKTtl~~~la~~l   60 (354)
T 1sxj_E           37 PHLLLYGPNGTGKKTRCMALLESI   60 (354)
T ss_dssp             CCEEEECSTTSSHHHHHHTHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHH
Confidence            359999999999999999888754

>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=92.52  E-value=0.065  Score=47.49  Aligned_cols=24  Identities=13%  Similarity=0.396  Sum_probs=21.1

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|+++|++|+|||++++.++..-
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~~   27 (170)
T 1ek0_A            4 IKLVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCC
Confidence            358999999999999999998754

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=92.51  E-value=0.043  Score=56.02  Aligned_cols=26  Identities=19%  Similarity=0.429  Sum_probs=22.9

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ++.++|+||||||||++...+.+.+.
T Consensus        40 ~~lIvI~GPTgsGKTtLa~~LA~~l~   65 (339)
T 3a8t_A           40 EKLLVLMGATGTGKSRLSIDLAAHFP   65 (339)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTTSC
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHCC
Confidence            34689999999999999999988875

>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=92.48  E-value=0.057  Score=49.81  Aligned_cols=26  Identities=23%  Similarity=0.424  Sum_probs=22.5

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .....|+++|++|+|||++++.++..
T Consensus        26 ~~~~ki~v~G~~~vGKSsli~~l~~~   51 (196)
T 2atv_A           26 SAEVKLAIFGRAGVGKSALVVRFLTK   51 (196)
T ss_dssp             -CCEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhC
Confidence            35678999999999999999999875

>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4}

Probab=92.45  E-value=0.069  Score=56.90  Aligned_cols=26  Identities=23%  Similarity=0.294  Sum_probs=22.4

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      +.++++.|++|||||+++..++..+.
T Consensus        45 ~~~~li~G~aGTGKT~ll~~~~~~l~   70 (459)
T 3upu_A           45 KHHVTINGPAGTGATTLTKFIIEALI   70 (459)
T ss_dssp             SCEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            44999999999999999998877653

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=92.43  E-value=0.055  Score=51.31  Aligned_cols=27  Identities=7%  Similarity=0.027  Sum_probs=22.5

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ....++++|++|||||++.+.+...+.
T Consensus         4 ~~~~I~l~G~~GsGKsT~~~~La~~l~   30 (222)
T 1zak_A            4 DPLKVMISGAPASGKGTQCELIKTKYQ   30 (222)
T ss_dssp             CSCCEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            346799999999999999998877653

>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=92.41  E-value=0.069  Score=47.23  Aligned_cols=24  Identities=25%  Similarity=0.534  Sum_probs=21.2

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..++++|++|+|||++++.++..-
T Consensus         4 ~ki~v~G~~~~GKssli~~l~~~~   27 (167)
T 1c1y_A            4 YKLVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHCC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            468999999999999999998753

>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=92.40  E-value=0.052  Score=54.75  Aligned_cols=31  Identities=16%  Similarity=0.052  Sum_probs=26.0

Q ss_pred             HHHHhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        187 SLMNEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       187 ~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +.-+..|.-+.|+||+|||||++++-++.-+
T Consensus       120 sl~i~~Ge~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          120 LKGIPKKNCLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             HHTCTTCSEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             eEEecCCCEEEEECCCCCcHHHHHHHHhhhc
Confidence            3445689999999999999999999877654

>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=92.40  E-value=0.069  Score=47.07  Aligned_cols=24  Identities=25%  Similarity=0.475  Sum_probs=21.2

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|+++|++|+|||++++.++..-
T Consensus         4 ~~i~v~G~~~~GKSsli~~l~~~~   27 (167)
T 1kao_A            4 YKVVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCC
Confidence            468999999999999999998753

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=92.40  E-value=0.049  Score=48.44  Aligned_cols=24  Identities=21%  Similarity=0.470  Sum_probs=21.2

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ...|+++|++|+|||++++.++..
T Consensus         3 ~~~i~v~G~~~~GKssli~~l~~~   26 (172)
T 2erx_A            3 DYRVAVFGAGGVGKSSLVLRFVKG   26 (172)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHTC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcC
Confidence            356899999999999999999864

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=92.37  E-value=0.05  Score=50.27  Aligned_cols=26  Identities=12%  Similarity=0.277  Sum_probs=22.1

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+.-+.++|++|||||++.+.+.+.+
T Consensus        11 ~~~~I~l~G~~GsGKsT~a~~L~~~l   36 (199)
T 2bwj_A           11 KCKIIFIIGGPGSGKGTQCEKLVEKY   36 (199)
T ss_dssp             HSCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            45679999999999999998877654

>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=92.30  E-value=0.07  Score=47.94  Aligned_cols=25  Identities=28%  Similarity=0.510  Sum_probs=21.8

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ...|+++|++|+|||++++.++...
T Consensus         8 ~~~i~v~G~~~~GKSsli~~l~~~~   32 (182)
T 1ky3_A            8 ILKVIILGDSGVGKTSLMHRYVNDK   32 (182)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhCc
Confidence            3578999999999999999998754

>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=92.26  E-value=0.07  Score=49.24  Aligned_cols=26  Identities=23%  Similarity=0.432  Sum_probs=21.8

Q ss_pred             CCeEEeccCCCCchhhHHHHHhccCC
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      .-+.++|++|+|||++++.+......
T Consensus        30 ~kv~lvG~~g~GKSTLl~~l~~~~~~   55 (191)
T 1oix_A           30 FKVVLIGDSGVGKSNLLSRFTRNEFN   55 (191)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSCCC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCCCC
Confidence            35789999999999999998876443

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=92.26  E-value=0.055  Score=51.55  Aligned_cols=26  Identities=12%  Similarity=0.221  Sum_probs=21.7

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ....++++|++|||||++++.+...+
T Consensus         6 ~~~~I~l~G~~GsGKsT~a~~La~~l   31 (227)
T 1zd8_A            6 RLLRAVIMGAPGSGKGTVSSRITTHF   31 (227)
T ss_dssp             -CCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             cCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            35679999999999999998887665

>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=92.25  E-value=0.056  Score=50.91  Aligned_cols=23  Identities=13%  Similarity=0.222  Sum_probs=20.0

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .++|+||+|||||++.+.+...+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999998887765

>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=92.25  E-value=0.056  Score=51.18  Aligned_cols=26  Identities=15%  Similarity=0.268  Sum_probs=22.1

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+..++++|++|||||++.+.+...+
T Consensus         3 ~~~~I~l~G~~GsGKsT~a~~La~~l   28 (220)
T 1aky_A            3 ESIRMVLIGPPGAGKGTQAPNLQERF   28 (220)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            45678999999999999998877665

>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=92.23  E-value=0.075  Score=47.25  Aligned_cols=24  Identities=13%  Similarity=0.314  Sum_probs=21.2

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|+++|++|+|||++++.++..-
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~~   30 (170)
T 1z08_A            7 FKVVLLGEGCVGKTSLVLRYCENK   30 (170)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHCC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            468999999999999999998753

>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=92.21  E-value=0.074  Score=46.73  Aligned_cols=24  Identities=25%  Similarity=0.444  Sum_probs=21.0

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..++++|++|+|||++++.++...
T Consensus         4 ~~i~v~G~~~~GKssl~~~l~~~~   27 (166)
T 2ce2_X            4 YKLVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCc
Confidence            358999999999999999998753

>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=92.17  E-value=0.076  Score=47.11  Aligned_cols=24  Identities=29%  Similarity=0.513  Sum_probs=21.4

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|+++|++|+|||++++.++..-
T Consensus         7 ~~i~v~G~~~~GKSsli~~l~~~~   30 (170)
T 1z0j_A            7 LKVCLLGDTGVGKSSIMWRFVEDS   30 (170)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            468999999999999999998764

>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=92.17  E-value=0.071  Score=47.81  Aligned_cols=24  Identities=25%  Similarity=0.465  Sum_probs=21.2

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|+++|++|+|||++++.++..-
T Consensus         8 ~~i~v~G~~~~GKSsli~~l~~~~   31 (177)
T 1wms_A            8 FKVILLGDGGVGKSSLMNRYVTNK   31 (177)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            468999999999999999998753

>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=92.16  E-value=0.061  Score=48.71  Aligned_cols=29  Identities=24%  Similarity=0.313  Sum_probs=25.0

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      +..|.-+.|+||.|+|||++++-+..-++
T Consensus        30 i~~Ge~v~L~G~nGaGKTTLlr~l~g~l~   58 (158)
T 1htw_A           30 TEKAIMVYLNGDLGAGKTTLTRGMLQGIG   58 (158)
T ss_dssp             CSSCEEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHHHhCC
Confidence            36777899999999999999999887663

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=92.13  E-value=0.09  Score=54.38  Aligned_cols=25  Identities=20%  Similarity=0.256  Sum_probs=21.8

Q ss_pred             CCCeEE--eccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIV--VGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl--~GptGtGKT~~i~~~l~~l  217 (567)
                      ..++++  +||+|+|||++++.+.+.+
T Consensus        50 ~~~~li~i~G~~G~GKT~L~~~~~~~~   76 (412)
T 1w5s_A           50 DVNMIYGSIGRVGIGKTTLAKFTVKRV   76 (412)
T ss_dssp             CEEEEEECTTCCSSSHHHHHHHHHHHH
T ss_pred             CCEEEEeCcCcCCCCHHHHHHHHHHHH
Confidence            457888  9999999999999988765

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=92.09  E-value=0.059  Score=49.42  Aligned_cols=25  Identities=16%  Similarity=0.278  Sum_probs=20.8

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +.-++++|++|||||++.+.+...+
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~~~   27 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVEKY   27 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHh
Confidence            3458999999999999998876654

>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=92.08  E-value=0.055  Score=51.23  Aligned_cols=25  Identities=16%  Similarity=0.203  Sum_probs=20.6

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +..+.|+||+|||||++.+.+...+
T Consensus         5 ~~~i~i~G~~GsGKSTl~~~L~~~~   29 (227)
T 1cke_A            5 APVITIDGPSGAGKGTLCKAMAEAL   29 (227)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4568999999999999998776543

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=92.08  E-value=0.056  Score=50.90  Aligned_cols=23  Identities=13%  Similarity=0.289  Sum_probs=19.9

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .++++||+|||||++.+.+...+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999998877765

>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=92.06  E-value=0.18  Score=51.10  Aligned_cols=22  Identities=23%  Similarity=0.294  Sum_probs=19.9

Q ss_pred             CceEEeccCCCcHhHHHHHHHH
Q psy12736        448 GHCMVVGVEGGGKRSLVRLASF  469 (567)
Q Consensus       448 Gh~LLvG~~GsGr~sl~rlaa~  469 (567)
                      .|++|.|++|+||+++++..+.
T Consensus        37 ~~~ll~Gp~G~GKTtl~~~la~   58 (354)
T 1sxj_E           37 PHLLLYGPNGTGKKTRCMALLE   58 (354)
T ss_dssp             CCEEEECSTTSSHHHHHHTHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999998777

>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=92.04  E-value=0.057  Score=50.54  Aligned_cols=27  Identities=11%  Similarity=0.149  Sum_probs=22.9

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +.+.-+.++|++|||||++++.+.+.+
T Consensus         7 ~~~~~I~l~G~~GsGKsT~~~~L~~~l   33 (215)
T 1nn5_A            7 RRGALIVLEGVDRAGKSTQSRKLVEAL   33 (215)
T ss_dssp             CCCCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            356779999999999999999887665

>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=92.04  E-value=0.075  Score=47.15  Aligned_cols=24  Identities=21%  Similarity=0.560  Sum_probs=21.0

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|+++|++|+|||++++.++..-
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~~   27 (170)
T 1g16_A            4 MKILLIGDSGVGKSCLLVRFVEDK   27 (170)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHCC
T ss_pred             eEEEEECcCCCCHHHHHHHHHhCC
Confidence            468999999999999999998653

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=92.02  E-value=0.057  Score=58.92  Aligned_cols=63  Identities=10%  Similarity=-0.050  Sum_probs=39.8

Q ss_pred             hhhhccccccccccCCHHHHHHHHHHhhhhhh------cC-h----HHHHHHHHHhCCCCCCccccccChhhHHHHHhhh
Q psy12736        246 RIIQGLTATEKIIFNTKEMFVRAWRNEFTRTI------CD-R----LNTDELVIAELPPTPAKFHYIFNLRDLSRIIQGL  314 (567)
Q Consensus       246 R~~rg~f~~~~~~~~s~~sl~~I~~~il~~~~------~~-~----i~~y~~i~~~llptp~k~HY~FnlRDlsrv~qGi  314 (567)
                      .|.+ +|.++.++.|+.+....|+...+.+..      .. .    -+....+....       .+-.|.|+|.+.++.+
T Consensus       240 aL~~-R~~vi~~~~~~~~e~~~Il~~~l~~~~~~~~~~~~~~i~i~~~~l~~l~~~~-------~~~~~vR~L~~~i~~~  311 (543)
T 3m6a_A          240 PLRD-RMEIINIAGYTEIEKLEIVKDHLLPKQIKEHGLKKSNLQLRDQAILDIIRYY-------TREAGVRSLERQLAAI  311 (543)
T ss_dssp             HHHH-HEEEEECCCCCHHHHHHHHHHTHHHHHHHHTTCCGGGCEECHHHHHHHHHHH-------CCCSSSHHHHHHHHHH
T ss_pred             HHHh-hcceeeeCCCCHHHHHHHHHHHHHHHHHHHcCCCcccccCCHHHHHHHHHhC-------ChhhchhHHHHHHHHH
Confidence            5566 778889999999999999887664211      00 1    23333333321       1226889998888876


Q ss_pred             hc
Q psy12736        315 TA  316 (567)
Q Consensus       315 ~~  316 (567)
                      +.
T Consensus       312 ~~  313 (543)
T 3m6a_A          312 CR  313 (543)
T ss_dssp             HH
T ss_pred             HH
Confidence            64

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=91.97  E-value=0.054  Score=50.50  Aligned_cols=26  Identities=12%  Similarity=0.041  Sum_probs=22.2

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      +.-++++|++|||||++++.+...+.
T Consensus         4 ~~~I~i~G~~GsGKsT~~~~L~~~l~   29 (213)
T 2plr_A            4 GVLIAFEGIDGSGKSSQATLLKDWIE   29 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHHh
Confidence            45689999999999999998877664

>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=91.86  E-value=0.068  Score=50.10  Aligned_cols=26  Identities=15%  Similarity=0.235  Sum_probs=22.5

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ....++++|++|+|||++++.++...
T Consensus        11 ~~~~i~~~G~~g~GKTsl~~~l~~~~   36 (218)
T 1nrj_B           11 YQPSIIIAGPQNSGKTSLLTLLTTDS   36 (218)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34579999999999999999998764

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=91.81  E-value=0.053  Score=51.17  Aligned_cols=27  Identities=22%  Similarity=0.230  Sum_probs=23.3

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|.-++++||+|+|||++++.+....
T Consensus        21 ~~G~~~~i~G~~GsGKTtl~~~l~~~~   47 (235)
T 2w0m_A           21 PQGFFIALTGEPGTGKTIFSLHFIAKG   47 (235)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cCCCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            357889999999999999999988654

>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=91.81  E-value=0.058  Score=52.14  Aligned_cols=26  Identities=12%  Similarity=0.033  Sum_probs=21.5

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .|.-+-++||+|||||++++-+..-+
T Consensus        30 ~Ge~~~iiG~nGsGKSTLl~~l~Gl~   55 (235)
T 3tif_A           30 EGEFVSIMGPSGSGKSTMLNIIGCLD   55 (235)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            58889999999999999998665433

>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=91.81  E-value=0.077  Score=48.54  Aligned_cols=24  Identities=21%  Similarity=0.375  Sum_probs=20.4

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..++++|++|||||++.+.+-..+
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~l   26 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAKAL   26 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHc
Confidence            458999999999999998876654

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=91.80  E-value=0.058  Score=52.56  Aligned_cols=31  Identities=26%  Similarity=0.262  Sum_probs=23.8

Q ss_pred             HHHHhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        187 SLMNEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       187 ~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..+...+.-+-|+||+|||||++.+.+.+.+
T Consensus        21 ~~m~~~g~~I~I~G~~GsGKSTl~k~La~~L   51 (252)
T 4e22_A           21 PHMTAIAPVITVDGPSGAGKGTLCKALAESL   51 (252)
T ss_dssp             --CTTTSCEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             hhcCCCCcEEEEECCCCCCHHHHHHHHHHhc
Confidence            3333567789999999999999998877654

>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=91.80  E-value=0.09  Score=46.37  Aligned_cols=24  Identities=29%  Similarity=0.506  Sum_probs=21.1

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|+++|++|+|||++++.++..-
T Consensus         5 ~~i~v~G~~~~GKssl~~~l~~~~   28 (168)
T 1u8z_A            5 HKVIMVGSGGVGKSALTLQFMYDE   28 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCc
Confidence            468999999999999999998753

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=91.80  E-value=0.068  Score=48.67  Aligned_cols=25  Identities=24%  Similarity=0.209  Sum_probs=16.9

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +.-++++|++|||||++.+.+-..+
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~~l   29 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHERL   29 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHHHS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhc
Confidence            4568999999999999998876654

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=91.80  E-value=0.062  Score=48.45  Aligned_cols=26  Identities=15%  Similarity=0.226  Sum_probs=20.7

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +-++++|+|++|||||++.+.+-..+
T Consensus         6 ~~~~i~l~G~~GsGKSTva~~La~~l   31 (168)
T 1zuh_A            6 HMQHLVLIGFMGSGKSSLAQELGLAL   31 (168)
T ss_dssp             --CEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             ccceEEEECCCCCCHHHHHHHHHHHh
Confidence            34689999999999999998776654

>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=91.78  E-value=0.063  Score=54.23  Aligned_cols=26  Identities=27%  Similarity=0.394  Sum_probs=22.2

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ++.++++||||||||++...+...++
T Consensus         3 ~~~i~i~GptgsGKt~la~~La~~~~   28 (322)
T 3exa_A            3 EKLVAIVGPTAVGKTKTSVMLAKRLN   28 (322)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHTTT
T ss_pred             CcEEEEECCCcCCHHHHHHHHHHhCc
Confidence            34577899999999999999988775

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=91.76  E-value=0.051  Score=52.93  Aligned_cols=26  Identities=15%  Similarity=0.184  Sum_probs=21.6

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      +..++++|++|||||++.+.+...+.
T Consensus        32 ~~~i~l~G~~GsGKSTla~~L~~~l~   57 (253)
T 2p5t_B           32 PIAILLGGQSGAGKTTIHRIKQKEFQ   57 (253)
T ss_dssp             CEEEEEESCGGGTTHHHHHHHHHHTT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhcC
Confidence            34589999999999999998877653

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=91.76  E-value=0.064  Score=50.14  Aligned_cols=26  Identities=12%  Similarity=0.069  Sum_probs=22.1

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+.-+.++|++|||||++++.+-+.+
T Consensus         9 ~~~~I~l~G~~GsGKST~~~~L~~~l   34 (212)
T 2wwf_A            9 KGKFIVFEGLDRSGKSTQSKLLVEYL   34 (212)
T ss_dssp             CSCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             cCCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            46679999999999999998877654

>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=91.72  E-value=0.072  Score=47.99  Aligned_cols=24  Identities=29%  Similarity=0.466  Sum_probs=0.0

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +.++++|++|||||++.+.+-..+
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~l   26 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELARAL   26 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHh

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=91.71  E-value=0.066  Score=50.34  Aligned_cols=26  Identities=15%  Similarity=0.221  Sum_probs=21.9

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+.-+.++||+|||||++++.+...+
T Consensus        21 ~g~~v~I~G~sGsGKSTl~~~l~~~~   46 (208)
T 3c8u_A           21 GRQLVALSGAPGSGKSTLSNPLAAAL   46 (208)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            46678899999999999998876654

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=91.71  E-value=0.07  Score=47.93  Aligned_cols=26  Identities=19%  Similarity=0.198  Sum_probs=22.5

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .....|+++|++|+|||++++.++..
T Consensus         6 ~~~~~i~v~G~~~~GKssl~~~l~~~   31 (178)
T 2lkc_A            6 ERPPVVTIMGHVDHGKTTLLDAIRHS   31 (178)
T ss_dssp             CCCCEEEEESCTTTTHHHHHHHHHTT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            35667999999999999999999864

>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=91.70  E-value=0.067  Score=51.70  Aligned_cols=26  Identities=12%  Similarity=0.271  Sum_probs=22.1

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ...-+.++||+|||||++++.+.+.+
T Consensus        26 ~~~~i~l~G~~GsGKSTl~k~La~~l   51 (246)
T 2bbw_A           26 KLLRAVILGPPGSGKGTVCQRIAQNF   51 (246)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            45679999999999999999887654

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=91.69  E-value=0.06  Score=53.26  Aligned_cols=25  Identities=24%  Similarity=0.436  Sum_probs=20.8

Q ss_pred             CeEEeccCCCCchhhHHHHHhccCC
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      .+.++||+|+|||++++.++....+
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g~~~~   28 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFKSQVS   28 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHC-
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCC
Confidence            5789999999999999998875543

>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=91.69  E-value=0.092  Score=47.00  Aligned_cols=23  Identities=17%  Similarity=0.378  Sum_probs=20.8

Q ss_pred             CCeEEeccCCCCchhhHHHHHhc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ..|+++|++|+|||++++.++..
T Consensus        15 ~~i~v~G~~~~GKssli~~l~~~   37 (179)
T 2y8e_A           15 FKLVFLGEQSVGKTSLITRFMYD   37 (179)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            46899999999999999999865

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=91.68  E-value=0.069  Score=49.42  Aligned_cols=24  Identities=17%  Similarity=0.342  Sum_probs=20.5

Q ss_pred             CeEEeccCCCCchhhHHHHHhccC
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .+.++|++|||||++++.+.+.+.
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l~   25 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKLG   25 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHC
T ss_pred             EEEEECCCccCHHHHHHHHHHhcC
Confidence            478999999999999998877653

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=91.68  E-value=0.072  Score=49.56  Aligned_cols=24  Identities=17%  Similarity=0.350  Sum_probs=20.6

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..++++|++|||||++.+.+.+.+
T Consensus        16 ~~I~l~G~~GsGKsT~~~~L~~~~   39 (203)
T 1ukz_A           16 SVIFVLGGPGAGKGTQCEKLVKDY   39 (203)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            358899999999999998887765

>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=91.67  E-value=0.092  Score=47.65  Aligned_cols=24  Identities=21%  Similarity=0.454  Sum_probs=21.2

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|+++|++|+|||++++.++..-
T Consensus        12 ~ki~v~G~~~~GKSsli~~l~~~~   35 (195)
T 3bc1_A           12 IKFLALGDSGVGKTSVLYQYTDGK   35 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCC
Confidence            468999999999999999998753

>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=91.66  E-value=0.093  Score=46.43  Aligned_cols=24  Identities=13%  Similarity=0.454  Sum_probs=21.1

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|+++|++|+|||++++.++..-
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~~   30 (170)
T 1r2q_A            7 FKLVLLGESAVGKSSLVLRFVKGQ   30 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCC
Confidence            468999999999999999998753

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=91.62  E-value=0.074  Score=48.65  Aligned_cols=25  Identities=16%  Similarity=0.272  Sum_probs=21.8

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ....|+++|++|+|||++++.++..
T Consensus        47 ~~~~i~vvG~~g~GKSsll~~l~~~   71 (193)
T 2ged_A           47 YQPSIIIAGPQNSGKTSLLTLLTTD   71 (193)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3457999999999999999998875

>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=91.62  E-value=0.05  Score=51.43  Aligned_cols=28  Identities=21%  Similarity=0.196  Sum_probs=23.9

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +..|.-+.++||+|+|||++++.+....
T Consensus        22 i~~G~~~~l~G~nGsGKSTll~~l~g~~   49 (231)
T 4a74_A           22 IETQAITEVFGEFGSGKTQLAHTLAVMV   49 (231)
T ss_dssp             EESSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            4567889999999999999999987643

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=91.61  E-value=0.072  Score=48.56  Aligned_cols=25  Identities=16%  Similarity=0.266  Sum_probs=21.8

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ...|+++|++|+|||++++.++..-
T Consensus        23 ~~~i~v~G~~~~GKSsli~~l~~~~   47 (195)
T 3pqc_A           23 KGEVAFVGRSNVGKSSLLNALFNRK   47 (195)
T ss_dssp             TCEEEEEEBTTSSHHHHHHHHHTSC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCc
Confidence            4569999999999999999998753

>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=91.61  E-value=0.068  Score=47.77  Aligned_cols=23  Identities=26%  Similarity=0.403  Sum_probs=20.3

Q ss_pred             CCeEEeccCCCCchhhHHHHHhc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ..|+++|++|+|||++++.++..
T Consensus         5 ~ki~i~G~~~vGKSsl~~~l~~~   27 (175)
T 2nzj_A            5 YRVVLLGDPGVGKTSLASLFAGK   27 (175)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEEECCCCccHHHHHHHHhcC
Confidence            46899999999999999998764

>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=91.60  E-value=0.069  Score=49.71  Aligned_cols=24  Identities=17%  Similarity=0.378  Sum_probs=20.1

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..++++|++|||||++.+.+-..+
T Consensus        21 ~~I~l~G~~GsGKST~a~~La~~l   44 (201)
T 2cdn_A           21 MRVLLLGPPGAGKGTQAVKLAEKL   44 (201)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            348899999999999998876654

>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=91.59  E-value=0.069  Score=49.21  Aligned_cols=25  Identities=20%  Similarity=0.232  Sum_probs=21.4

Q ss_pred             CCeEEeccCCCCchhhHHHHHhccC
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .-+.++|++|+|||++++.++..+.
T Consensus         7 ~~i~i~G~sGsGKTTl~~~l~~~l~   31 (174)
T 1np6_A            7 PLLAFAAWSGTGKTTLLKKLIPALC   31 (174)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHhcc
Confidence            4578999999999999999987653

>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=91.57  E-value=0.072  Score=48.74  Aligned_cols=24  Identities=25%  Similarity=0.486  Sum_probs=20.2

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +-++++|++|||||++.+.+...+
T Consensus         7 ~~I~l~G~~GsGKsT~~~~L~~~l   30 (194)
T 1qf9_A            7 NVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            358899999999999998876654

>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=91.57  E-value=0.059  Score=47.96  Aligned_cols=25  Identities=16%  Similarity=0.274  Sum_probs=21.9

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ....|+++|++|+|||++++.++..
T Consensus         6 ~~~~i~v~G~~~~GKssl~~~l~~~   30 (171)
T 1upt_A            6 REMRILILGLDGAGKTTILYRLQVG   30 (171)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcC
Confidence            4567999999999999999999865

>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=91.56  E-value=0.073  Score=48.73  Aligned_cols=25  Identities=8%  Similarity=0.139  Sum_probs=21.9

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ....|+++|++|+|||++++.++..
T Consensus        22 ~~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 1svi_A           22 GLPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             CCCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3567999999999999999999865

>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=91.54  E-value=0.09  Score=48.66  Aligned_cols=24  Identities=25%  Similarity=0.519  Sum_probs=21.0

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..+.++|++|+|||++++.+....
T Consensus         6 ~kv~lvG~~g~GKSTLl~~l~~~~   29 (199)
T 2f9l_A            6 FKVVLIGDSGVGKSNLLSRFTRNE   29 (199)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECcCCCCHHHHHHHHhcCC
Confidence            458899999999999999988754

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=91.50  E-value=0.13  Score=48.71  Aligned_cols=33  Identities=15%  Similarity=0.110  Sum_probs=26.0

Q ss_pred             HHHHHHHHhcCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        183 TWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       183 ~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ..+++- +..|.-+.++||+|+|||++++-+..-
T Consensus        13 ~~~l~~-i~~Ge~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           13 KHYVDA-IDTNTIVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             HHHHHH-HHHCSEEEEECCTTSSTTHHHHHHHHH
T ss_pred             HHHHHh-ccCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            344554 377889999999999999999876543

>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=91.50  E-value=0.078  Score=47.59  Aligned_cols=24  Identities=33%  Similarity=0.598  Sum_probs=21.4

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ...|+++|++|+|||++++.++..
T Consensus         9 ~~~i~v~G~~~~GKssli~~l~~~   32 (181)
T 2fn4_A            9 THKLVVVGGGGVGKSALTIQFIQS   32 (181)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            346899999999999999999876

>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=91.49  E-value=0.065  Score=48.96  Aligned_cols=23  Identities=26%  Similarity=0.602  Sum_probs=20.3

Q ss_pred             CCeEEeccCCCCchhhHHHHHhc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ..|.++|++|+|||++++.+...
T Consensus         3 ~kv~ivG~~gvGKStLl~~l~~~   25 (184)
T 2zej_A            3 MKLMIVGNTGSGKTTLLQQLMKT   25 (184)
T ss_dssp             CEEEEESCTTSSHHHHHHHHTCC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            46899999999999999998763

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=91.48  E-value=0.089  Score=49.07  Aligned_cols=26  Identities=23%  Similarity=0.323  Sum_probs=21.5

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      |..+.++||+|+|||++++.+...+.
T Consensus         1 G~~i~i~G~nG~GKTTll~~l~g~~~   26 (189)
T 2i3b_A            1 ARHVFLTGPPGVGKTTLIHKASEVLK   26 (189)
T ss_dssp             CCCEEEESCCSSCHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCChHHHHHHHHHhhcc
Confidence            45688999999999999998766543

>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=91.47  E-value=0.099  Score=47.59  Aligned_cols=24  Identities=33%  Similarity=0.436  Sum_probs=21.2

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|+++|++|+|||++++.++..-
T Consensus         8 ~ki~v~G~~~vGKSsli~~l~~~~   31 (184)
T 1m7b_A            8 CKIVVVGDSQCGKTALLHVFAKDC   31 (184)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCC
Confidence            468999999999999999998753

>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=91.41  E-value=0.12  Score=50.05  Aligned_cols=43  Identities=16%  Similarity=0.131  Sum_probs=0.0

Q ss_pred             cCcchhhHHHHHHHHHh---cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        175 PTTDSTKLTWILSLMNE---IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       175 pT~dtvR~~~ll~~ll~---~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      |..+......+...+..   ....++++||+|||||++++.+.+.+
T Consensus         8 ~~~~~~~~~~~~~~~~~~~~~~~~I~l~G~~GsGKsT~a~~L~~~~   53 (243)
T 3tlx_A            8 NFSTIDLLNELKRRYACLSKPDGRYIFLGAPGSGKGTQSLNLKKSH   53 (243)
T ss_dssp             -CCHHHHHHHHHHHHHHHTSCCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             hcchHHHHHHHHHHHHhccCCCcEEEEECCCCCCHHHHHHHHHHHh

>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=91.37  E-value=0.1  Score=47.26  Aligned_cols=24  Identities=25%  Similarity=0.527  Sum_probs=21.3

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|+++|++|+|||++++.++..-
T Consensus        11 ~ki~v~G~~~~GKSsli~~l~~~~   34 (186)
T 2bme_A           11 FKFLVIGNAGTGKSCLLHQFIEKK   34 (186)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            468999999999999999998753

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=91.37  E-value=0.081  Score=53.71  Aligned_cols=25  Identities=24%  Similarity=0.348  Sum_probs=21.9

Q ss_pred             CCeEEeccCCCCchhhHHHHHhccC
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      +.++++||||||||++...+.+.+.
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~l~   30 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADALP   30 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcC
Confidence            4689999999999999999888764

>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=91.34  E-value=0.069  Score=51.40  Aligned_cols=28  Identities=32%  Similarity=0.421  Sum_probs=23.2

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ..|.-+.++||+|+|||++++-+..-++
T Consensus        32 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   59 (229)
T 2pze_A           32 ERGQLLAVAGSTGAGKTSLLMMIMGELE   59 (229)
T ss_dssp             ETTCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCc
Confidence            3688899999999999999987765443

>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=91.32  E-value=0.083  Score=46.69  Aligned_cols=22  Identities=18%  Similarity=0.261  Sum_probs=19.9

Q ss_pred             CeEEeccCCCCchhhHHHHHhc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .|+++|++|+|||++++.++..
T Consensus         2 ki~~~G~~~~GKssl~~~l~~~   23 (164)
T 1r8s_A            2 RILMVGLDAAGKTTILYKLKLG   23 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4899999999999999999865

>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=91.31  E-value=0.077  Score=47.53  Aligned_cols=23  Identities=9%  Similarity=0.206  Sum_probs=20.2

Q ss_pred             CCeEEeccCCCCchhhHHHHHhc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ..+.++|++|+|||++++.+...
T Consensus         4 ~~v~lvG~~gvGKStL~~~l~~~   26 (165)
T 2wji_A            4 YEIALIGNPNVGKSTIFNALTGE   26 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            35889999999999999998764

>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=91.31  E-value=0.084  Score=53.25  Aligned_cols=24  Identities=25%  Similarity=0.404  Sum_probs=21.2

Q ss_pred             CeEEeccCCCCchhhHHHHHhccC
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .++++||||||||++...+.+.++
T Consensus        12 ~i~i~GptgsGKt~la~~La~~~~   35 (316)
T 3foz_A           12 AIFLMGPTASGKTALAIELRKILP   35 (316)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             EEEEECCCccCHHHHHHHHHHhCC
Confidence            477899999999999999988765

>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=91.31  E-value=0.11  Score=47.06  Aligned_cols=25  Identities=32%  Similarity=0.602  Sum_probs=21.6

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ...|+++|++|+|||++++.++...
T Consensus        18 ~~ki~v~G~~~~GKSsl~~~l~~~~   42 (183)
T 3kkq_A           18 TYKLVVVGDGGVGKSALTIQFFQKI   42 (183)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCC
Confidence            3468999999999999999998753

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=91.27  E-value=0.16  Score=51.57  Aligned_cols=23  Identities=17%  Similarity=0.206  Sum_probs=20.8

Q ss_pred             eEEeccCCCCchhhHHHHHhccC
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      +|++||+|||||++++.+.+.+.
T Consensus        27 ~L~~G~~G~GKt~~a~~la~~l~   49 (334)
T 1a5t_A           27 LLIQALPGMGDDALIYALSRYLL   49 (334)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHT
T ss_pred             EEEECCCCchHHHHHHHHHHHHh
Confidence            89999999999999999887654

>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=91.22  E-value=0.084  Score=50.33  Aligned_cols=27  Identities=22%  Similarity=0.183  Sum_probs=22.3

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|.-+.++||+|+|||++++-+..-+
T Consensus        33 ~~Ge~~~iiG~NGsGKSTLlk~l~Gl~   59 (214)
T 1sgw_A           33 EKGNVVNFHGPNGIGKTTLLKTISTYL   59 (214)
T ss_dssp             ETTCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            358889999999999999998765443

>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=91.22  E-value=0.11  Score=46.85  Aligned_cols=24  Identities=29%  Similarity=0.610  Sum_probs=21.0

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|+++|++|+|||++++.++...
T Consensus         6 ~~i~~~G~~~~GKssl~~~l~~~~   29 (186)
T 1mh1_A            6 IKCVVVGDGAVGKTCLLISYTTNA   29 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCC
Confidence            468999999999999999988653

>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=91.22  E-value=0.34  Score=48.79  Aligned_cols=66  Identities=15%  Similarity=0.236  Sum_probs=47.8

Q ss_pred             eEEeccCCCcHhHHHHHHHHHcCCeEEEE--------------------------------EecCCCChhhHHHHHHHHH
Q psy12736        450 CMVVGVEGGGKRSLVRLASFAAGYQVFTI--------------------------------QLSRGYNEASFKEDLKSLY  497 (567)
Q Consensus       450 ~LLvG~~GsGr~sl~rlaa~i~~~~~~~i--------------------------------~~~k~y~~~~f~edLk~~~  497 (567)
                      ++++|++||||++|++-.|.-.+.+++..                                ++...|+..+|.++-++++
T Consensus        13 i~i~GptgsGKt~la~~La~~~~~~iis~Ds~qvY~~~~igTakp~~~E~~~v~hhlid~~~~~e~~s~~~f~~~a~~~i   92 (316)
T 3foz_A           13 IFLMGPTASGKTALAIELRKILPVELISVDSALIYKGMDIGTAKPNAEELLAAPHRLLDIRDPSQAYSAADFRRDALAEM   92 (316)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHSCEEEEECCTTTTBTTCCTTTTCCCHHHHHHSCEETSSCBCTTSCCCHHHHHHHHHHHH
T ss_pred             EEEECCCccCHHHHHHHHHHhCCCcEEecccccccccccccCCCCCHHHHcCCCEEEeccCCccccccHHHHHHHHHHHH
Confidence            47899999999999887766666555442                                2345689999999999888


Q ss_pred             HHhccCCCcEEEEEecCcc
Q psy12736        498 NLLGVKNQATVFLFTAAEI  516 (567)
Q Consensus       498 ~~ag~~~~~~vfl~~d~qi  516 (567)
                      ...-..++ +++++-.+.+
T Consensus        93 ~~i~~~g~-~pilVGGTgl  110 (316)
T 3foz_A           93 ADITAAGR-IPLLVGGTML  110 (316)
T ss_dssp             HHHHHTTC-EEEEEESCHH
T ss_pred             HHHHhCCC-cEEEEcCcHH
Confidence            87654444 5566666654

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=91.20  E-value=0.087  Score=51.48  Aligned_cols=25  Identities=36%  Similarity=0.388  Sum_probs=22.5

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +..+.|+|++|||||++.+.+...+
T Consensus        48 g~~i~l~G~~GsGKSTl~~~La~~l   72 (250)
T 3nwj_A           48 GRSMYLVGMMGSGKTTVGKIMARSL   72 (250)
T ss_dssp             TCCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhc
Confidence            8899999999999999998877655

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=91.18  E-value=0.11  Score=47.39  Aligned_cols=24  Identities=8%  Similarity=0.389  Sum_probs=21.4

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|+++|++|+|||++++.++..-
T Consensus         8 ~ki~v~G~~~~GKSsli~~l~~~~   31 (208)
T 3clv_A            8 YKTVLLGESSVGKSSIVLRLTKDT   31 (208)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCc
Confidence            468999999999999999998763

>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=91.17  E-value=0.081  Score=47.04  Aligned_cols=22  Identities=23%  Similarity=0.375  Sum_probs=19.5

Q ss_pred             CeEEeccCCCCchhhHHHHHhc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .|+++|++|+|||++++.+...
T Consensus         4 ki~ivG~~~~GKSsli~~l~~~   25 (169)
T 3q85_A            4 KVMLVGESGVGKSTLAGTFGGL   25 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHhc
Confidence            5899999999999999998753

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=91.16  E-value=0.093  Score=47.09  Aligned_cols=24  Identities=25%  Similarity=0.358  Sum_probs=21.0

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|+++|++|+|||++++.+...-
T Consensus         7 ~ki~v~G~~~~GKssl~~~l~~~~   30 (178)
T 2hxs_A            7 LKIVVLGDGASGKTSLTTCFAQET   30 (178)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHGGG
T ss_pred             EEEEEECcCCCCHHHHHHHHHhCc
Confidence            468999999999999999988653

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=91.16  E-value=0.07  Score=49.00  Aligned_cols=26  Identities=19%  Similarity=0.142  Sum_probs=22.1

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+..+.++|++|||||++++.+...+
T Consensus        12 ~~~~i~l~G~~GsGKsT~~~~L~~~l   37 (186)
T 2yvu_A           12 KGIVVWLTGLPGSGKTTIATRLADLL   37 (186)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            45678999999999999999877665

>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=91.15  E-value=0.053  Score=49.06  Aligned_cols=24  Identities=17%  Similarity=0.271  Sum_probs=21.2

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHh
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLR  215 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~  215 (567)
                      ....|+++|++|+|||++++.++.
T Consensus        17 ~~~~i~v~G~~~~GKssli~~l~~   40 (183)
T 1moz_A           17 KELRILILGLDGAGKTTILYRLQI   40 (183)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTCC
T ss_pred             CccEEEEECCCCCCHHHHHHHHhc
Confidence            567899999999999999988764

>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=91.12  E-value=0.11  Score=46.34  Aligned_cols=24  Identities=25%  Similarity=0.470  Sum_probs=21.4

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|+++|++|+|||++++.++..-
T Consensus        16 ~~i~v~G~~~~GKSsli~~l~~~~   39 (179)
T 1z0f_A           16 FKYIIIGDMGVGKSCLLHQFTEKK   39 (179)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            469999999999999999998753

>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=91.10  E-value=0.08  Score=48.07  Aligned_cols=22  Identities=14%  Similarity=0.277  Sum_probs=20.0

Q ss_pred             CeEEeccCCCCchhhHHHHHhc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .|+++|++|+|||++++.++..
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~   24 (190)
T 2cxx_A            3 TIIFAGRSNVGKSTLIYRLTGK   24 (190)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCc
Confidence            5899999999999999998865

>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=91.09  E-value=0.076  Score=49.79  Aligned_cols=25  Identities=16%  Similarity=-0.033  Sum_probs=22.3

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHh
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLR  215 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~  215 (567)
                      ..|.-++++||+|+|||+++..+..
T Consensus        18 ~~G~~~~i~G~~GsGKTtl~~~l~~   42 (220)
T 2cvh_A           18 APGVLTQVYGPYASGKTTLALQTGL   42 (220)
T ss_dssp             CTTSEEEEECSTTSSHHHHHHHHHH
T ss_pred             cCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3577899999999999999999887

>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=91.08  E-value=0.11  Score=47.65  Aligned_cols=25  Identities=20%  Similarity=0.329  Sum_probs=21.9

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ...|+++|++|+|||+++++++...
T Consensus        20 ~~ki~ivG~~~vGKSsL~~~~~~~~   44 (184)
T 3ihw_A           20 ELKVGIVGNLSSGKSALVHRYLTGT   44 (184)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHSS
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcCC
Confidence            4579999999999999999998754

>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=91.05  E-value=0.12  Score=46.88  Aligned_cols=24  Identities=25%  Similarity=0.459  Sum_probs=21.2

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|+++|++|+|||++++.++..-
T Consensus         5 ~ki~v~G~~~~GKSsli~~l~~~~   28 (189)
T 4dsu_A            5 YKLVVVGADGVGKSALTIQLIQNH   28 (189)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCC
Confidence            468999999999999999998753

>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=91.04  E-value=0.11  Score=46.73  Aligned_cols=26  Identities=23%  Similarity=0.446  Sum_probs=22.4

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ....|+++|++|+|||++++.++..-
T Consensus         7 ~~~ki~v~G~~~~GKssl~~~~~~~~   32 (182)
T 3bwd_D            7 RFIKCVTVGDGAVGKTCLLISYTSNT   32 (182)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCC
Confidence            35679999999999999999998753

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=91.04  E-value=0.077  Score=50.86  Aligned_cols=26  Identities=12%  Similarity=0.161  Sum_probs=21.4

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ..|.-+.++||+|+|||++++-+..-
T Consensus        28 ~~Ge~~~iiG~nGsGKSTLl~~l~Gl   53 (224)
T 2pcj_A           28 KKGEFVSIIGASGSGKSTLLYILGLL   53 (224)
T ss_dssp             ETTCEEEEEECTTSCHHHHHHHHTTS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            35788899999999999999866543

>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=91.02  E-value=0.11  Score=48.42  Aligned_cols=26  Identities=23%  Similarity=0.340  Sum_probs=21.7

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ....|+++|++|+|||+++++++...
T Consensus         6 ~~~ki~vvG~~~~GKTsli~~l~~~~   31 (214)
T 2fh5_B            6 SQRAVLFVGLCDSGKTLLFVRLLTGQ   31 (214)
T ss_dssp             --CEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            35679999999999999999998764

>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=91.01  E-value=0.094  Score=47.18  Aligned_cols=24  Identities=21%  Similarity=0.591  Sum_probs=21.2

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|+++|++|+|||+++++++..-
T Consensus        13 ~ki~v~G~~~~GKSsli~~l~~~~   36 (181)
T 2efe_B           13 AKLVLLGDVGAGKSSLVLRFVKDQ   36 (181)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHCC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            468999999999999999998753

>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=90.99  E-value=0.071  Score=48.46  Aligned_cols=27  Identities=19%  Similarity=0.188  Sum_probs=22.9

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .....|+++|++|+|||+++++++..-
T Consensus        16 ~~~~~i~v~G~~~~GKssl~~~l~~~~   42 (186)
T 1ksh_A           16 ERELRLLMLGLDNAGKTTILKKFNGED   42 (186)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHTTCC
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHhcCC
Confidence            356789999999999999999988654

>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=90.98  E-value=0.076  Score=48.09  Aligned_cols=25  Identities=8%  Similarity=0.174  Sum_probs=21.2

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .+..|.++|++|+|||++++.+...
T Consensus         3 ~~~ki~ivG~~g~GKStLl~~l~~~   27 (172)
T 2gj8_A            3 HGMKVVIAGRPNAGKSSLLNALAGR   27 (172)
T ss_dssp             -CEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3567899999999999999998764

>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=90.98  E-value=0.071  Score=47.26  Aligned_cols=23  Identities=22%  Similarity=0.271  Sum_probs=19.9

Q ss_pred             CCeEEeccCCCCchhhHHHHHhc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ..|+++|++|+|||++++.+...
T Consensus         3 ~ki~~vG~~~~GKSsli~~l~~~   25 (166)
T 3q72_A            3 YKVLLLGAPGVGKSALARIFGGV   25 (166)
T ss_dssp             CEEEEEESTTSSHHHHHHHHCCC
T ss_pred             EEEEEECCCCCCHHHHHHHHcCc
Confidence            46899999999999999988643

>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=90.98  E-value=0.087  Score=48.31  Aligned_cols=24  Identities=25%  Similarity=0.256  Sum_probs=20.9

Q ss_pred             CeEEeccCCCCchhhHHHHHhccC
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      -+.++|++|||||+++..++..+.
T Consensus         6 ~i~i~G~sGsGKTTl~~~L~~~l~   29 (169)
T 1xjc_A            6 VWQVVGYKHSGKTTLMEKWVAAAV   29 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhhH
Confidence            367999999999999999988764

>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=90.94  E-value=0.081  Score=51.55  Aligned_cols=27  Identities=19%  Similarity=0.178  Sum_probs=22.4

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|.-+.++||+|+|||++++-+..-+
T Consensus        33 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   59 (247)
T 2ff7_A           33 KQGEVIGIVGRSGSGKSTLTKLIQRFY   59 (247)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            358889999999999999998765543

>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=90.88  E-value=0.12  Score=47.00  Aligned_cols=26  Identities=23%  Similarity=0.351  Sum_probs=22.7

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      +....|+++|++|+|||++++.++..
T Consensus        14 ~~~~~i~v~G~~~~GKssl~~~l~~~   39 (187)
T 1zj6_A           14 HQEHKVIIVGLDNAGKTTILYQFSMN   39 (187)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcC
Confidence            45678999999999999999999854

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=90.85  E-value=0.35  Score=44.71  Aligned_cols=32  Identities=16%  Similarity=0.102  Sum_probs=24.8

Q ss_pred             CceEEeccCCCcHhHHHHHHHHHc---CCeEEEEE
Q psy12736        448 GHCMVVGVEGGGKRSLVRLASFAA---GYQVFTIQ  479 (567)
Q Consensus       448 Gh~LLvG~~GsGr~sl~rlaa~i~---~~~~~~i~  479 (567)
                      .+++|.|++|+||+++++..+...   +..+..+.
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~~~~~~~~~~~~~~   89 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIANELAKRNVSSLIVY   89 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEE
Confidence            689999999999999998766544   45555554

>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=90.82  E-value=0.12  Score=47.16  Aligned_cols=24  Identities=25%  Similarity=0.505  Sum_probs=21.2

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|+++|++|+|||++++.++..-
T Consensus        26 ~ki~v~G~~~~GKSsLi~~l~~~~   49 (193)
T 2oil_A           26 FKVVLIGESGVGKTNLLSRFTRNE   49 (193)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCC
Confidence            468999999999999999998753

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=90.81  E-value=0.096  Score=47.59  Aligned_cols=23  Identities=9%  Similarity=0.206  Sum_probs=20.3

Q ss_pred             CCeEEeccCCCCchhhHHHHHhc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ..|.++|++|+|||++++.+...
T Consensus         8 ~~i~lvG~~gvGKStL~~~l~~~   30 (188)
T 2wjg_A            8 YEIALIGNPNVGKSTIFNALTGE   30 (188)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            46899999999999999998763

>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=90.81  E-value=0.1  Score=46.91  Aligned_cols=24  Identities=29%  Similarity=0.516  Sum_probs=21.2

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|+++|++|+|||++++.++..-
T Consensus        11 ~~i~v~G~~~~GKssli~~l~~~~   34 (180)
T 2g6b_A           11 FKVMLVGDSGVGKTCLLVRFKDGA   34 (180)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHHhCC
Confidence            468999999999999999998753

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=90.79  E-value=0.096  Score=49.57  Aligned_cols=25  Identities=20%  Similarity=0.317  Sum_probs=21.4

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +..++++|++|||||++.+.+-..+
T Consensus         5 ~~~I~l~G~~GsGKsT~a~~La~~l   29 (217)
T 3be4_A            5 KHNLILIGAPGSGKGTQCEFIKKEY   29 (217)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHh
Confidence            4568999999999999998877665

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=90.78  E-value=0.12  Score=48.72  Aligned_cols=25  Identities=20%  Similarity=0.316  Sum_probs=21.8

Q ss_pred             CCeEEeccCCCCchhhHHHHHhccC
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ..+.++|++|+|||+++.+++....
T Consensus        39 ~~i~ivG~~gvGKTtl~~~l~~~~~   63 (226)
T 2hf9_A           39 VAFDFMGAIGSGKTLLIEKLIDNLK   63 (226)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHT
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHhc
Confidence            4588999999999999999998753

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=90.77  E-value=0.13  Score=47.01  Aligned_cols=24  Identities=21%  Similarity=0.510  Sum_probs=21.3

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|+++|++|+|||++++.++..-
T Consensus        17 ~ki~v~G~~~~GKSsli~~l~~~~   40 (196)
T 3tkl_A           17 FKLLLIGDSGVGKSCLLLRFADDT   40 (196)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            469999999999999999998754

>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=90.77  E-value=0.075  Score=51.42  Aligned_cols=27  Identities=22%  Similarity=0.332  Sum_probs=22.5

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|.-+.++||+|+|||++++-+..-+
T Consensus        29 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           29 PEGALVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTCS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            358889999999999999998766543

>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=90.74  E-value=0.13  Score=46.87  Aligned_cols=24  Identities=25%  Similarity=0.444  Sum_probs=21.3

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|+++|++|+|||++++.++...
T Consensus        22 ~ki~vvG~~~~GKSsli~~l~~~~   45 (190)
T 3con_A           22 YKLVVVGAGGVGKSALTIQLIQNH   45 (190)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            468999999999999999998753

>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=90.73  E-value=0.081  Score=50.43  Aligned_cols=27  Identities=19%  Similarity=0.092  Sum_probs=23.7

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      +..|.-++++||+|+|||+++..+...
T Consensus        21 i~~G~~~~i~G~~GsGKTtl~~~l~~~   47 (243)
T 1n0w_A           21 IETGSITEMFGEFRTGKTQICHTLAVT   47 (243)
T ss_dssp             EETTSEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcCCeEEEEECCCCCcHHHHHHHHHHH
Confidence            346788999999999999999998875

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=90.73  E-value=0.088  Score=49.29  Aligned_cols=26  Identities=23%  Similarity=0.201  Sum_probs=21.0

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+.-+-++||+|||||++++.+...+
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~~~   30 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALARTL   30 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHh
Confidence            44568899999999999998776644

>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=90.73  E-value=0.13  Score=46.36  Aligned_cols=25  Identities=28%  Similarity=0.458  Sum_probs=21.6

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ...|+++|++|+|||++++.++..-
T Consensus        18 ~~ki~v~G~~~~GKSsli~~l~~~~   42 (187)
T 2a9k_A           18 LHKVIMVGSGGVGKSALTLQFMYDE   42 (187)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHhhCC
Confidence            3569999999999999999998653

>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=90.68  E-value=0.13  Score=47.07  Aligned_cols=25  Identities=24%  Similarity=0.413  Sum_probs=21.8

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ...|+++|++|+|||+++++++..-
T Consensus        21 ~~ki~vvG~~~vGKTsLi~~l~~~~   45 (187)
T 3c5c_A           21 EVNLAILGRRGAGKSALTVKFLTKR   45 (187)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             eEEEEEECCCCCcHHHHHHHHHhCC
Confidence            3469999999999999999998753

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=90.67  E-value=0.079  Score=50.59  Aligned_cols=28  Identities=25%  Similarity=0.264  Sum_probs=23.9

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +..|.-++++||+|+|||+++.+++...
T Consensus        20 l~~G~~~~i~G~~GsGKTtl~~~~~~~~   47 (247)
T 2dr3_A           20 IPERNVVLLSGGPGTGKTIFSQQFLWNG   47 (247)
T ss_dssp             EETTCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            4568889999999999999998887653

>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=90.66  E-value=0.089  Score=51.54  Aligned_cols=27  Identities=15%  Similarity=0.261  Sum_probs=22.3

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|.-+.++||+|+|||++++-+..-+
T Consensus        31 ~~Ge~~~liG~nGsGKSTLlk~l~Gl~   57 (257)
T 1g6h_A           31 NKGDVTLIIGPNGSGKSTLINVITGFL   57 (257)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             eCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            358888999999999999998765543

>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=90.65  E-value=0.08  Score=51.39  Aligned_cols=27  Identities=15%  Similarity=0.147  Sum_probs=22.5

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|.-+.++||+|+|||++++-+..-+
T Consensus        26 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (243)
T 1mv5_A           26 QPNSIIAFAGPSGGGKSTIFSLLERFY   52 (243)
T ss_dssp             CTTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            358889999999999999998766543

>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=90.64  E-value=0.13  Score=46.85  Aligned_cols=24  Identities=13%  Similarity=0.346  Sum_probs=21.2

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|+++|++|+|||++++.++..-
T Consensus        23 ~ki~vvG~~~~GKSsli~~l~~~~   46 (189)
T 2gf9_A           23 FKLLLIGNSSVGKTSFLFRYADDS   46 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            468999999999999999998753

>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=90.60  E-value=0.14  Score=46.80  Aligned_cols=25  Identities=28%  Similarity=0.329  Sum_probs=21.7

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ...|+++|++|+|||+++++++..-
T Consensus        20 ~~ki~v~G~~~~GKSsli~~l~~~~   44 (189)
T 1z06_A           20 IFKIIVIGDSNVGKTCLTYRFCAGR   44 (189)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHcCC
Confidence            3579999999999999999998653

>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=90.60  E-value=0.14  Score=46.90  Aligned_cols=26  Identities=15%  Similarity=-0.003  Sum_probs=22.4

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ....|+++|++|+|||++++.++..-
T Consensus        21 ~~~ki~v~G~~~~GKSsli~~l~~~~   46 (188)
T 1zd9_A           21 EEMELTLVGLQYSGKTTFVNVIASGQ   46 (188)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             CccEEEEECCCCCCHHHHHHHHHcCC
Confidence            35579999999999999999998753

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=90.59  E-value=0.098  Score=47.93  Aligned_cols=23  Identities=22%  Similarity=0.216  Sum_probs=19.7

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      -+.++|++|||||++.+.+-+.+
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l   24 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYL   24 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            37899999999999998877655

>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=90.57  E-value=0.13  Score=47.31  Aligned_cols=24  Identities=29%  Similarity=0.506  Sum_probs=21.2

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|+++|++|+|||++++.++..-
T Consensus        15 ~ki~v~G~~~~GKSsli~~l~~~~   38 (206)
T 2bov_A           15 HKVIMVGSGGVGKSALTLQFMYDE   38 (206)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCC
Confidence            468999999999999999998653

>1ko7_A HPR kinase/phosphatase; protein kinase, phosphotransfer, protein phosphatase, dual activity, product, substrate, transferase, hydrolase; 1.95A {Staphylococcus xylosus} SCOP: c.98.2.1 c.91.1.2

Probab=90.56  E-value=0.16  Score=51.25  Aligned_cols=40  Identities=23%  Similarity=0.371  Sum_probs=31.6

Q ss_pred             cchhhHHHHHHHHHhc----------------CCCeEEeccCCCCchhhHHHHHhc
Q psy12736        177 TDSTKLTWILSLMNEI----------------KRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       177 ~dtvR~~~ll~~ll~~----------------~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ..|.+....+..++..                |+-|+++|++|+|||+++..++.+
T Consensus       112 ~~ts~~~~~l~~~l~~~~~~~~~~H~~~v~~~g~~vl~~G~sG~GKSt~a~~l~~~  167 (314)
T 1ko7_A          112 IATTQLMSRLTTFLEHELARTTSLHGVLVDVYGVGVLITGDSGIGKSETALELIKR  167 (314)
T ss_dssp             SCHHHHHHHHHHHHHHHTCEEEEEESEEEEETTEEEEEEESTTSSHHHHHHHHHHT
T ss_pred             CchhHHHHHHHHHHHHhhccceeeeEEEEEECCEEEEEEeCCCCCHHHHHHHHHhc
Confidence            4445555556666665                889999999999999999999885

>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=90.55  E-value=0.14  Score=46.89  Aligned_cols=25  Identities=12%  Similarity=0.341  Sum_probs=21.8

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ...|+++|++|+|||++++.++..-
T Consensus        23 ~~ki~v~G~~~~GKSsli~~l~~~~   47 (191)
T 3dz8_A           23 MFKLLIIGNSSVGKTSFLFRYADDT   47 (191)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             eeEEEEECCCCcCHHHHHHHHhcCC
Confidence            3468999999999999999998754

>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=90.54  E-value=0.13  Score=47.09  Aligned_cols=25  Identities=24%  Similarity=0.492  Sum_probs=21.9

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ...|+++|++|+|||++++.++..-
T Consensus        23 ~~ki~vvG~~~~GKSsli~~l~~~~   47 (192)
T 2fg5_A           23 ELKVCLLGDTGVGKSSIVCRFVQDH   47 (192)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHCC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcCC
Confidence            3579999999999999999998754

>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=90.54  E-value=0.097  Score=49.32  Aligned_cols=23  Identities=13%  Similarity=0.174  Sum_probs=20.1

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .++++|++|||||++++.+...+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIMEKY   24 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999998887765

>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=90.52  E-value=0.082  Score=49.45  Aligned_cols=26  Identities=23%  Similarity=0.141  Sum_probs=21.1

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+.-+.++|++|||||++++.+...+
T Consensus        20 ~~~~i~i~G~~GsGKSTl~~~L~~~~   45 (207)
T 2qt1_A           20 KTFIIGISGVTNSGKTTLAKNLQKHL   45 (207)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTTS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            35568899999999999998776654

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=90.50  E-value=0.084  Score=47.35  Aligned_cols=23  Identities=22%  Similarity=0.585  Sum_probs=20.4

Q ss_pred             CCeEEeccCCCCchhhHHHHHhc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ..|+++|++|+|||++++.++..
T Consensus        10 ~~i~v~G~~~~GKssl~~~l~~~   32 (181)
T 3tw8_B           10 FKLLIIGDSGVGKSSLLLRFADN   32 (181)
T ss_dssp             EEEEEECCTTSCHHHHHHHHCSC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            46899999999999999998764

>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=90.50  E-value=0.092  Score=49.41  Aligned_cols=28  Identities=14%  Similarity=0.182  Sum_probs=23.7

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +..+.-++++|++|||||++++.+...+
T Consensus        22 ~~~~~~i~~~G~~GsGKsT~~~~l~~~l   49 (211)
T 1m7g_A           22 NQRGLTIWLTGLSASGKSTLAVELEHQL   49 (211)
T ss_dssp             TSSCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            4567789999999999999999877655

>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=90.48  E-value=0.14  Score=46.18  Aligned_cols=23  Identities=17%  Similarity=0.410  Sum_probs=20.7

Q ss_pred             CCeEEeccCCCCchhhHHHHHhc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ..|+++|++|+|||+++++++..
T Consensus         7 ~ki~~~G~~~~GKSsli~~l~~~   29 (181)
T 3t5g_A            7 RKIAILGYRSVGKSSLTIQFVEG   29 (181)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEECcCCCCHHHHHHHHHcC
Confidence            46899999999999999999864

>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=90.47  E-value=0.053  Score=50.78  Aligned_cols=23  Identities=13%  Similarity=0.221  Sum_probs=20.2

Q ss_pred             eEEeccCCCCchhhHHHHHhccC
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      +.++|++|||||++++.+...+.
T Consensus         3 I~i~G~~GsGKsTl~~~L~~~l~   25 (214)
T 1gtv_A            3 IAIEGVDGAGKRTLVEKLSGAFR   25 (214)
T ss_dssp             EEEEEEEEEEHHHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHH
Confidence            67999999999999998877664

>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=90.47  E-value=0.087  Score=51.51  Aligned_cols=25  Identities=24%  Similarity=0.243  Sum_probs=21.0

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..-++++|++|||||++++.+-..+
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~~L   28 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAKIL   28 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHH
Confidence            3458999999999999999877654

>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=90.46  E-value=0.1  Score=49.97  Aligned_cols=26  Identities=12%  Similarity=0.277  Sum_probs=22.1

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ....++++|++|||||++.+.+-..+
T Consensus        15 ~~~~I~l~G~~GsGKsT~a~~La~~l   40 (233)
T 1ak2_A           15 KGVRAVLLGPPGAGKGTQAPKLAKNF   40 (233)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            45679999999999999998877665

>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=90.46  E-value=0.14  Score=46.61  Aligned_cols=24  Identities=17%  Similarity=0.527  Sum_probs=21.4

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|+++|++|+|||++++.++..-
T Consensus        16 ~~i~v~G~~~~GKssli~~l~~~~   39 (195)
T 1x3s_A           16 LKILIIGESGVGKSSLLLRFTDDT   39 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            469999999999999999998753

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=90.44  E-value=0.1  Score=46.74  Aligned_cols=22  Identities=23%  Similarity=0.194  Sum_probs=0.0

Q ss_pred             eEEeccCCCCchhhHHHHHhcc
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +.++|++|||||++.+.+-..+
T Consensus         3 I~l~G~~GsGKsT~a~~L~~~l   24 (168)
T 2pt5_A            3 IYLIGFMCSGKSTVGSLLSRSL   24 (168)
T ss_dssp             EEEESCTTSCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh

>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=90.43  E-value=0.14  Score=47.47  Aligned_cols=24  Identities=17%  Similarity=0.463  Sum_probs=21.3

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|+++|++|+|||++++.++..-
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~~   32 (206)
T 2bcg_Y            9 FKLLLIGNSGVGKSCLLLRFSDDT   32 (206)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHCC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Confidence            468999999999999999998754

>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=90.40  E-value=0.14  Score=47.87  Aligned_cols=26  Identities=35%  Similarity=0.483  Sum_probs=22.5

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ....|+++|++|+|||++++.+...-
T Consensus        27 ~~~ki~vvG~~~vGKSsLi~~l~~~~   52 (205)
T 1gwn_A           27 VKCKIVVVGDSQCGKTALLHVFAKDC   52 (205)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCC
Confidence            34579999999999999999998754

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=90.37  E-value=0.099  Score=51.68  Aligned_cols=27  Identities=15%  Similarity=0.160  Sum_probs=22.4

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|.-+.|+||+|+|||++++-+..-+
T Consensus        43 ~~Ge~~~i~G~nGsGKSTLlk~l~Gl~   69 (271)
T 2ixe_A           43 YPGKVTALVGPNGSGKSTVAALLQNLY   69 (271)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            358889999999999999998765543

>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=90.37  E-value=0.14  Score=47.29  Aligned_cols=24  Identities=13%  Similarity=0.369  Sum_probs=21.1

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|+++|++|+|||++++.++..-
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~~   32 (203)
T 1zbd_A            9 FKILIIGNSSVGKTSFLFRYADDS   32 (203)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTCC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Confidence            468999999999999999988753

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=90.34  E-value=0.1  Score=51.37  Aligned_cols=27  Identities=11%  Similarity=0.115  Sum_probs=22.0

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|.-+-++||+|+|||++++-+..-+
T Consensus        30 ~~Ge~~~liG~nGsGKSTLlk~l~Gl~   56 (262)
T 1b0u_A           30 RAGDVISIIGSSGSGKSTFLRCINFLE   56 (262)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            357788999999999999998765443

>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=90.33  E-value=0.097  Score=50.72  Aligned_cols=26  Identities=19%  Similarity=0.290  Sum_probs=21.7

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .|.-+.++||+|+|||++++-+..-+
T Consensus        31 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~   56 (240)
T 1ji0_A           31 RGQIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            57888999999999999998765543

>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=90.32  E-value=0.15  Score=47.12  Aligned_cols=25  Identities=28%  Similarity=0.498  Sum_probs=21.8

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ...|+++|++|+|||++++.++..-
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~~   32 (207)
T 1vg8_A            8 LLKVIILGDSGVGKTSLMNQYVNKK   32 (207)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcCC
Confidence            3478999999999999999998754

>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=90.32  E-value=0.095  Score=47.78  Aligned_cols=27  Identities=22%  Similarity=0.183  Sum_probs=0.0

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..+..+.++|++|||||++.+.+-..+
T Consensus         3 ~~g~~i~l~G~~GsGKST~~~~L~~~l   29 (179)
T 2pez_A            3 MRGCTVWLTGLSGAGKTTVSMALEEYL   29 (179)
T ss_dssp             -CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHH

>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=90.31  E-value=0.14  Score=46.83  Aligned_cols=25  Identities=20%  Similarity=0.486  Sum_probs=21.8

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ...|+++|++|+|||++++.++..-
T Consensus         8 ~~ki~vvG~~~~GKSsli~~l~~~~   32 (199)
T 2gf0_A            8 DYRVVVFGAGGVGKSSLVLRFVKGT   32 (199)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHSC
T ss_pred             eeEEEEECCCCCcHHHHHHHHHcCC
Confidence            4579999999999999999998753

>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=90.31  E-value=0.097  Score=51.91  Aligned_cols=27  Identities=22%  Similarity=0.343  Sum_probs=22.2

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|.-+.++||+|+|||++++-+..-+
T Consensus        32 ~~Ge~~~iiGpnGsGKSTLl~~l~Gl~   58 (275)
T 3gfo_A           32 KRGEVTAILGGNGVGKSTLFQNFNGIL   58 (275)
T ss_dssp             ETTSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            358888999999999999998765543

>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=90.29  E-value=0.13  Score=48.89  Aligned_cols=24  Identities=17%  Similarity=0.333  Sum_probs=21.2

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .-|+++|.+|+|||+++.+++..-
T Consensus        14 ~KivlvGd~~VGKTsLi~r~~~~~   37 (216)
T 4dkx_A           14 FKLVFLGEQSVGKTSLITRFMYDS   37 (216)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECcCCcCHHHHHHHHHhCC
Confidence            358999999999999999998753

>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=90.29  E-value=0.15  Score=46.72  Aligned_cols=25  Identities=28%  Similarity=0.429  Sum_probs=22.0

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ...|+++|++|+|||++++.++..-
T Consensus        23 ~~ki~~vG~~~~GKSsl~~~l~~~~   47 (194)
T 3reg_A           23 ALKIVVVGDGAVGKTCLLLAFSKGE   47 (194)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eeEEEEECcCCCCHHHHHHHHhcCC
Confidence            4579999999999999999998754

>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=90.28  E-value=0.052  Score=50.57  Aligned_cols=25  Identities=8%  Similarity=0.171  Sum_probs=21.2

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .+..+.++|++|+|||++++.++..
T Consensus        25 ~~~~v~lvG~~g~GKSTLl~~l~g~   49 (210)
T 1pui_A           25 TGIEVAFAGRSNAGKSSALNTLTNQ   49 (210)
T ss_dssp             CSEEEEEEECTTSSHHHHHTTTCCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCC
Confidence            4667999999999999999887643

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=90.26  E-value=0.1  Score=48.00  Aligned_cols=25  Identities=12%  Similarity=0.280  Sum_probs=22.8

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .++-||++|++|+|||+++..++.+
T Consensus        15 ~G~gvli~G~SGaGKStlal~L~~r   39 (181)
T 3tqf_A           15 DKMGVLITGEANIGKSELSLALIDR   39 (181)
T ss_dssp             TTEEEEEEESSSSSHHHHHHHHHHT
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHc
Confidence            5788999999999999999999875

>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=90.25  E-value=0.11  Score=47.67  Aligned_cols=25  Identities=12%  Similarity=0.123  Sum_probs=21.1

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ....|+++|++|+|||++++++...
T Consensus        22 ~~~ki~~vG~~~vGKSsli~~l~~~   46 (190)
T 1m2o_B           22 KHGKLLFLGLDNAGKTTLLHMLKND   46 (190)
T ss_dssp             --CEEEEEESTTSSHHHHHHHHHHS
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcC
Confidence            3567999999999999999998865

>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=90.22  E-value=0.071  Score=53.76  Aligned_cols=27  Identities=19%  Similarity=0.279  Sum_probs=22.7

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|.-+-++||+|+|||++++-++.-+
T Consensus        78 ~~Ge~vaivG~sGsGKSTLl~ll~gl~  104 (306)
T 3nh6_A           78 MPGQTLALVGPSGAGKSTILRLLFRFY  104 (306)
T ss_dssp             CTTCEEEEESSSCHHHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCchHHHHHHHHHcCC
Confidence            468899999999999999997766544

>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=90.16  E-value=0.1  Score=51.48  Aligned_cols=27  Identities=15%  Similarity=0.229  Sum_probs=22.2

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|.-+-++||+|+|||++++-+..-+
T Consensus        35 ~~Ge~~~liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           35 ASGEMVAIIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             ETTCEEEEECCTTSCHHHHHHHHTSSS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            358888999999999999998765543

>4ag6_A VIRB4 ATPase, type IV secretory pathway VIRB4 components-like P; hydrolase, type IV secretion, conjugation; 2.35A {Thermoanaerobacter pseudethanolicus} PDB: 4ag5_A

Probab=90.16  E-value=0.12  Score=53.62  Aligned_cols=26  Identities=15%  Similarity=0.162  Sum_probs=23.1

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+.|++++||+|+|||++++.++...
T Consensus        34 ~~~~~~i~G~~G~GKs~~~~~~~~~~   59 (392)
T 4ag6_A           34 TNSNWTILAKPGAGKSFTAKMLLLRE   59 (392)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ccCceEEEcCCCCCHHHHHHHHHHHH
Confidence            57899999999999999999987654

>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=90.12  E-value=0.13  Score=47.20  Aligned_cols=24  Identities=29%  Similarity=0.559  Sum_probs=21.1

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|+++|++|+|||++++.++..-
T Consensus        22 ~ki~v~G~~~~GKSsli~~l~~~~   45 (191)
T 2a5j_A           22 FKYIIIGDTGVGKSCLLLQFTDKR   45 (191)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCC
Confidence            468999999999999999998753

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=90.11  E-value=0.11  Score=49.43  Aligned_cols=23  Identities=13%  Similarity=0.157  Sum_probs=19.7

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .++++|++|||||++++.+...+
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~l   24 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDKY   24 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            37899999999999998877655

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=90.09  E-value=0.1  Score=50.97  Aligned_cols=27  Identities=19%  Similarity=0.178  Sum_probs=22.5

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|.-+.++||+|+|||++++-+..-+
T Consensus        29 ~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           29 NKGDILAVLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             ETTCEEEEECCSSSSHHHHHHHHTTSS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            358889999999999999998766544

>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=90.08  E-value=0.12  Score=48.91  Aligned_cols=22  Identities=14%  Similarity=0.298  Sum_probs=19.1

Q ss_pred             eEEeccCCCCchhhHHHHHhcc
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +++.|||||||++..+.+.+++
T Consensus         3 Iil~GpPGsGKgTqa~~La~~~   24 (206)
T 3sr0_A            3 LVFLGPPGAGKGTQAKRLAKEK   24 (206)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6889999999999998877654

>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=90.05  E-value=0.13  Score=47.56  Aligned_cols=25  Identities=16%  Similarity=0.351  Sum_probs=22.0

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ...|+++|++|+|||++++.++..-
T Consensus        28 ~~ki~v~G~~~~GKSsli~~l~~~~   52 (199)
T 2p5s_A           28 AYKIVLAGDAAVGKSSFLMRLCKNE   52 (199)
T ss_dssp             CEEEEEESSTTSSHHHHHHHHHHCC
T ss_pred             CeEEEEECcCCCCHHHHHHHHHhCC
Confidence            4579999999999999999998753

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=90.03  E-value=0.13  Score=52.65  Aligned_cols=25  Identities=20%  Similarity=0.332  Sum_probs=21.7

Q ss_pred             CCeEEeccCCCCchhhHHHHHhccC
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      +-+.++||||||||++...+...+.
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~l~   32 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKKFN   32 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             ceEEEECCCcCcHHHHHHHHHHHcC
Confidence            3588999999999999999887764

>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=89.99  E-value=0.12  Score=49.54  Aligned_cols=25  Identities=32%  Similarity=0.392  Sum_probs=21.6

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ...|+++|++|+|||++++.++...
T Consensus        29 ~~~i~lvG~~g~GKStlin~l~g~~   53 (239)
T 3lxx_A           29 QLRIVLVGKTGAGKSATGNSILGRK   53 (239)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHTSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHcCCC
Confidence            3568999999999999999998753

>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=89.99  E-value=0.099  Score=47.04  Aligned_cols=23  Identities=26%  Similarity=0.379  Sum_probs=20.8

Q ss_pred             CCeEEeccCCCCchhhHHHHHhc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ..|+++|++|+|||+++++++..
T Consensus         8 ~ki~~vG~~~vGKTsli~~l~~~   30 (178)
T 2iwr_A            8 LRLGVLGDARSGKSSLIHRFLTG   30 (178)
T ss_dssp             EEEEEECCGGGCHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            46899999999999999999875

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=89.98  E-value=0.11  Score=51.08  Aligned_cols=26  Identities=27%  Similarity=0.436  Sum_probs=22.1

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ..|.-+.++||+|+|||++++-+..-
T Consensus        44 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl   69 (260)
T 2ghi_A           44 PSGTTCALVGHTGSGKSTIAKLLYRF   69 (260)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            35888999999999999999876553

>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=89.97  E-value=0.16  Score=47.39  Aligned_cols=24  Identities=25%  Similarity=0.504  Sum_probs=21.3

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|+++|++|+|||+++++++...
T Consensus        27 ~ki~lvG~~~vGKSsLi~~l~~~~   50 (201)
T 2ew1_A           27 FKIVLIGNAGVGKTCLVRRFTQGL   50 (201)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSS
T ss_pred             eEEEEECcCCCCHHHHHHHHHhCC
Confidence            468999999999999999998754

>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=89.93  E-value=0.12  Score=46.98  Aligned_cols=24  Identities=25%  Similarity=0.401  Sum_probs=21.4

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ...|+++|++|+|||+++++++..
T Consensus        21 ~~~i~v~G~~~~GKSsli~~l~~~   44 (181)
T 2h17_A           21 EHKVIIVGLDNAGKTTILYQFSMN   44 (181)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHHTT
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            457999999999999999999865

>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=89.91  E-value=0.12  Score=48.22  Aligned_cols=21  Identities=24%  Similarity=0.232  Sum_probs=17.6

Q ss_pred             CeEEeccCCCCchhhHHHHHh
Q psy12736        195 PCIVVGDTGTSKTATMMNFLR  215 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~  215 (567)
                      .+.|+||+|||||++.+.+..
T Consensus         4 ~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            4 IVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEECSTTSCHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999877643

>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=89.89  E-value=0.11  Score=51.11  Aligned_cols=27  Identities=15%  Similarity=0.187  Sum_probs=22.1

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|.-+.++||+|+|||++++-+..-+
T Consensus        48 ~~Gei~~liG~NGsGKSTLlk~l~Gl~   74 (263)
T 2olj_A           48 REGEVVVVIGPSGSGKSTFLRCLNLLE   74 (263)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEEcCCCCcHHHHHHHHHcCC
Confidence            358889999999999999998765433

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=89.89  E-value=0.12  Score=49.27  Aligned_cols=25  Identities=16%  Similarity=0.387  Sum_probs=20.2

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+-+++.|||||||++..+.+.+++
T Consensus        29 ~kiI~llGpPGsGKgTqa~~L~~~~   53 (217)
T 3umf_A           29 AKVIFVLGGPGSGKGTQCEKLVQKF   53 (217)
T ss_dssp             CEEEEEECCTTCCHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            3446789999999999998877654

>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=89.89  E-value=0.12  Score=53.59  Aligned_cols=28  Identities=21%  Similarity=0.157  Sum_probs=24.0

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +..+.-++++||+|||||++++.+....
T Consensus       166 i~~~~~i~l~G~~GsGKSTl~~~l~~~~  193 (377)
T 1svm_A          166 IPKKRYWLFKGPIDSGKTTLAAALLELC  193 (377)
T ss_dssp             CTTCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            4578889999999999999999877654

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=89.85  E-value=0.16  Score=46.85  Aligned_cols=26  Identities=19%  Similarity=0.266  Sum_probs=22.5

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ....|+++|++|+|||++++.++..-
T Consensus        23 ~~~ki~vvG~~~~GKSsli~~l~~~~   48 (201)
T 3oes_A           23 RYRKVVILGYRCVGKTSLAHQFVEGE   48 (201)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             CcEEEEEECCCCcCHHHHHHHHHhCC
Confidence            34579999999999999999998754

>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=89.85  E-value=0.13  Score=46.91  Aligned_cols=22  Identities=23%  Similarity=0.221  Sum_probs=18.4

Q ss_pred             CeEEeccCCCCchhhHHHHHhc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      -.+++||+|||||+++..+.--
T Consensus        28 ~~~i~G~NGsGKStll~ai~~~   49 (182)
T 3kta_A           28 FTAIVGANGSGKSNIGDAILFV   49 (182)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHHH
Confidence            5689999999999999886543

>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=89.79  E-value=0.1  Score=50.93  Aligned_cols=27  Identities=15%  Similarity=0.175  Sum_probs=22.3

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      +..|.-+.++||+|+|||++++-+..-
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            346888999999999999999876543

>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=89.77  E-value=0.12  Score=47.86  Aligned_cols=25  Identities=12%  Similarity=0.050  Sum_probs=19.9

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ....+.|+|++|||||++.+.+.+.
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            3445889999999999999776553

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=89.77  E-value=0.076  Score=48.76  Aligned_cols=25  Identities=20%  Similarity=0.284  Sum_probs=21.1

Q ss_pred             CCeEEeccCCCCchhhHHHHHhccC
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      +-+.++|++|||||++++.++.-+.
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~~   27 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPILR   27 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhh
Confidence            3477999999999999998887654

>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=89.77  E-value=0.11  Score=52.21  Aligned_cols=25  Identities=36%  Similarity=0.460  Sum_probs=21.4

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +.-+.++||+|||||++++.+..-+
T Consensus       102 g~vi~lvG~nGsGKTTll~~Lagll  126 (304)
T 1rj9_A          102 GRVVLVVGVNGVGKTTTIAKLGRYY  126 (304)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHH
Confidence            5678899999999999999877654

>2gxq_A Heat resistant RNA dependent ATPase; RNA helicase, atomic resolution, AMP complex, ribosome biogenesis, thermophilic, hydrolase; HET: AMP; 1.20A {Thermus thermophilus HB27} PDB: 2gxs_A* 2gxu_A 3mwj_A 3mwk_A* 3mwl_A* 3nbf_A* 3nej_A

Probab=89.73  E-value=0.14  Score=47.44  Aligned_cols=27  Identities=26%  Similarity=0.180  Sum_probs=20.4

Q ss_pred             hcCCCeEEeccCCCCchhhHH-HHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMM-NFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~-~~l~~l  217 (567)
                      .+++++++++|||||||.... -++..+
T Consensus        36 ~~~~~~li~~~TGsGKT~~~~~~~~~~l   63 (207)
T 2gxq_A           36 LEGKDLIGQARTGTGKTLAFALPIAERL   63 (207)
T ss_dssp             HTTCCEEEECCTTSCHHHHHHHHHHHHC
T ss_pred             cCCCCEEEECCCCChHHHHHHHHHHHHH
Confidence            357899999999999998743 344444

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=89.72  E-value=0.12  Score=51.40  Aligned_cols=27  Identities=19%  Similarity=0.086  Sum_probs=22.2

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|.-+.++||+|+|||++++-+..-+
T Consensus        45 ~~Ge~~~liG~NGsGKSTLlk~l~Gl~   71 (279)
T 2ihy_A           45 AKGDKWILYGLNGAGKTTLLNILNAYE   71 (279)
T ss_dssp             ETTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            358888999999999999998765543

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=89.72  E-value=0.18  Score=46.99  Aligned_cols=36  Identities=11%  Similarity=0.086  Sum_probs=25.9

Q ss_pred             HHHHHHHHHh----cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        182 LTWILSLMNE----IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       182 ~~~ll~~ll~----~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ...+.+.+.+    .+.-+.++|++|||||++++.+...+
T Consensus         7 ~~~l~~~~~~~~~~~~~~i~i~G~~GsGKstl~~~l~~~~   46 (201)
T 1rz3_A            7 IDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQTL   46 (201)
T ss_dssp             HHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            3445555554    23458899999999999998876654

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=89.72  E-value=0.25  Score=44.94  Aligned_cols=32  Identities=16%  Similarity=0.208  Sum_probs=27.3

Q ss_pred             CCceEEeccCCCcHhHHHHHHHHHcCCeEEEE
Q psy12736        447 RGHCMVVGVEGGGKRSLVRLASFAAGYQVFTI  478 (567)
Q Consensus       447 ~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i  478 (567)
                      .-+++|+|++||||+|+++..|...++.++..
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l~~~~i~~   36 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLTKRILYDS   36 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCCCEEEC
Confidence            34689999999999999998888888887754

>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=89.71  E-value=0.13  Score=54.24  Aligned_cols=32  Identities=19%  Similarity=0.261  Sum_probs=25.6

Q ss_pred             HHHHHHhcCCC--eEEeccCCCCchhhHHHHHhc
Q psy12736        185 ILSLMNEIKRP--CIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       185 ll~~ll~~~~p--vLl~GptGtGKT~~i~~~l~~  216 (567)
                      -++.-+..|..  +.|+||+|+|||++++.++..
T Consensus        32 ~vsl~i~~Gei~~vaLvG~nGaGKSTLln~L~G~   65 (427)
T 2qag_B           32 LVNKSVSQGFCFNILCVGETGLGKSTLMDTLFNT   65 (427)
T ss_dssp             HHHHSCC-CCEEEEEEECSTTSSSHHHHHHHHTS
T ss_pred             CCceEecCCCeeEEEEECCCCCCHHHHHHHHhCc
Confidence            34555678888  999999999999999987764

>1qde_A EIF4A, translation initiation factor 4A; DEAD box protein family, gene regulation; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.19 PDB: 1qva_A

Probab=89.71  E-value=0.21  Score=47.05  Aligned_cols=27  Identities=22%  Similarity=0.279  Sum_probs=20.5

Q ss_pred             hcCCCeEEeccCCCCchhh-HHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTAT-MMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~-i~~~l~~l  217 (567)
                      .+++++++++|||+|||.. +--++..+
T Consensus        49 ~~~~~~lv~~pTGsGKT~~~~~~~l~~l   76 (224)
T 1qde_A           49 IEGHDVLAQAQSGTGKTGTFSIAALQRI   76 (224)
T ss_dssp             HTTCCEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             hcCCCEEEECCCCCcHHHHHHHHHHHHH
Confidence            3578999999999999987 33445544

>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=89.69  E-value=0.12  Score=50.69  Aligned_cols=26  Identities=19%  Similarity=0.183  Sum_probs=21.6

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .|.-+.++||+|+|||++++-+..-+
T Consensus        40 ~Gei~~l~G~NGsGKSTLlk~l~Gl~   65 (256)
T 1vpl_A           40 EGEIFGLIGPNGAGKTTTLRIISTLI   65 (256)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            57888999999999999998765443

>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=89.68  E-value=0.1  Score=47.15  Aligned_cols=23  Identities=26%  Similarity=0.564  Sum_probs=9.9

Q ss_pred             CCeEEeccCCCCchhhHHHHHhc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ..|+++|++|+|||++++.++..
T Consensus         9 ~ki~v~G~~~~GKssl~~~l~~~   31 (183)
T 2fu5_C            9 FKLLLIGDSGVGKTCVLFRFSED   31 (183)
T ss_dssp             EEEEEECCCCC------------
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            46999999999999999998754

>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=89.66  E-value=0.13  Score=47.47  Aligned_cols=27  Identities=15%  Similarity=0.204  Sum_probs=22.0

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ....|+++|++|+|||++++.+..+..
T Consensus        19 ~~~ki~~vG~~~vGKTsLi~~l~~~~~   45 (196)
T 3llu_A           19 SKPRILLMGLRRSGKSSIQKVVFHKMS   45 (196)
T ss_dssp             -CCEEEEEESTTSSHHHHHHHHHSCCC
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhcCC
Confidence            466899999999999999997666544

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=89.64  E-value=0.23  Score=48.68  Aligned_cols=36  Identities=22%  Similarity=0.351  Sum_probs=27.2

Q ss_pred             hHHHHHHHHHhc---CCCeEEeccCCCCchhhHHHHHhc
Q psy12736        181 KLTWILSLMNEI---KRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       181 R~~~ll~~ll~~---~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      +...+++.+.+.   ...|+++|++|+|||++++.++..
T Consensus        24 ~l~~~~~~~~~~~~~~~~I~vvG~~g~GKSSLin~l~~~   62 (270)
T 1h65_A           24 KLLELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGE   62 (270)
T ss_dssp             HHHHHHHHHHHTTCCEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             HHHHHHHHHhhcCCCCeEEEEECCCCCCHHHHHHHHhCC
Confidence            334555556653   347899999999999999999864

>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=89.63  E-value=0.14  Score=47.60  Aligned_cols=20  Identities=20%  Similarity=0.293  Sum_probs=0.0

Q ss_pred             eEEeccCCCCchhhHHHHHh
Q psy12736        196 CIVVGDTGTSKTATMMNFLR  215 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~  215 (567)
                      +.++|++|||||++.+.+..
T Consensus         4 i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            4 IGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             EEEEECTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHH

>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=89.61  E-value=0.18  Score=46.14  Aligned_cols=24  Identities=33%  Similarity=0.641  Sum_probs=21.4

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|+++|++|+|||++++.++...
T Consensus        19 ~ki~v~G~~~~GKssli~~l~~~~   42 (194)
T 2atx_A           19 LKCVVVGDGAVGKTCLLMSYANDA   42 (194)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCC
Confidence            468999999999999999998763

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=89.55  E-value=0.13  Score=50.72  Aligned_cols=26  Identities=19%  Similarity=0.230  Sum_probs=21.7

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ..|.-+.++||+|+|||++++-+..-
T Consensus        31 ~~Ge~~~liG~nGsGKSTLl~~i~Gl   56 (266)
T 2yz2_A           31 NEGECLLVAGNTGSGKSTLLQIVAGL   56 (266)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhCC
Confidence            35888999999999999999876543

>1w36_D RECD, exodeoxyribonuclease V alpha chain; recombination, helicase, hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19 PDB: 3k70_D*

Probab=89.54  E-value=0.13  Score=56.81  Aligned_cols=31  Identities=29%  Similarity=0.483  Sum_probs=24.2

Q ss_pred             HHHHHhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        186 LSLMNEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       186 l~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +...+ .+..+++.|+||||||+++..++..+
T Consensus       158 i~~~l-~~~~~vi~G~pGTGKTt~l~~ll~~l  188 (608)
T 1w36_D          158 AAVAL-TRRISVISGGPGTGKTTTVAKLLAAL  188 (608)
T ss_dssp             HHHHH-TBSEEEEECCTTSTHHHHHHHHHHHH
T ss_pred             HHHHh-cCCCEEEEeCCCCCHHHHHHHHHHHH
Confidence            33334 57899999999999999998876544

>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein, ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus radiodurans} PDB: 3gp8_A 3gpl_A*

Probab=89.53  E-value=0.14  Score=56.28  Aligned_cols=34  Identities=21%  Similarity=0.259  Sum_probs=26.0

Q ss_pred             HHHHHHHHhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        183 TWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       183 ~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ...+...+ .+..++++||+|||||+++..++..+
T Consensus       195 ~~Av~~~~-~~~~~~I~G~pGTGKTt~i~~l~~~l  228 (574)
T 3e1s_A          195 ASVLDQLA-GHRLVVLTGGPGTGKSTTTKAVADLA  228 (574)
T ss_dssp             HHHHHHHT-TCSEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHH-hCCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            33444444 46889999999999999999987754

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=89.47  E-value=0.14  Score=51.39  Aligned_cols=24  Identities=21%  Similarity=0.195  Sum_probs=21.9

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..++++||+|+|||++++.+.+..
T Consensus        31 ~~v~i~G~~G~GKT~L~~~~~~~~   54 (357)
T 2fna_A           31 PITLVLGLRRTGKSSIIKIGINEL   54 (357)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhc
Confidence            689999999999999999998865

>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=89.46  E-value=0.19  Score=46.54  Aligned_cols=25  Identities=24%  Similarity=0.507  Sum_probs=21.9

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ...|+++|++|+|||++++.+...-
T Consensus        25 ~~ki~vvG~~~~GKSsli~~l~~~~   49 (201)
T 2gco_A           25 RKKLVIVGDGACGKTCLLIVFSKDQ   49 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCc
Confidence            4579999999999999999998754

>1vec_A ATP-dependent RNA helicase P54; DEAD-box protein, RNA binding protein; HET: TLA; 2.01A {Homo sapiens} SCOP: c.37.1.19

Probab=89.46  E-value=0.16  Score=47.02  Aligned_cols=21  Identities=19%  Similarity=0.279  Sum_probs=17.7

Q ss_pred             hcCCCeEEeccCCCCchhhHH
Q psy12736        191 EIKRPCIVVGDTGTSKTATMM  211 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~  211 (567)
                      ..++++++++|||+|||....
T Consensus        38 ~~~~~~lv~apTGsGKT~~~~   58 (206)
T 1vec_A           38 LSGRDILARAKNGTGKSGAYL   58 (206)
T ss_dssp             HTTCCEEEECCSSSTTHHHHH
T ss_pred             ccCCCEEEECCCCCchHHHHH
Confidence            357899999999999997554

>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=89.42  E-value=0.13  Score=47.57  Aligned_cols=23  Identities=26%  Similarity=0.567  Sum_probs=20.2

Q ss_pred             CCeEEeccCCCCchhhHHHHHhc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ..|+++|++|+|||++++.++..
T Consensus        26 ~ki~v~G~~~~GKSsLi~~l~~~   48 (200)
T 2o52_A           26 FKFLVIGSAGTGKSCLLHQFIEN   48 (200)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHC-
T ss_pred             eEEEEECcCCCCHHHHHHHHHhC
Confidence            47999999999999999998864

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=89.41  E-value=0.47  Score=48.32  Aligned_cols=65  Identities=14%  Similarity=0.100  Sum_probs=45.1

Q ss_pred             ceEEeccCCCcHhHHHHHHHHHcCCeEEEE--------------------------------Ee-cCCCChhhHHHHHHH
Q psy12736        449 HCMVVGVEGGGKRSLVRLASFAAGYQVFTI--------------------------------QL-SRGYNEASFKEDLKS  495 (567)
Q Consensus       449 h~LLvG~~GsGr~sl~rlaa~i~~~~~~~i--------------------------------~~-~k~y~~~~f~edLk~  495 (567)
                      -++|+|++||||++|++..|--.+.+++..                                ++ ...|+..+|+++-+.
T Consensus        42 lIvI~GPTgsGKTtLa~~LA~~l~~eiIs~Ds~qvYr~mdIgTakp~~eE~~gvphhlidi~~~~~e~~s~~~F~~~a~~  121 (339)
T 3a8t_A           42 LLVLMGATGTGKSRLSIDLAAHFPLEVINSDKMQVYKGLDITTNKISVPDRGGVPHHLLGEVDPARGELTPADFRSLAGK  121 (339)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTTSCEEEEECCSSTTBSSCTTTTTCCCSGGGTTCCEESSSCBCGGGCCCCHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHCCCcEEcccccccccceeeecCCCCHHHHcCCCEeeccccCcccCccCHHHHHHHHHH
Confidence            468999999999999887776666554431                                23 467888999999888


Q ss_pred             HHHHhccCCCcEEEEEecC
Q psy12736        496 LYNLLGVKNQATVFLFTAA  514 (567)
Q Consensus       496 ~~~~ag~~~~~~vfl~~d~  514 (567)
                      ++...-..+ .++++.-.+
T Consensus       122 ~i~~i~~~g-~~pIlvGGt  139 (339)
T 3a8t_A          122 AVSEITGRR-KLPVLVGGS  139 (339)
T ss_dssp             HHHHHHHTT-CEEEEECCC
T ss_pred             HHHHHHhcC-CeEEEEcCH
Confidence            887653333 444554333

>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=89.39  E-value=0.23  Score=52.08  Aligned_cols=37  Identities=16%  Similarity=0.141  Sum_probs=26.9

Q ss_pred             HHHHHHHHhcCCCeEEeccCCCCchhhHHHHHhccCC
Q psy12736        183 TWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       183 ~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      ...++.....+.-+-++||+|+|||++++.++.-..+
T Consensus        59 ~~~L~~~~~~~~~valvG~nGaGKSTLln~L~Gl~~p   95 (413)
T 1tq4_A           59 SDALKEIDSSVLNVAVTGETGSGKSSFINTLRGIGNE   95 (413)
T ss_dssp             HHHHHHHHHCCEEEEEEECTTSSHHHHHHHHHTCCTT
T ss_pred             hhhhhhcccCCeEEEEECCCCCcHHHHHHHHhCCCCc
Confidence            3344444445558999999999999999988765443

>3io5_A Recombination and repair protein; storage dimer, inactive conformation, RECA like core domain, binding, DNA damage, DNA recombination; 2.40A {Enterobacteria phage T4}

Probab=89.36  E-value=1.4  Score=44.59  Aligned_cols=97  Identities=13%  Similarity=0.083  Sum_probs=58.5

Q ss_pred             HHHHHHHh------cCCCceEEeccCCCcHhHH-HHHHHHHc----CCeEEEEEecCCCChhhHHHHHHHHHHHhccCCC
Q psy12736        437 TRIHRALR------LSRGHCMVVGVEGGGKRSL-VRLASFAA----GYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQ  505 (567)
Q Consensus       437 ~ri~RvL~------~p~Gh~LLvG~~GsGr~sl-~rlaa~i~----~~~~~~i~~~k~y~~~~f~edLk~~~~~ag~~~~  505 (567)
                      ..+.|+|.      .|+|-.++.|++|+||++| ..+++..+    +..+.-|.........        -..+-|++-.
T Consensus        12 ~~LD~~LGg~~~GGl~~GiteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId~E~s~~~~--------ra~~lGvd~d   83 (333)
T 3io5_A           12 PMMNIALSGEITGGMQSGLLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYDSEFGITPA--------YLRSMGVDPE   83 (333)
T ss_dssp             HHHHHHHHSSTTCCBCSEEEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEESSCCCCHH--------HHHHTTCCGG
T ss_pred             HHHHHHhCCCCCCCCcCCeEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEeccchhhHH--------HHHHhCCCHH
Confidence            35678888      7889668999999999999 44555443    4566667655444431        1455577655


Q ss_pred             cEEEEEecCcccchhh-hHHhh-h--ccCCc--------cccCcchhHHHH
Q psy12736        506 ATVFLFTAAEIVEEGY-QVFTI-Q--LSRGY--------NEASFKEDLKSL  544 (567)
Q Consensus       506 ~~vfl~~d~qi~~e~f-le~in-l--L~~Ge--------vp~Lf~~eE~~~  544 (567)
                      .+. +...+.  .|.. ++.++ +  +.++.        |..||+.+|++.
T Consensus        84 ~ll-v~~~~~--~E~~~l~i~~~l~~i~~~~~~lvVIDSI~aL~~~~eieg  131 (333)
T 3io5_A           84 RVI-HTPVQS--LEQLRIDMVNQLDAIERGEKVVVFIDSLGNLASKKETED  131 (333)
T ss_dssp             GEE-EEECSB--HHHHHHHHHHHHHTCCTTCCEEEEEECSTTCBCC-----
T ss_pred             HeE-EEcCCC--HHHHHHHHHHHHHHhhccCceEEEEecccccccchhccC
Confidence            544 344432  3455 66666 5  66665        667886555543

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=89.36  E-value=0.12  Score=52.04  Aligned_cols=26  Identities=23%  Similarity=0.335  Sum_probs=22.0

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+.-+.++||+|+|||++++.+...+
T Consensus        99 ~g~vi~lvG~nGsGKTTll~~Lag~l  124 (302)
T 3b9q_A           99 KPAVIMIVGVNGGGKTTSLGKLAHRL  124 (302)
T ss_dssp             SCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            46678899999999999999876654

>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=89.35  E-value=0.12  Score=50.95  Aligned_cols=28  Identities=11%  Similarity=0.113  Sum_probs=24.1

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +..|.-++++||+|||||+++..++..+
T Consensus        27 l~~G~i~~i~G~~GsGKTtl~~~l~~~~   54 (279)
T 1nlf_A           27 MVAGTVGALVSPGGAGKSMLALQLAAQI   54 (279)
T ss_dssp             EETTSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             ccCCCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            3468899999999999999999987644

>2fz4_A DNA repair protein RAD25; RECA-like domain, DNA damage recognition domain, DNA binding; HET: DNA; 2.40A {Archaeoglobus fulgidus} SCOP: c.37.1.19

Probab=89.34  E-value=0.2  Score=48.20  Aligned_cols=31  Identities=26%  Similarity=0.227  Sum_probs=23.6

Q ss_pred             HHHHHhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        186 LSLMNEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       186 l~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +..+++ +..++++||||+|||.++...+...
T Consensus       102 i~~~~~-~~~~ll~~~tG~GKT~~a~~~~~~~  132 (237)
T 2fz4_A          102 LERWLV-DKRGCIVLPTGSGKTHVAMAAINEL  132 (237)
T ss_dssp             HHHHTT-TSEEEEEESSSTTHHHHHHHHHHHS
T ss_pred             HHHHHh-CCCEEEEeCCCCCHHHHHHHHHHHc
Confidence            334444 4569999999999999988777654

>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=89.34  E-value=0.76  Score=42.70  Aligned_cols=52  Identities=19%  Similarity=0.319  Sum_probs=36.3

Q ss_pred             HHHHHHh--cCCCce-EEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCChhhH
Q psy12736        438 RIHRALR--LSRGHC-MVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASF  489 (567)
Q Consensus       438 ri~RvL~--~p~Gh~-LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~~~~f  489 (567)
                      .+.+++.  .|.|.+ +++|++|+||+++++..|...+..+.-+....+.....+
T Consensus         8 ~LD~~l~Ggi~~G~~~~i~G~~GsGKTtl~~~l~~~~~~~v~~i~~~~~~~~~~~   62 (220)
T 2cvh_A            8 SLDSLLGGGFAPGVLTQVYGPYASGKTTLALQTGLLSGKKVAYVDTEGGFSPERL   62 (220)
T ss_dssp             HHHHHTTSSBCTTSEEEEECSTTSSHHHHHHHHHHHHCSEEEEEESSCCCCHHHH
T ss_pred             HHHHhhcCCCcCCEEEEEECCCCCCHHHHHHHHHHHcCCcEEEEECCCCCCHHHH
Confidence            3455564  566765 899999999999988777666677777765554444433

>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=89.32  E-value=0.13  Score=50.23  Aligned_cols=25  Identities=12%  Similarity=0.086  Sum_probs=21.5

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHh
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLR  215 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~  215 (567)
                      ..|.-+.++||+|+|||++++-+..
T Consensus        27 ~~Ge~~~l~G~nGsGKSTLlk~l~G   51 (250)
T 2d2e_A           27 PKGEVHALMGPNGAGKSTLGKILAG   51 (250)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHHT
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhC
Confidence            3588899999999999999987654

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=89.32  E-value=0.19  Score=46.69  Aligned_cols=24  Identities=25%  Similarity=0.523  Sum_probs=21.2

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|+++|++|+|||++++.++..-
T Consensus        10 ~ki~i~G~~~~GKTsli~~l~~~~   33 (212)
T 2j0v_A           10 IKCVTVGDGAVGKTCMLICYTSNK   33 (212)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCC
Confidence            468999999999999999998753

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=89.28  E-value=0.14  Score=47.14  Aligned_cols=25  Identities=24%  Similarity=0.519  Sum_probs=21.1

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ....|+++|++|+|||++++.++..
T Consensus        19 ~~~ki~~~G~~~~GKssl~~~l~~~   43 (201)
T 2q3h_A           19 RGVKCVLVGDGAVGKTSLVVSYTTN   43 (201)
T ss_dssp             -CEEEEEECSTTSSHHHHHHHHHC-
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhC
Confidence            4567999999999999999999864

>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=89.27  E-value=0.19  Score=46.75  Aligned_cols=26  Identities=27%  Similarity=0.534  Sum_probs=22.2

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ....|+++|++|+|||+++++++.+.
T Consensus        29 ~~~ki~vvG~~~~GKSsLi~~l~~~~   54 (204)
T 4gzl_A           29 QAIKCVVVGDGAVGKTCLLISYTTNA   54 (204)
T ss_dssp             -CEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             CeEEEEEECcCCCCHHHHHHHHHhCC
Confidence            45689999999999999999998653

>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=89.27  E-value=0.17  Score=46.97  Aligned_cols=25  Identities=28%  Similarity=0.495  Sum_probs=21.9

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ...|+++|++|+|||++++.++..-
T Consensus        25 ~~ki~vvG~~~~GKSsli~~l~~~~   49 (207)
T 2fv8_A           25 RKKLVVVGDGACGKTCLLIVFSKDE   49 (207)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSS
T ss_pred             CcEEEEECcCCCCHHHHHHHHhcCC
Confidence            4579999999999999999998753

>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=89.24  E-value=0.58  Score=47.21  Aligned_cols=66  Identities=17%  Similarity=0.206  Sum_probs=46.2

Q ss_pred             eEEeccCCCcHhHHHHHHHHHcCCeEEEE--------------------------------EecCCCChhhHHHHHHHHH
Q psy12736        450 CMVVGVEGGGKRSLVRLASFAAGYQVFTI--------------------------------QLSRGYNEASFKEDLKSLY  497 (567)
Q Consensus       450 ~LLvG~~GsGr~sl~rlaa~i~~~~~~~i--------------------------------~~~k~y~~~~f~edLk~~~  497 (567)
                      ++++|++||||++|++-.|--.+.++...                                ++...|+..+|.++.++++
T Consensus         6 i~i~GptgsGKt~la~~La~~~~~~iis~Ds~QvYr~~~igTakp~~~E~~gvphhlid~~~~~e~~s~~~F~~~a~~~i   85 (322)
T 3exa_A            6 VAIVGPTAVGKTKTSVMLAKRLNGEVISGDSMQVYRGMDIGTAKITAEEMDGVPHHLIDIKDPSESFSVADFQDLATPLI   85 (322)
T ss_dssp             EEEECCTTSCHHHHHHHHHHTTTEEEEECCGGGGBTTCCTTTTCCCHHHHTTCCEESSSCBCTTSCCCHHHHHHHHHHHH
T ss_pred             EEEECCCcCCHHHHHHHHHHhCccceeecCcccceeeeeecCCCCCHHHHcCCCEEEeccCChhhhccHHHHHHHHHHHH
Confidence            47899999999999876665555443321                                1235689999999999998


Q ss_pred             HHhccCCCcEEEEEecCcc
Q psy12736        498 NLLGVKNQATVFLFTAAEI  516 (567)
Q Consensus       498 ~~ag~~~~~~vfl~~d~qi  516 (567)
                      ...-..|+ +++++-.+.+
T Consensus        86 ~~i~~~gk-~pIlVGGTgl  103 (322)
T 3exa_A           86 TEIHERGR-LPFLVGGTGL  103 (322)
T ss_dssp             HHHHHTTC-EEEEESCCHH
T ss_pred             HHHHhCCC-cEEEEcCcHH
Confidence            87754554 5566666654

>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=89.23  E-value=0.13  Score=50.68  Aligned_cols=25  Identities=12%  Similarity=0.202  Sum_probs=21.4

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHh
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLR  215 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~  215 (567)
                      ..|.-+.++||+|+|||++++-+..
T Consensus        44 ~~Ge~~~l~G~NGsGKSTLlk~l~G   68 (267)
T 2zu0_C           44 HPGEVHAIMGPNGSGKSTLSATLAG   68 (267)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHT
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhC
Confidence            3588899999999999999987654

>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=89.21  E-value=0.2  Score=46.46  Aligned_cols=25  Identities=20%  Similarity=0.514  Sum_probs=21.5

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ....|+++|++|+|||++++.++..
T Consensus        19 ~~~~i~v~G~~~~GKSsli~~l~~~   43 (213)
T 3cph_A           19 SIMKILLIGDSGVGKSCLLVRFVED   43 (213)
T ss_dssp             -CEEEEEECSTTSSHHHHHHHHHHC
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhC
Confidence            3457999999999999999999864

>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=89.20  E-value=0.12  Score=47.05  Aligned_cols=24  Identities=13%  Similarity=0.217  Sum_probs=20.9

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ...|+++|++|+|||++++.+...
T Consensus        16 ~~ki~ivG~~~vGKSsL~~~l~~~   39 (181)
T 1fzq_A           16 EVRILLLGLDNAGKTTLLKQLASE   39 (181)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcC
Confidence            456999999999999999988754

>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=89.18  E-value=0.18  Score=47.08  Aligned_cols=24  Identities=21%  Similarity=0.408  Sum_probs=21.1

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|+++|++|+|||++++.++..-
T Consensus        26 ~ki~vvG~~~~GKSsLi~~l~~~~   49 (217)
T 2f7s_A           26 IKLLALGDSGVGKTTFLYRYTDNK   49 (217)
T ss_dssp             EEEEEESCTTSSHHHHHHHHHCSC
T ss_pred             EEEEEECcCCCCHHHHHHHHhcCC
Confidence            469999999999999999988653

>1hv8_A Putative ATP-dependent RNA helicase MJ0669; RNA-binding protein, ATPase, RNA binding protein; 3.00A {Methanocaldococcus jannaschii} SCOP: c.37.1.19 c.37.1.19

Probab=89.13  E-value=0.24  Score=49.89  Aligned_cols=32  Identities=22%  Similarity=0.193  Sum_probs=24.5

Q ss_pred             HHHHHHHhcCCCeEEeccCCCCchhhHHHHHh
Q psy12736        184 WILSLMNEIKRPCIVVGDTGTSKTATMMNFLR  215 (567)
Q Consensus       184 ~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~  215 (567)
                      ..+..++..++++++++|||||||......+.
T Consensus        35 ~~i~~~~~~~~~~l~~~~TGsGKT~~~~~~~~   66 (367)
T 1hv8_A           35 KVIPLFLNDEYNIVAQARTGSGKTASFAIPLI   66 (367)
T ss_dssp             HHHHHHHHTCSEEEEECCSSSSHHHHHHHHHH
T ss_pred             HHHHHHhCCCCCEEEECCCCChHHHHHHHHHH
Confidence            34566667778999999999999987655443

>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=89.13  E-value=0.11  Score=47.85  Aligned_cols=25  Identities=16%  Similarity=0.199  Sum_probs=21.4

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ....|+++|++|+|||+++++++..
T Consensus        28 ~~~ki~v~G~~~vGKSsLi~~l~~~   52 (192)
T 2b6h_A           28 KQMRILMVGLDAAGKTTILYKLKLG   52 (192)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHCSS
T ss_pred             CccEEEEECCCCCCHHHHHHHHHhC
Confidence            3567999999999999999998653

>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=89.10  E-value=0.17  Score=46.74  Aligned_cols=23  Identities=17%  Similarity=0.345  Sum_probs=20.2

Q ss_pred             CCeEEeccCCCCchhhHHHHHhc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ..|+++|++|+|||++++++...
T Consensus         7 ~kv~lvG~~~vGKSsL~~~~~~~   29 (192)
T 2cjw_A            7 YRVVLIGEQGVGKSTLANIFAGV   29 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            35899999999999999998853

>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=89.00  E-value=0.14  Score=48.47  Aligned_cols=24  Identities=25%  Similarity=0.329  Sum_probs=21.0

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ...|+++|++|+|||++++.++..
T Consensus        29 ~~kI~vvG~~~vGKSsLin~l~~~   52 (228)
T 2qu8_A           29 KKTIILSGAPNVGKSSFMNIVSRA   52 (228)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHTTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            456899999999999999998764

>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=89.00  E-value=0.12  Score=47.22  Aligned_cols=25  Identities=16%  Similarity=0.170  Sum_probs=21.8

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ...|+++|++|+|||++++.++...
T Consensus        21 ~~ki~v~G~~~~GKSsli~~l~~~~   45 (190)
T 2h57_A           21 EVHVLCLGLDNSGKTTIINKLKPSN   45 (190)
T ss_dssp             CEEEEEEECTTSSHHHHHHHTSCGG
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcCC
Confidence            4579999999999999999987653

>2gk6_A Regulator of nonsense transcripts 1; UPF1, helicase, NMD, hydrolase; HET: ADP; 2.40A {Homo sapiens} PDB: 2gjk_A* 2gk7_A 2xzo_A* 2xzp_A

Probab=88.99  E-value=0.28  Score=54.31  Aligned_cols=25  Identities=28%  Similarity=0.414  Sum_probs=21.4

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +..+++.||||||||+++...+..+
T Consensus       195 ~~~~li~GppGTGKT~~~~~~i~~l  219 (624)
T 2gk6_A          195 RPLSLIQGPPGTGKTVTSATIVYHL  219 (624)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCeEEECCCCCCHHHHHHHHHHHH
Confidence            5678999999999999998887654

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=88.95  E-value=0.13  Score=47.05  Aligned_cols=24  Identities=17%  Similarity=0.214  Sum_probs=21.2

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ...|+++|++|+|||+++++++..
T Consensus        17 ~~ki~v~G~~~~GKSsl~~~l~~~   40 (199)
T 4bas_A           17 KLQVVMCGLDNSGKTTIINQVKPA   40 (199)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHSCC
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcC
Confidence            457899999999999999998764

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=88.94  E-value=0.34  Score=43.49  Aligned_cols=29  Identities=21%  Similarity=0.386  Sum_probs=25.1

Q ss_pred             ceEEeccCCCcHhHHHHHHHHHcCCeEEE
Q psy12736        449 HCMVVGVEGGGKRSLVRLASFAAGYQVFT  477 (567)
Q Consensus       449 h~LLvG~~GsGr~sl~rlaa~i~~~~~~~  477 (567)
                      .+.|+|++||||+|++++.|-..+..++.
T Consensus         6 ~i~l~G~~GsGKSTl~~~La~~l~~~~id   34 (173)
T 1kag_A            6 NIFLVGPMGAGKSTIGRQLAQQLNMEFYD   34 (173)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHTTCEEEE
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCCEEe
Confidence            57899999999999999999888876554

>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=88.92  E-value=0.14  Score=50.80  Aligned_cols=28  Identities=11%  Similarity=0.044  Sum_probs=24.5

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +..|.-++++||+|+|||++++.+...+
T Consensus        32 l~~G~~~~i~G~~G~GKTTl~~~ia~~~   59 (296)
T 1cr0_A           32 ARGGEVIMVTSGSGMGKSTFVRQQALQW   59 (296)
T ss_dssp             BCTTCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCCCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            4578889999999999999999987764

>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=88.91  E-value=0.17  Score=50.28  Aligned_cols=23  Identities=17%  Similarity=0.303  Sum_probs=19.7

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      -++++|++|||||++.+.+...+
T Consensus         4 ~I~l~G~~GsGKST~a~~L~~~~   26 (301)
T 1ltq_A            4 IILTIGCPGSGKSTWAREFIAKN   26 (301)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHhC
Confidence            47899999999999998877643

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=88.82  E-value=0.17  Score=47.54  Aligned_cols=27  Identities=15%  Similarity=0.224  Sum_probs=22.8

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .-..+.++|++|+|||+++++++..+.
T Consensus        29 ~~~~i~i~G~~g~GKTTl~~~l~~~~~   55 (221)
T 2wsm_A           29 GTVAVNIMGAIGSGKTLLIERTIERIG   55 (221)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHHhc
Confidence            345688999999999999999988753

>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=88.79  E-value=0.16  Score=47.68  Aligned_cols=23  Identities=35%  Similarity=0.562  Sum_probs=20.2

Q ss_pred             CCeEEeccCCCCchhhHHHHHhc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ..|+++|++|+|||++++.++..
T Consensus        35 ~ki~vvG~~~vGKSsli~~l~~~   57 (214)
T 2j1l_A           35 VKVVLVGDGGCGKTSLLMVFADG   57 (214)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHC-
T ss_pred             EEEEEECcCCCCHHHHHHHHHcC
Confidence            56999999999999999998864

>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=88.78  E-value=0.15  Score=47.22  Aligned_cols=22  Identities=23%  Similarity=0.359  Sum_probs=19.5

Q ss_pred             CCeEEeccCCCCchhhHHHHHh
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLR  215 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~  215 (567)
                      ..|+++|++|+|||++++++..
T Consensus        24 ~ki~vvG~~~vGKSsLi~~l~~   45 (195)
T 3cbq_A           24 FKVMLVGESGVGKSTLAGTFGG   45 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHTCC
T ss_pred             EEEEEECCCCCCHHHHHHHHHh
Confidence            4689999999999999998864

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=88.77  E-value=0.16  Score=53.14  Aligned_cols=23  Identities=17%  Similarity=0.459  Sum_probs=0.0

Q ss_pred             eEEeccCCCCchhhHHHHHhccC
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ++++||||||||++...+...++
T Consensus         5 i~i~GptgsGKttla~~La~~~~   27 (409)
T 3eph_A            5 IVIAGTTGVGKSQLSIQLAQKFN   27 (409)
T ss_dssp             EEEEECSSSSHHHHHHHHHHHHT
T ss_pred             EEEECcchhhHHHHHHHHHHHCC

>1e9r_A Conjugal transfer protein TRWB; coupling protein, bacterial conjugation, F1-ATPase-like quaternary structure, ring helicases; 2.4A {Escherichia coli} SCOP: c.37.1.11 PDB: 1e9s_A 1gki_A* 1gl7_A* 1gl6_A*

Probab=88.77  E-value=0.14  Score=53.95  Aligned_cols=26  Identities=27%  Similarity=0.293  Sum_probs=22.4

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+.|++++|+||+|||++++.++.++
T Consensus        52 ~~~h~~i~G~tGsGKs~~~~~li~~~   77 (437)
T 1e9r_A           52 EPRHLLVNGATGTGKSVLLRELAYTG   77 (437)
T ss_dssp             GGGCEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CcceEEEECCCCCCHHHHHHHHHHHH
Confidence            46899999999999999988877654

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=88.76  E-value=0.2  Score=48.56  Aligned_cols=24  Identities=21%  Similarity=0.418  Sum_probs=19.6

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .-+-++||+|+|||++++-+..-+
T Consensus        25 e~~~liG~nGsGKSTLl~~l~Gl~   48 (240)
T 2onk_A           25 DYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEECCCCCCHHHHHHHHhCCC
Confidence            557799999999999998766543

>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=88.75  E-value=0.16  Score=48.97  Aligned_cols=29  Identities=28%  Similarity=0.270  Sum_probs=0.0

Q ss_pred             HHhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        189 MNEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       189 ll~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +......+.+.||+|||||++.+.+...+
T Consensus         5 m~~~~~~i~i~G~~GsGKsTla~~la~~l   33 (233)
T 3r20_A            5 MVSGSLVVAVDGPAGTGKSSVSRGLARAL   33 (233)
T ss_dssp             ----CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cCCCCeEEEEECCCCCCHHHHHHHHHHHh

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=88.72  E-value=0.14  Score=47.09  Aligned_cols=23  Identities=30%  Similarity=0.518  Sum_probs=19.9

Q ss_pred             CCeEEeccCCCCchhhHHHHHhc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ..|+++|++|+|||++++.++..
T Consensus        27 ~ki~vvG~~~~GKSsLi~~l~~~   49 (192)
T 2il1_A           27 LQVIIIGSRGVGKTSLMERFTDD   49 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHCC-
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            46999999999999999998754

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=88.70  E-value=0.1  Score=47.53  Aligned_cols=24  Identities=17%  Similarity=0.206  Sum_probs=21.2

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHh
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLR  215 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~  215 (567)
                      ....|+++|++|+|||++++.+..
T Consensus        21 ~~~~i~v~G~~~~GKssli~~l~~   44 (189)
T 2x77_A           21 RKIRVLMLGLDNAGKTSILYRLHL   44 (189)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTCC
T ss_pred             CceEEEEECCCCCCHHHHHHHHHc
Confidence            567899999999999999998754

>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=88.68  E-value=0.34  Score=43.70  Aligned_cols=29  Identities=17%  Similarity=0.313  Sum_probs=24.4

Q ss_pred             ceEEeccCCCcHhHHHHHHHHHcCCeEEE
Q psy12736        449 HCMVVGVEGGGKRSLVRLASFAAGYQVFT  477 (567)
Q Consensus       449 h~LLvG~~GsGr~sl~rlaa~i~~~~~~~  477 (567)
                      .+.|+|++||||+|+++..+-..|..++.
T Consensus        10 ~i~l~G~~GsGKSTl~~~l~~~~g~~~i~   38 (175)
T 1knq_A           10 IYVLMGVSGSGKSAVASEVAHQLHAAFLD   38 (175)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHTCEEEE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHhhCcEEEe
Confidence            56899999999999999888776776654

>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=88.63  E-value=0.2  Score=46.48  Aligned_cols=24  Identities=25%  Similarity=0.372  Sum_probs=21.1

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|+++|++|+|||+++++++..-
T Consensus        30 ~ki~vvG~~~vGKSsli~~l~~~~   53 (201)
T 2hup_A           30 FKLVLVGDASVGKTCVVQRFKTGA   53 (201)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHhhCC
Confidence            468999999999999999998653

>2xau_A PRE-mRNA-splicing factor ATP-dependent RNA helica; hydrolase, ribosome biogenesis, ATPase, ATP-binding, OB-fold; HET: ADP; 1.90A {Saccharomyces cerevisiae} PDB: 3kx2_B*

Probab=88.63  E-value=0.23  Score=56.57  Aligned_cols=31  Identities=23%  Similarity=0.375  Sum_probs=24.9

Q ss_pred             HHHHHHhcCCCeEEeccCCCCchhhHHHHHh
Q psy12736        185 ILSLMNEIKRPCIVVGDTGTSKTATMMNFLR  215 (567)
Q Consensus       185 ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~  215 (567)
                      -+-..+..+..++++||||||||+++..++.
T Consensus       101 ~i~~~l~~~~~vii~gpTGSGKTtllp~ll~  131 (773)
T 2xau_A          101 EFLKLYQNNQIMVFVGETGSGKTTQIPQFVL  131 (773)
T ss_dssp             HHHHHHHHCSEEEEECCTTSSHHHHHHHHHH
T ss_pred             HHHHHHhCCCeEEEECCCCCCHHHHHHHHHH
Confidence            3444566788999999999999998877754

>3iuy_A Probable ATP-dependent RNA helicase DDX53; REC-A-like, DEAD-BOX, structural genomics, structural genomi consortium, SGC, ATP-binding, hydrolase; HET: AMP; 2.40A {Homo sapiens}

Probab=88.60  E-value=0.19  Score=47.59  Aligned_cols=21  Identities=38%  Similarity=0.268  Sum_probs=17.8

Q ss_pred             HhcCCCeEEeccCCCCchhhH
Q psy12736        190 NEIKRPCIVVGDTGTSKTATM  210 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i  210 (567)
                      +..++++++++|||||||...
T Consensus        54 ~~~~~~~l~~apTGsGKT~~~   74 (228)
T 3iuy_A           54 ILQGIDLIVVAQTGTGKTLSY   74 (228)
T ss_dssp             HHTTCCEEEECCTTSCHHHHH
T ss_pred             HhCCCCEEEECCCCChHHHHH
Confidence            346899999999999999754

>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=88.60  E-value=0.2  Score=45.54  Aligned_cols=23  Identities=17%  Similarity=0.238  Sum_probs=18.8

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ...|+++|++|+|||+++ +++..
T Consensus        14 ~~ki~vvG~~~~GKssL~-~~l~~   36 (198)
T 3t1o_A           14 NFKIVYYGPGLSGKTTNL-KWIYS   36 (198)
T ss_dssp             EEEEEEECSTTSSHHHHH-HHHHH
T ss_pred             ccEEEEECCCCCCHHHHH-HHHHh
Confidence            346899999999999999 45543

>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=88.59  E-value=0.26  Score=49.76  Aligned_cols=22  Identities=23%  Similarity=0.360  Sum_probs=19.6

Q ss_pred             eEEeccCCCCchhhHHHHHhcc
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ++++|+.|+|||++++.++...
T Consensus         7 ~~i~G~~GaGKTTll~~l~~~~   28 (318)
T 1nij_A            7 TLLTGFLGAGKTTLLRHILNEQ   28 (318)
T ss_dssp             EEEEESSSSSCHHHHHHHHHSC
T ss_pred             EEEEecCCCCHHHHHHHHHhhc
Confidence            5789999999999999988764

>2pl3_A Probable ATP-dependent RNA helicase DDX10; DEAD, structural genomics, structural genomic consortium, SGC, hydrolase; HET: ADP; 2.15A {Homo sapiens}

Probab=88.56  E-value=0.19  Score=47.86  Aligned_cols=21  Identities=19%  Similarity=0.227  Sum_probs=17.9

Q ss_pred             HhcCCCeEEeccCCCCchhhH
Q psy12736        190 NEIKRPCIVVGDTGTSKTATM  210 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i  210 (567)
                      +.+++++++++|||||||...
T Consensus        59 ~~~~~~~li~a~TGsGKT~~~   79 (236)
T 2pl3_A           59 ALQGKDVLGAAKTGSGKTLAF   79 (236)
T ss_dssp             HHTTCCEEEECCTTSCHHHHH
T ss_pred             HhCCCCEEEEeCCCCcHHHHH
Confidence            346799999999999999864

>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=88.53  E-value=0.24  Score=46.51  Aligned_cols=25  Identities=24%  Similarity=0.355  Sum_probs=22.2

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ...|+++|++|+|||+++++++..-
T Consensus        27 ~~ki~vvG~~~vGKSsL~~~l~~~~   51 (214)
T 3q3j_B           27 RCKLVLVGDVQCGKTAMLQVLAKDC   51 (214)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcCC
Confidence            5679999999999999999998753

>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=88.47  E-value=0.18  Score=44.91  Aligned_cols=19  Identities=21%  Similarity=0.574  Sum_probs=16.8

Q ss_pred             eEEeccCCCCchhhHHHHH
Q psy12736        196 CIVVGDTGTSKTATMMNFL  214 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l  214 (567)
                      .+++||+|+|||+++..+.
T Consensus        26 ~~I~G~NGsGKStil~Ai~   44 (149)
T 1f2t_A           26 NLIIGQNGSGKSSLLDAIL   44 (149)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            6799999999999998853

>2ius_A DNA translocase FTSK; nucleotide-binding, chromosome partition, ATP-binding, DNA- binding, cell division, transmembrane, inner membrane; HET: DNA; 2.7A {Escherichia coli} PDB: 2j5p_A*

Probab=88.45  E-value=0.2  Score=54.14  Aligned_cols=26  Identities=19%  Similarity=0.300  Sum_probs=22.8

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+-|+|+.|+||||||++++.++.++
T Consensus       166 ~~pHlLIaG~TGSGKSt~L~~li~sL  191 (512)
T 2ius_A          166 KMPHLLVAGTTGSGASVGVNAMILSM  191 (512)
T ss_dssp             GSCSEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cCceEEEECCCCCCHHHHHHHHHHHH
Confidence            47899999999999999999987643

>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=88.40  E-value=0.17  Score=53.11  Aligned_cols=25  Identities=24%  Similarity=0.305  Sum_probs=21.2

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..-++++|++|||||++++.+...+
T Consensus       258 ~~lIil~G~pGSGKSTla~~L~~~~  282 (416)
T 3zvl_A          258 PEVVVAVGFPGAGKSTFIQEHLVSA  282 (416)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHTGGG
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhc
Confidence            4557889999999999999887764

>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=88.39  E-value=0.15  Score=49.02  Aligned_cols=27  Identities=19%  Similarity=0.249  Sum_probs=23.3

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .+.-+.+.|++|||||++++.+...+.
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~~l~   51 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYHRLV   51 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHh
Confidence            567789999999999999998887764

>2vhj_A Ntpase P4, P4; non- hydrolysable ATP analogue, hydrolase, virus dsRNA, molecular motor, packaging ATPase, hexameric helicase; HET: ADP; 1.80A {Pseudomonas phage PHI12} PDB: 2vhq_A* 1w44_A* 1w46_A* 1w47_A* 1w48_A* 1w49_A* 1w4a_A* 1w4b_A* 1w4c_A 2vht_A* 2vhu_A* 2vhc_A*

Probab=88.37  E-value=0.16  Score=51.53  Aligned_cols=24  Identities=21%  Similarity=0.227  Sum_probs=21.0

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      +.-+++.||||||||+++.++...
T Consensus       123 gsviLI~GpPGsGKTtLAlqlA~~  146 (331)
T 2vhj_A          123 SGMVIVTGKGNSGKTPLVHALGEA  146 (331)
T ss_dssp             SEEEEEECSCSSSHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHh
Confidence            455799999999999999998765

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=88.23  E-value=0.21  Score=47.03  Aligned_cols=22  Identities=27%  Similarity=0.699  Sum_probs=18.1

Q ss_pred             CeEEeccCCCCchhhHHHHHhc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      -.|++|++|||||+.+...+..
T Consensus         7 i~l~tG~pGsGKT~~a~~~~~~   28 (199)
T 2r2a_A            7 ICLITGTPGSGKTLKMVSMMAN   28 (199)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHH
Confidence            4689999999999998776543

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=88.21  E-value=0.28  Score=50.30  Aligned_cols=37  Identities=19%  Similarity=0.243  Sum_probs=0.0

Q ss_pred             hHHHHHHHHHhcCCC--eEEeccCCCCchhhHHHHHhcc
Q psy12736        181 KLTWILSLMNEIKRP--CIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       181 R~~~ll~~ll~~~~p--vLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +....++..+..|..  ++|+|++|+|||++.+.+...+
T Consensus        10 ~il~~l~~~i~~g~~~~i~l~G~~G~GKTTl~~~la~~l   48 (359)
T 2ga8_A           10 DVLQLLDNRIEDNYRVCVILVGSPGSGKSTIAEELCQII   48 (359)
T ss_dssp             HHHHHHHHTTTTCSCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccCCeeEEEEECCCCCcHHHHHHHHHHHh

>3b6e_A Interferon-induced helicase C domain-containing P; DECH, DEXD/H RNA-binding helicase, innate immunity, IFIH1, S genomics; 1.60A {Homo sapiens}

Probab=88.19  E-value=0.22  Score=46.25  Aligned_cols=24  Identities=21%  Similarity=0.238  Sum_probs=20.3

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHh
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLR  215 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~  215 (567)
                      .+++++++||||+|||.+....+.
T Consensus        47 ~~~~~li~~~tGsGKT~~~~~~~~   70 (216)
T 3b6e_A           47 EGKNIIICLPTGSGKTRVAVYIAK   70 (216)
T ss_dssp             TTCCEEEECSCHHHHHHHHHHHHH
T ss_pred             cCCCEEEEcCCCCCHHHHHHHHHH
Confidence            478999999999999998766554

>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=88.15  E-value=1.5  Score=43.55  Aligned_cols=21  Identities=19%  Similarity=0.113  Sum_probs=17.3

Q ss_pred             eEEeccCCCcHhHHHHHHHHH
Q psy12736        450 CMVVGVEGGGKRSLVRLASFA  470 (567)
Q Consensus       450 ~LLvG~~GsGr~sl~rlaa~i  470 (567)
                      +.++|++||||+|++++.+..
T Consensus        34 i~I~G~sGsGKSTla~~L~~~   54 (290)
T 1odf_A           34 IFFSGPQGSGKSFTSIQIYNH   54 (290)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            479999999999999866543

>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=88.14  E-value=0.2  Score=50.99  Aligned_cols=26  Identities=27%  Similarity=0.295  Sum_probs=21.8

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+.-+.++||+|+|||++++.+...+
T Consensus       128 ~g~vi~lvG~nGaGKTTll~~Lag~l  153 (328)
T 3e70_C          128 KPYVIMFVGFNGSGKTTTIAKLANWL  153 (328)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            45668999999999999999877654

>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=88.12  E-value=0.19  Score=51.71  Aligned_cols=27  Identities=15%  Similarity=0.191  Sum_probs=22.0

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|.-+-|+||+|||||++++-+..-.
T Consensus        28 ~~Ge~~~llGpsGsGKSTLLr~iaGl~   54 (359)
T 3fvq_A           28 DPGEILFIIGASGCGKTTLLRCLAGFE   54 (359)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             cCCCEEEEECCCCchHHHHHHHHhcCC
Confidence            357788899999999999998665543

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=88.12  E-value=0.17  Score=48.74  Aligned_cols=28  Identities=18%  Similarity=0.099  Sum_probs=21.7

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +..+.-+-++||+|||||++++.+...+
T Consensus        22 i~~g~iigI~G~~GsGKSTl~k~L~~~l   49 (245)
T 2jeo_A           22 SMRPFLIGVSGGTASGKSTVCEKIMELL   49 (245)
T ss_dssp             -CCSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            3455668899999999999998766544

>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=88.10  E-value=0.13  Score=51.30  Aligned_cols=27  Identities=33%  Similarity=0.434  Sum_probs=22.5

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|.-+.++||+|+|||++++-+..-+
T Consensus        62 ~~Ge~~~i~G~NGsGKSTLlk~l~Gl~   88 (290)
T 2bbs_A           62 ERGQLLAVAGSTGAGKTSLLMMIMGEL   88 (290)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            368889999999999999998765543

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=88.06  E-value=0.75  Score=42.36  Aligned_cols=80  Identities=11%  Similarity=0.180  Sum_probs=46.8

Q ss_pred             eEEeccCCCcHhHHH-HHHHHH--cCCeEEEEEecC--CCChhhH--H----------HHHHHHHHHhccCCCcEEEEEe
Q psy12736        450 CMVVGVEGGGKRSLV-RLASFA--AGYQVFTIQLSR--GYNEASF--K----------EDLKSLYNLLGVKNQATVFLFT  512 (567)
Q Consensus       450 ~LLvG~~GsGr~sl~-rlaa~i--~~~~~~~i~~~k--~y~~~~f--~----------edLk~~~~~ag~~~~~~vfl~~  512 (567)
                      .++.|+.|+||++++ +++...  .+.++.-+....  .|+....  +          .++..++..+  .+..-+++++
T Consensus         6 ~vi~G~~gsGKTT~ll~~~~~~~~~g~~v~~~~~~~d~r~~~~~i~s~~g~~~~~~~~~~~~~~~~~~--~~~~dvviID   83 (184)
T 2orw_A            6 TVITGPMYSGKTTELLSFVEIYKLGKKKVAVFKPKIDSRYHSTMIVSHSGNGVEAHVIERPEEMRKYI--EEDTRGVFID   83 (184)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHHHTTCEEEEEEEC-----CCCEECC----CEECEEESSGGGGGGGC--CTTEEEEEEC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeeccccccCcccEEecCCCceeeEEECCHHHHHHHh--cCCCCEEEEE
Confidence            479999999999996 776544  566654443221  1211000  0          0112222222  2356788899


Q ss_pred             cCcccchhhhHHhh-hccCC
Q psy12736        513 AAEIVEEGYQVFTI-QLSRG  531 (567)
Q Consensus       513 d~qi~~e~fle~in-lL~~G  531 (567)
                      +.|..++.+++.++ +...|
T Consensus        84 E~Q~~~~~~~~~l~~l~~~~  103 (184)
T 2orw_A           84 EVQFFNPSLFEVVKDLLDRG  103 (184)
T ss_dssp             CGGGSCTTHHHHHHHHHHTT
T ss_pred             CcccCCHHHHHHHHHHHHCC
Confidence            99998777888887 76653

>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=88.02  E-value=0.19  Score=48.66  Aligned_cols=24  Identities=42%  Similarity=0.529  Sum_probs=21.3

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ...|+++|++|+|||++++.++..
T Consensus        22 ~~~I~lvG~~g~GKStl~n~l~~~   45 (260)
T 2xtp_A           22 ELRIILVGKTGTGKSAAGNSILRK   45 (260)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHTS
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCC
Confidence            457999999999999999999864

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=88.02  E-value=0.25  Score=52.67  Aligned_cols=32  Identities=19%  Similarity=0.190  Sum_probs=26.6

Q ss_pred             HHHHHhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        186 LSLMNEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       186 l~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ++.-+..|.-+.++||+|||||++++-+..-.
T Consensus       131 vsl~i~~Ge~v~IvGpnGsGKSTLlr~L~Gl~  162 (460)
T 2npi_A          131 IRMSNFEGPRVVIVGGSQTGKTSLSRTLCSYA  162 (460)
T ss_dssp             HHHHSSSCCCEEEEESTTSSHHHHHHHHHHTT
T ss_pred             CceEeCCCCEEEEECCCCCCHHHHHHHHhCcc
Confidence            55556789999999999999999998766543

>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=88.00  E-value=0.18  Score=46.70  Aligned_cols=24  Identities=13%  Similarity=0.146  Sum_probs=20.7

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ...|+++|++|+|||++++.+...
T Consensus        25 ~~ki~lvG~~~vGKSsLi~~l~~~   48 (198)
T 1f6b_A           25 TGKLVFLGLDNAGKTTLLHMLKDD   48 (198)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHSCC
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcC
Confidence            456999999999999999988653

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=87.99  E-value=0.18  Score=48.12  Aligned_cols=25  Identities=28%  Similarity=0.413  Sum_probs=21.7

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .|.-+++.|+||+|||+++.+++.+
T Consensus        29 ~G~l~~i~G~pG~GKT~l~l~~~~~   53 (251)
T 2zts_A           29 EGTTVLLTGGTGTGKTTFAAQFIYK   53 (251)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHH
Confidence            4777999999999999999987654

>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=87.90  E-value=0.17  Score=47.64  Aligned_cols=23  Identities=17%  Similarity=0.313  Sum_probs=18.7

Q ss_pred             CCCeEEeccCCCCchhhHHHHHh
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLR  215 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~  215 (567)
                      +.-+.++|++|||||++.+.+-.
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            34588999999999998877643

>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=87.85  E-value=0.17  Score=52.03  Aligned_cols=30  Identities=7%  Similarity=0.188  Sum_probs=24.6

Q ss_pred             HHhc--CCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        189 MNEI--KRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       189 ll~~--~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      -+..  +..+.++||+|||||++++.+...+.
T Consensus       164 ~v~~~lg~k~~IvG~nGsGKSTLlk~L~gl~~  195 (365)
T 1lw7_A          164 EARPFFAKTVAILGGESSGKSVLVNKLAAVFN  195 (365)
T ss_dssp             TTGGGTCEEEEEECCTTSHHHHHHHHHHHHTT
T ss_pred             HHHHhhhCeEEEECCCCCCHHHHHHHHHHHhC
Confidence            3445  78899999999999999998776553

>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=87.85  E-value=0.15  Score=48.02  Aligned_cols=24  Identities=33%  Similarity=0.458  Sum_probs=20.5

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ...|+++|++|+|||++++.++..
T Consensus        15 ~~ki~v~G~~~~GKSsli~~~~~~   38 (221)
T 3gj0_A           15 QFKLVLVGDGGTGKTTFVKRHLTG   38 (221)
T ss_dssp             EEEEEEEECTTSSHHHHHTTBHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcC
Confidence            346899999999999999997654

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=87.83  E-value=0.38  Score=43.08  Aligned_cols=31  Identities=29%  Similarity=0.475  Sum_probs=27.0

Q ss_pred             CceEEeccCCCcHhHHHHHHHHHcCCeEEEE
Q psy12736        448 GHCMVVGVEGGGKRSLVRLASFAAGYQVFTI  478 (567)
Q Consensus       448 Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i  478 (567)
                      .+++|.|.+||||+|++++.|-..|+.++..
T Consensus         8 ~~i~l~G~~GsGKSTva~~La~~lg~~~id~   38 (168)
T 1zuh_A            8 QHLVLIGFMGSGKSSLAQELGLALKLEVLDT   38 (168)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhCCCEEEC
Confidence            4679999999999999999888778887764

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=87.76  E-value=0.13  Score=47.49  Aligned_cols=24  Identities=25%  Similarity=0.354  Sum_probs=5.5

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ...|+++|++|+|||++++.++..
T Consensus        20 ~~~i~v~G~~~~GKssli~~l~~~   43 (208)
T 2yc2_C           20 RCKVAVVGEATVGKSALISMFTSK   43 (208)
T ss_dssp             EEEEEEC-----------------
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            457999999999999999998865

>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=87.74  E-value=0.49  Score=42.89  Aligned_cols=31  Identities=19%  Similarity=0.363  Sum_probs=25.9

Q ss_pred             CceEEeccCCCcHhHHHHHHHHHcCCeEEEE
Q psy12736        448 GHCMVVGVEGGGKRSLVRLASFAAGYQVFTI  478 (567)
Q Consensus       448 Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i  478 (567)
                      ..++++|.+||||+++++..+...++.++..
T Consensus        12 ~~i~i~G~~GsGKst~~~~l~~~~~~~~~~~   42 (180)
T 3iij_A           12 PNILLTGTPGVGKTTLGKELASKSGLKYINV   42 (180)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHHhCCeEEEH
Confidence            4689999999999999998887777776654

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=87.74  E-value=0.2  Score=51.46  Aligned_cols=27  Identities=15%  Similarity=0.092  Sum_probs=22.2

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|.-+-|+||+|||||++++-+..-+
T Consensus        39 ~~Ge~~~llGpnGsGKSTLLr~iaGl~   65 (355)
T 1z47_A           39 REGEMVGLLGPSGSGKTTILRLIAGLE   65 (355)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            357888999999999999998765443

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=87.63  E-value=0.18  Score=49.55  Aligned_cols=27  Identities=22%  Similarity=0.332  Sum_probs=22.3

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +. |.-+.++||+|+|||++++-+..-+
T Consensus        28 i~-Ge~~~i~G~NGsGKSTLlk~l~Gl~   54 (263)
T 2pjz_A           28 VN-GEKVIILGPNGSGKTTLLRAISGLL   54 (263)
T ss_dssp             EC-SSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EC-CEEEEEECCCCCCHHHHHHHHhCCC
Confidence            45 7788999999999999998766544

>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=87.61  E-value=0.53  Score=42.38  Aligned_cols=31  Identities=16%  Similarity=0.154  Sum_probs=25.3

Q ss_pred             ceEEeccCCCcHhHHHHHHHHHcCCeEEEEE
Q psy12736        449 HCMVVGVEGGGKRSLVRLASFAAGYQVFTIQ  479 (567)
Q Consensus       449 h~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~  479 (567)
                      .++|+|++||||+|+++..+-..+..++.+.
T Consensus         5 ~i~l~G~~GsGKST~a~~La~~l~~~~~~~~   35 (178)
T 1qhx_A            5 MIILNGGSSAGKSGIVRCLQSVLPEPWLAFG   35 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHSSSCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCCCeEEec
Confidence            4689999999999999988887776666543

>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=87.58  E-value=0.4  Score=42.71  Aligned_cols=30  Identities=13%  Similarity=0.048  Sum_probs=24.7

Q ss_pred             ceEEeccCCCcHhHHHHHHHHHcCCeEEEE
Q psy12736        449 HCMVVGVEGGGKRSLVRLASFAAGYQVFTI  478 (567)
Q Consensus       449 h~LLvG~~GsGr~sl~rlaa~i~~~~~~~i  478 (567)
                      .++|.|++||||+|+++..+-..++.++..
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~~~l~~~~i~~   32 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLSKELKYPIIKG   32 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHHCCCEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeeecC
Confidence            368999999999999998887777776543

>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin nucleotide-binding; 2.30A {Sulfolobus solfataricus}

Probab=87.51  E-value=0.26  Score=55.35  Aligned_cols=30  Identities=13%  Similarity=-0.045  Sum_probs=23.5

Q ss_pred             HHHHHHhcCCCeEEeccCCCCchhhHHHHH
Q psy12736        185 ILSLMNEIKRPCIVVGDTGTSKTATMMNFL  214 (567)
Q Consensus       185 ll~~ll~~~~pvLl~GptGtGKT~~i~~~l  214 (567)
                      .+..++..+++++++||||||||+.+...+
T Consensus        38 ~i~~~~~~~~~~lv~apTGsGKT~~~~l~i   67 (715)
T 2va8_A           38 AVKKGLLEGNRLLLTSPTGSGKTLIAEMGI   67 (715)
T ss_dssp             HHHTTTTTTCCEEEECCTTSCHHHHHHHHH
T ss_pred             HHHHHhcCCCcEEEEcCCCCcHHHHHHHHH
Confidence            344445569999999999999999885543

>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=87.44  E-value=0.22  Score=51.68  Aligned_cols=28  Identities=14%  Similarity=0.145  Sum_probs=22.5

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ..|.-+-|+||+|||||++++-+..-.+
T Consensus        27 ~~Ge~~~llGpsGsGKSTLLr~iaGl~~   54 (381)
T 3rlf_A           27 HEGEFVVFVGPSGCGKSTLLRMIAGLET   54 (381)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             CCCCEEEEEcCCCchHHHHHHHHHcCCC
Confidence            3577888999999999999987665443

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=87.44  E-value=0.27  Score=48.19  Aligned_cols=26  Identities=23%  Similarity=0.242  Sum_probs=22.6

Q ss_pred             cCCCceEEeccCCCcHhHHHHHHHHH
Q psy12736        445 LSRGHCMVVGVEGGGKRSLVRLASFA  470 (567)
Q Consensus       445 ~p~Gh~LLvG~~GsGr~sl~rlaa~i  470 (567)
                      .|+|.++++|++||||+|+.++.+-.
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            67888899999999999999887654

>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=87.44  E-value=0.23  Score=46.91  Aligned_cols=22  Identities=18%  Similarity=0.376  Sum_probs=19.8

Q ss_pred             CCeEEeccCCCCchhhHHHHHh
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLR  215 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~  215 (567)
                      ..|+++|++|+|||++++++..
T Consensus        38 ~kVvlvG~~~vGKSSLl~r~~~   59 (211)
T 2g3y_A           38 YRVVLIGEQGVGKSTLANIFAG   59 (211)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHh
Confidence            4589999999999999999874

>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=87.42  E-value=0.21  Score=50.10  Aligned_cols=24  Identities=21%  Similarity=0.430  Sum_probs=19.6

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ...|.++||+|+|||++++.++..
T Consensus        18 ~~~I~lvG~nG~GKSTLl~~L~g~   41 (301)
T 2qnr_A           18 EFTLMVVGESGLGKSTLINSLFLT   41 (301)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHHC-
T ss_pred             CEEEEEECCCCCCHHHHHHHHhCC
Confidence            345699999999999999997653

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=87.40  E-value=0.17  Score=49.77  Aligned_cols=23  Identities=22%  Similarity=0.431  Sum_probs=20.0

Q ss_pred             CCeEEeccCCCCchhhHHHHHhc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ..|+++|++|+|||++++.++..
T Consensus         9 ~~I~vvG~~g~GKSTLin~L~~~   31 (274)
T 3t5d_A            9 FTLMVVGESGLGKSTLINSLFLT   31 (274)
T ss_dssp             EEEEEEECTTSSHHHHHHHHSSS
T ss_pred             EEEEEECCCCCCHHHHHHHHhCC
Confidence            46999999999999999987643

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=87.40  E-value=0.23  Score=50.95  Aligned_cols=39  Identities=15%  Similarity=0.078  Sum_probs=29.4

Q ss_pred             hhHHHHHHHHHhcCCCeEEeccCCCCchhhHHHHHhccCC
Q psy12736        180 TKLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       180 vR~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      ++....+ .=+..|.-+.|+||+|+|||++++.+......
T Consensus        59 ~~ald~l-l~i~~Gq~~gIiG~nGaGKTTLl~~I~g~~~~   97 (347)
T 2obl_A           59 VRAIDGL-LTCGIGQRIGIFAGSGVGKSTLLGMICNGASA   97 (347)
T ss_dssp             CHHHHHH-SCEETTCEEEEEECTTSSHHHHHHHHHHHSCC
T ss_pred             CEEEEee-eeecCCCEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            3433333 33567999999999999999999888877544

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=87.36  E-value=0.18  Score=51.90  Aligned_cols=26  Identities=23%  Similarity=0.335  Sum_probs=22.0

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+.-+.++||+|+|||++++.+...+
T Consensus       156 ~g~vi~lvG~nGsGKTTll~~Lag~l  181 (359)
T 2og2_A          156 KPAVIMIVGVNGGGKTTSLGKLAHRL  181 (359)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHhhc
Confidence            46678999999999999999876654

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=87.35  E-value=0.23  Score=51.29  Aligned_cols=26  Identities=12%  Similarity=0.176  Sum_probs=21.6

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .|.-+-|+||+|||||++++-+..-.
T Consensus        28 ~Ge~~~llGpnGsGKSTLLr~iaGl~   53 (362)
T 2it1_A           28 DGEFMALLGPSGSGKSTLLYTIAGIY   53 (362)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCchHHHHHHHHhcCC
Confidence            57788899999999999998765543

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=87.34  E-value=0.29  Score=46.08  Aligned_cols=24  Identities=21%  Similarity=0.476  Sum_probs=21.2

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|+++|++|+|||++++.++..-
T Consensus        14 ~ki~v~G~~~vGKSsli~~l~~~~   37 (223)
T 3cpj_B           14 FKIVLIGDSGVGKSNLLSRFTKNE   37 (223)
T ss_dssp             EEEEEESCTTSSHHHHHHHHHHCC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCC
Confidence            468999999999999999998753

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=87.34  E-value=0.45  Score=42.92  Aligned_cols=30  Identities=20%  Similarity=0.327  Sum_probs=26.0

Q ss_pred             ceEEeccCCCcHhHHHHHHHHHcCCeEEEE
Q psy12736        449 HCMVVGVEGGGKRSLVRLASFAAGYQVFTI  478 (567)
Q Consensus       449 h~LLvG~~GsGr~sl~rlaa~i~~~~~~~i  478 (567)
                      .++|+|++||||+|+++..|-..++.++..
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~l~~~~~d~   35 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKDLDLVFLDS   35 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHTCEEEEH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHcCCCEEcc
Confidence            588999999999999999888888877654

>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=87.34  E-value=0.37  Score=49.56  Aligned_cols=38  Identities=24%  Similarity=0.322  Sum_probs=28.1

Q ss_pred             HHhcCCCceEEeccCCCcHhHHHHHHHH-Hc---CCeEEEEE
Q psy12736        442 ALRLSRGHCMVVGVEGGGKRSLVRLASF-AA---GYQVFTIQ  479 (567)
Q Consensus       442 vL~~p~Gh~LLvG~~GsGr~sl~rlaa~-i~---~~~~~~i~  479 (567)
                      ++..|+|.++++|++||||+|+.+..+- +.   +..+..++
T Consensus       118 l~~~~~g~i~I~GptGSGKTTlL~~l~g~~~~~~~~~i~t~e  159 (356)
T 3jvv_A          118 VSDVPRGLVLVTGPTGSGKSTTLAAMLDYLNNTKYHHILTIE  159 (356)
T ss_dssp             HHHCSSEEEEEECSTTSCHHHHHHHHHHHHHHHCCCEEEEEE
T ss_pred             HHhCCCCEEEEECCCCCCHHHHHHHHHhcccCCCCcEEEEcc
Confidence            3567899999999999999999996644 32   34455443

>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=87.34  E-value=0.22  Score=48.77  Aligned_cols=23  Identities=17%  Similarity=0.281  Sum_probs=20.2

Q ss_pred             CCeEEeccCCCCchhhHHHHHhc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ..|.++|++|+|||++++.+...
T Consensus         4 ~~i~lvG~~g~GKTTL~n~l~g~   26 (271)
T 3k53_A            4 KTVALVGNPNVGKTTIFNALTGL   26 (271)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHhCC
Confidence            46899999999999999998764

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=87.29  E-value=0.24  Score=45.81  Aligned_cols=25  Identities=16%  Similarity=0.379  Sum_probs=20.6

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ++-.+++||+|+|||+++.+.+.+.
T Consensus         3 g~i~vi~G~~gsGKTT~ll~~~~~~   27 (184)
T 2orw_A            3 GKLTVITGPMYSGKTTELLSFVEIY   27 (184)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHH
Confidence            4557899999999999997777654

>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=87.26  E-value=0.22  Score=49.81  Aligned_cols=26  Identities=23%  Similarity=0.342  Sum_probs=22.4

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+.-++++||+|+|||+++..+...+
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~~l  129 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAAIS  129 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            46778999999999999999887655

>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=87.23  E-value=0.23  Score=51.13  Aligned_cols=26  Identities=19%  Similarity=0.240  Sum_probs=21.5

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .|.-+-|+||+|||||++++-+..-.
T Consensus        28 ~Ge~~~llGpnGsGKSTLLr~iaGl~   53 (359)
T 2yyz_A           28 DGEFVALLGPSGCGKTTTLLMLAGIY   53 (359)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEEcCCCchHHHHHHHHHCCC
Confidence            57778899999999999998765543

>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=87.21  E-value=0.22  Score=49.62  Aligned_cols=37  Identities=22%  Similarity=0.375  Sum_probs=26.0

Q ss_pred             hHHHHHHHHHh-----cCCC--eEEeccCCCCchhhHHHHHhcc
Q psy12736        181 KLTWILSLMNE-----IKRP--CIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       181 R~~~ll~~ll~-----~~~p--vLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ...++++.+..     .++|  +.++||+|||||++++.+...+
T Consensus        12 ~~~~l~~~i~~~~~~~~~~~~ii~I~G~sGsGKSTla~~L~~~l   55 (290)
T 1odf_A           12 TIEFLDKYIPEWFETGNKCPLFIFFSGPQGSGKSFTSIQIYNHL   55 (290)
T ss_dssp             HHHHHHHHHHHHHTTTCCSCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhccCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            45556665554     2333  5689999999999998776655

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	567
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	97.81
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	97.51
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	97.4
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	97.39
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.3
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	97.22
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	97.17
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	97.11
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	97.1
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.07
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	97.06
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	97.03
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	96.95
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	96.93
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	96.86
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	96.83
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	96.74
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	96.72
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	96.72
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	96.71
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	96.7
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	96.66
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	96.66
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	96.65
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	96.6
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.57
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	96.54
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	96.48
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	96.48
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	96.47
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	96.47
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.41
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	96.38
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	96.35
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	96.34
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	96.33
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	96.24
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	96.19
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	96.17
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	96.11
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	96.06
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.05
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	96.04
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	96.02
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	95.99
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	95.96
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	95.88
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	95.87
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	95.8
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	95.74
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	95.65
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	95.61
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	95.6
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	95.6
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	95.58
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	95.56
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	95.47
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	95.47
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	95.47
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	95.41
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	95.39
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	95.38
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	95.38
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	95.34
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	95.19
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	95.13
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	94.96
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	94.95
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	94.94
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	94.85
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	94.84
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	94.66
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	94.65
d2qy9a2	211	GTPase domain of the signal recognition particle r	94.59
d1vmaa2	213	GTPase domain of the signal recognition particle r	94.52
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	94.49
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	94.46
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	94.45
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	94.44
d1okkd2	207	GTPase domain of the signal recognition particle r	94.41
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	94.31
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	94.21
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	94.18
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	94.13
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	94.13
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	94.09
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	94.09
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	94.08
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	94.07
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	94.06
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	94.02
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	94.0
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	93.97
d2fh5b1	207	Signal recognition particle receptor beta-subunit	93.95
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	93.95
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	93.93
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	93.89
d1j8yf2	211	GTPase domain of the signal sequence recognition p	93.89
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	93.89
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	93.88
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	93.86
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	93.85
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	93.79
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	93.74
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	93.74
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	93.73
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	93.67
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	93.64
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	93.59
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	93.58
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	93.58
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	93.55
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	93.52
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	93.49
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	93.47
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	93.46
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	93.46
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	93.46
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	93.41
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	93.4
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	93.38
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	93.37
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	93.37
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	93.34
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	93.34
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	93.33
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	93.3
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	93.3
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	93.29
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	93.24
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	93.24
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	93.23
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	93.17
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	93.15
d1ls1a2	207	GTPase domain of the signal sequence recognition p	93.12
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	93.09
d2qy9a2	211	GTPase domain of the signal recognition particle r	93.03
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	93.03
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	93.01
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	92.97
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	92.96
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	92.95
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	92.9
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	92.89
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	92.88
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	92.88
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	92.87
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	92.85
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	92.84
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	92.81
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	92.77
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	92.69
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	92.69
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	92.65
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	92.6
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	92.6
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	92.58
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	92.52
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	92.51
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	92.43
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	92.38
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	92.37
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	92.36
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	92.33
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	92.32
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	92.32
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	92.32
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	92.3
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	92.27
d1nrjb_	209	Signal recognition particle receptor beta-subunit	92.21
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	92.21
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	92.2
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	92.2
d1j8yf2	211	GTPase domain of the signal sequence recognition p	92.08
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	92.0
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	91.96
d1okkd2	207	GTPase domain of the signal recognition particle r	91.95
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	91.92
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	91.91
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	91.86
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	91.83
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	91.81
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	91.79
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	91.76
d1vmaa2	213	GTPase domain of the signal recognition particle r	91.71
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	91.67
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	91.62
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	91.61
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	91.59
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	91.48
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	91.22
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	91.21
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	91.19
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	91.18
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	91.1
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	91.1
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	91.08
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	91.04
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	91.04
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	91.03
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	90.98
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	90.95
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	90.94
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	90.92
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	90.92
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	90.88
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	90.84
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	90.77
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	90.73
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	90.53
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	90.52
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	90.51
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	90.5
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	90.45
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	90.42
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	90.42
d2awna2	232	Maltose transport protein MalK, N-terminal domain	90.42
d1tuea_	205	Replication protein E1 helicase domain {Human papi	90.37
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	90.35
d1g2912	240	Maltose transport protein MalK, N-terminal domain	90.23
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	90.2
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	90.2
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	90.14
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	90.12
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	90.09
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	90.04
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	90.01
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	89.96
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	89.68
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	89.62
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	89.53
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	89.52
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	89.46
d1ls1a2	207	GTPase domain of the signal sequence recognition p	89.41
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	89.34
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	89.32
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	89.27
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	89.18
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	89.17
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	89.16
d2bmfa2	305	Dengue virus helicase {Dengue virus type 2 [TaxId:	89.06
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	89.03
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	88.92
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	88.91
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	88.75
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	88.69
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	88.53
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	88.47
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	88.43
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	88.41
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	88.33
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	88.26
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	88.17
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	88.16
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	88.15
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	88.07
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	88.03
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	87.79
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	87.62
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	87.59
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	87.58
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	87.57
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	87.42
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	87.32
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	87.1
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	86.94
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	86.87
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	86.82
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	86.8
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	86.75
d1q0ua_	209	Probable DEAD box RNA helicase YqfR {Bacillus stea	86.57
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	86.56
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	86.46
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	86.44
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	86.19
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	86.17
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	85.96
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	85.96
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	85.92
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	85.65
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	85.48
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	85.25
d1oywa2	206	RecQ helicase domain {Escherichia coli [TaxId: 562	85.12
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	85.02
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	84.94
d1t6na_	207	Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo	84.85
d1veca_	206	DEAD box RNA helicase rck/p54 {Human (Homo sapiens	84.79
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	84.7
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	84.63
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	84.63
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	84.39
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	84.33
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	84.32
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	83.27
d1qdea_	212	Initiation factor 4a {Baker's yeast (Saccharomyces	83.02
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	82.58
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	82.53
d2g9na1	218	Initiation factor 4a {Human (Homo sapiens) [TaxId:	82.47
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	82.39
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	82.31
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	82.11
d1hv8a1	208	Putative DEAD box RNA helicase {Archaeon Methanoco	82.07
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	81.87
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	81.87
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	81.66
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	81.6
d2j0sa1	222	Probable ATP-dependent RNA helicase DDX48 {Human (	81.56
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	81.5
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	81.4
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	81.37
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	81.06
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	80.92
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	80.85
d1s2ma1	206	Putative ATP-dependent RNA helicase DHH1 {Baker's	80.49
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	80.45
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	80.44
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	80.43
d1wrba1	238	putative ATP-dependent RNA helicase VlgB {Flatworm	80.33
d1xpua3	289	Transcription termination factor Rho, ATPase domai	80.16
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	80.01
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	80.01
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	80.01

>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=97.81  E-value=3.1e-05  Score=73.83  Aligned_cols=68  Identities=15%  Similarity=0.235  Sum_probs=53.8

Q ss_pred             CCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecC---CCChhhHHHHHHHHHHHhccCCCcEEEEEecC
Q psy12736        446 SRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSR---GYNEASFKEDLKSLYNLLGVKNQATVFLFTAA  514 (567)
Q Consensus       446 p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k---~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~  514 (567)
                      |.+++||.|++|+||+++++..|.-.+..++.+..+.   +|....-...+++++..| .++.|.|++++|-
T Consensus        39 p~~~vLL~GppGtGKT~la~alA~~~~~~~~~i~~~~~~~g~~~~~~~~~i~~if~~A-~~~~p~il~iDEi  109 (246)
T d1d2na_          39 PLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAKCQAMKKIFDDA-YKSQLSCVVVDDI  109 (246)
T ss_dssp             SEEEEEEECSTTSSHHHHHHHHHHHHTCSEEEEECGGGCTTCCHHHHHHHHHHHHHHH-HTSSEEEEEECCH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHhhcccccccccccccccccccccchhhhhhhhhhhh-hhcccceeehhhh
Confidence            5567999999999999999999999999999997543   334333345688888887 4677888888874

>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=97.51  E-value=8.9e-05  Score=69.01  Aligned_cols=112  Identities=16%  Similarity=0.151  Sum_probs=67.7

Q ss_pred             eCcccccceeecCCCCCccccccCcchhhHHHHHHHHHhcCC--CeEEeccCCCCchhhHHHHHhccCCCc----ceeee
Q psy12736        153 PWRHLVRSYVHDGDKSFGDILVPTTDSTKLTWILSLMNEIKR--PCIVVGDTGTSKTATMMNFLRSLSPDK----YLVIA  226 (567)
Q Consensus       153 ~W~~~v~~~~~~~~~~~~~i~VpT~dtvR~~~ll~~ll~~~~--pvLl~GptGtGKT~~i~~~l~~l~~~~----~~~~~  226 (567)
                      ||.+...+      ..+.|++.+. + +  ...+..+++++.  |+||.||+|||||++++-+.+.+....    ...++
T Consensus         4 pw~eKyrP------~~~~d~ig~~-~-~--~~~L~~~~~~~~~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n   73 (224)
T d1sxjb2           4 PWVEKYRP------QVLSDIVGNK-E-T--IDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELN   73 (224)
T ss_dssp             CHHHHTCC------SSGGGCCSCT-H-H--HHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEEC
T ss_pred             chHhHhCC------CCHHHhcCCH-H-H--HHHHHHHHHcCCCCeEEEECCCCCCchhhHHHHHHHHhcccccccccccc
Confidence            57765322      2456666553 1 1  223455666553  799999999999999988876653221    11111


Q ss_pred             ------------------c---CCCCCceEEEEe-ec----------------------------cchh----hhhhccc
Q psy12736        227 ------------------E---LPPTPAKFHYIF-NL----------------------------RDLS----RIIQGLT  252 (567)
Q Consensus       227 ------------------e---gPp~gkk~v~iF-Nl----------------------------~D~~----R~~rg~f  252 (567)
                                        +   ....+++.++++ ++                            .+..    .+.+ ++
T Consensus        74 ~~~~~~~~~i~~~~~~~~~~~~~~~~~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~~l~s-r~  152 (224)
T d1sxjb2          74 ASDDRGIDVVRNQIKHFAQKKLHLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQS-QC  152 (224)
T ss_dssp             TTSCCSHHHHHTHHHHHHHBCCCCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHT-TS
T ss_pred             ccccCCceehhhHHHHHHHhhccCCCcceEEEEEecccccchhHHHHHhhhccccccceeeeeccCchhhhhhHHHH-HH
Confidence                              0   333344334244 10                            0111    4555 88


Q ss_pred             cccccccCCHHHHHHHHHHhhhh
Q psy12736        253 ATEKIIFNTKEMFVRAWRNEFTR  275 (567)
Q Consensus       253 ~~~~~~~~s~~sl~~I~~~il~~  275 (567)
                      ..+.++.|+.+.+..+...++..
T Consensus       153 ~~i~~~~~~~~~i~~~l~~i~~~  175 (224)
T d1sxjb2         153 AILRYSKLSDEDVLKRLLQIIKL  175 (224)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHHH
T ss_pred             HHhhhcccchhhhHHHHHHHHHh
Confidence            88999999999999988887763

>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=97.40  E-value=0.00043  Score=62.99  Aligned_cols=123  Identities=20%  Similarity=0.297  Sum_probs=83.3

Q ss_pred             CcceEEecHHHHHHHHHHHHHHhc-CCCceEEeccCCCcHhHHHHHHHH----------HcCCeEEEEEecC---CCC-h
Q psy12736        422 ARLDLVLFEDAREHLTRIHRALRL-SRGHCMVVGVEGGGKRSLVRLASF----------AAGYQVFTIQLSR---GYN-E  486 (567)
Q Consensus       422 ~~~~lvlf~dai~hi~ri~RvL~~-p~Gh~LLvG~~GsGr~sl~rlaa~----------i~~~~~~~i~~~k---~y~-~  486 (567)
                      .+++-++=.|.  -|.++..+|.. ...|++|||.+|+||+++++-.|.          +.+..++++++++   +++ .
T Consensus        19 g~ld~~igRd~--Ei~~l~~iL~r~~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~~LiAg~~~r   96 (195)
T d1jbka_          19 GKLDPVIGRDE--EIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYR   96 (195)
T ss_dssp             TCSCCCCSCHH--HHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHTTTCSH
T ss_pred             CCCCCCcCcHH--HHHHHHHHHhccCCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHHHHhccCCcc
Confidence            44444444333  25566777876 567999999999999999875554          4578899997553   333 4


Q ss_pred             hhHHHHHHHHHHHhccCCCcEEEEEecCccc-ch-------hhhHHhh-hccCCccccC--cchhHHHHHH
Q psy12736        487 ASFKEDLKSLYNLLGVKNQATVFLFTAAEIV-EE-------GYQVFTI-QLSRGYNEAS--FKEDLKSLYN  546 (567)
Q Consensus       487 ~~f~edLk~~~~~ag~~~~~~vfl~~d~qi~-~e-------~fle~in-lL~~Gevp~L--f~~eE~~~i~  546 (567)
                      .+|.+-++.++..+...+..+++.++|-+-. ..       ..-..+- .|..|++.-+  =++||+.++.
T Consensus        97 G~~E~rl~~il~e~~~~~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~rg~l~~IgatT~eey~~~~  167 (195)
T d1jbka_          97 GEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALARGELHCVGATTLDEYRQYI  167 (195)
T ss_dssp             HHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHHTTSCCEEEEECHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHhcCCCcEEEEcchHHHHhcCCCCCCcccHHHHHHHHHhCCCceEEecCCHHHHHHHH
Confidence            5899999999988755556778777764333 11       1223444 6789998755  4568887764

>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=97.39  E-value=0.00016  Score=68.82  Aligned_cols=64  Identities=17%  Similarity=0.205  Sum_probs=51.4

Q ss_pred             CceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecC----CCChhhHHHHHHHHHHHhccCCCcEEEEEecC
Q psy12736        448 GHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSR----GYNEASFKEDLKSLYNLLGVKNQATVFLFTAA  514 (567)
Q Consensus       448 Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k----~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~  514 (567)
                      -++||.|++|+||+++++..|.-.+++++.++.+.    .++..  ...|++++..|. .+.|+|++++|-
T Consensus        43 ~giLl~GppGtGKT~la~aia~~~~~~~~~i~~~~l~~~~~g~~--~~~l~~~f~~a~-~~~p~Ii~iDei  110 (247)
T d1ixza_          43 KGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVG--AARVRDLFETAK-RHAPCIVFIDEI  110 (247)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHHSCTTHH--HHHHHHHHHHHT-TSSSEEEEEETH
T ss_pred             ceEEEecCCCCChhHHHHHHHHHcCCCEEEEEhHHhhhccccHH--HHHHHHHHHHHH-HcCCEEEEEECh
Confidence            45899999999999999999999999999997543    23332  356888888885 568999988764

>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=97.30  E-value=8.7e-05  Score=71.36  Aligned_cols=36  Identities=22%  Similarity=0.350  Sum_probs=28.7

Q ss_pred             HHHHHHHHHh-cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        182 LTWILSLMNE-IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       182 ~~~ll~~ll~-~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ...++..|.. .+.|+||+||+|+|||+++..+.+.+
T Consensus        27 i~~l~~iL~r~~k~n~lLVG~~GvGKTalv~~la~ri   63 (268)
T d1r6bx2          27 LERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRI   63 (268)
T ss_dssp             HHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCccCCcEEECCCCCcHHHHHHHHHHHH
Confidence            4566777764 55789999999999999999987653

>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=97.22  E-value=0.0012  Score=61.50  Aligned_cols=84  Identities=11%  Similarity=0.140  Sum_probs=55.7

Q ss_pred             cCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCChhhHHHHHHHHHHHhccCCCcEEEEEecCcccchhhhHH
Q psy12736        445 LSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEGYQVF  524 (567)
Q Consensus       445 ~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~qi~~e~fle~  524 (567)
                      .+..|+||.|++|+||++++|+.|.-.++++..+.-+.....    .|++.++...+   +..+.++++.+-.....-+.
T Consensus        33 ~~~~~~L~~GPpGtGKT~lA~~la~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~---~~~~~~ide~~~~~~~~~~~  105 (238)
T d1in4a2          33 EVLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLVKQ----GDMAAILTSLE---RGDVLFIDEIHRLNKAVEEL  105 (238)
T ss_dssp             CCCCCEEEESSTTSSHHHHHHHHHHHHTCCEEEEETTTCCSH----HHHHHHHHHCC---TTCEEEEETGGGCCHHHHHH
T ss_pred             CCCCeEEEECCCCCcHHHHHHHHHhccCCCcccccCcccccH----HHHHHHHHhhc---cCCchHHHHHHHhhhHHHhh
Confidence            345699999999999999999999999999887764433333    46677666543   34555666554444433344


Q ss_pred             hh-hccCCcccc
Q psy12736        525 TI-QLSRGYNEA  535 (567)
Q Consensus       525 in-lL~~Gevp~  535 (567)
                      +. .+..|.+-.
T Consensus       106 l~~~~~~~~~~~  117 (238)
T d1in4a2         106 LYSAIEDFQIDI  117 (238)
T ss_dssp             HHHHHHTSCCCC
T ss_pred             cccceeeeeeee
Confidence            44 555555443

>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=97.17  E-value=0.00041  Score=65.17  Aligned_cols=25  Identities=24%  Similarity=0.375  Sum_probs=22.4

Q ss_pred             CCeEEeccCCCCchhhHHHHHhccC
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .++||+||+|||||++++.+.+.+.
T Consensus        53 ~~lll~GPpG~GKTt~a~~la~~~~   77 (253)
T d1sxja2          53 RAAMLYGPPGIGKTTAAHLVAQELG   77 (253)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHH
Confidence            5799999999999999999888764

>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=97.11  E-value=0.00062  Score=64.47  Aligned_cols=26  Identities=19%  Similarity=0.247  Sum_probs=22.5

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .+.+||.||+|||||++++.+.+.+.
T Consensus        42 ~~giLl~GppGtGKT~la~aia~~~~   67 (247)
T d1ixza_          42 PKGVLLVGPPGVGKTHLARAVAGEAR   67 (247)
T ss_dssp             CSEEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             CceEEEecCCCCChhHHHHHHHHHcC
Confidence            35699999999999999999887654

>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=97.10  E-value=0.00065  Score=64.72  Aligned_cols=65  Identities=18%  Similarity=0.270  Sum_probs=50.8

Q ss_pred             CCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCC---C-ChhhHHHHHHHHHHHhccCCCcEEEEEecC
Q psy12736        447 RGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRG---Y-NEASFKEDLKSLYNLLGVKNQATVFLFTAA  514 (567)
Q Consensus       447 ~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~---y-~~~~f~edLk~~~~~ag~~~~~~vfl~~d~  514 (567)
                      ..++||.|++||||+++++..|...+.+++.+..+.-   | +..+  .-|++++..|. .+.|.+++++|-
T Consensus        45 ~~~iLL~GppGtGKT~la~~iA~~~~~~~~~i~~~~l~~~~~g~~~--~~l~~~f~~A~-~~~P~il~iDei  113 (256)
T d1lv7a_          45 PKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVGVGA--SRVRDMFEQAK-KAAPCIIFIDEI  113 (256)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHTCCEEEECSCSSTTSCCCCCH--HHHHHHHHHHH-TTCSEEEEETTH
T ss_pred             CCeEEeeCCCCCCccHHHHHHHHHcCCCEEEEEhHHhhhcchhHHH--HHHHHHHHHHH-HcCCEEEEEECh
Confidence            3468999999999999999999999999999986532   2 3322  35788888874 578888888664

>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=97.07  E-value=0.0011  Score=63.35  Aligned_cols=110  Identities=15%  Similarity=0.219  Sum_probs=74.0

Q ss_pred             HHHHHHHHh-cCCCceEEeccCCCcHhHHHHHHHH----------HcCCeEEEEEecCCC----ChhhHHHHHHHHHHHh
Q psy12736        436 LTRIHRALR-LSRGHCMVVGVEGGGKRSLVRLASF----------AAGYQVFTIQLSRGY----NEASFKEDLKSLYNLL  500 (567)
Q Consensus       436 i~ri~RvL~-~p~Gh~LLvG~~GsGr~sl~rlaa~----------i~~~~~~~i~~~k~y----~~~~f~edLk~~~~~a  500 (567)
                      |.++.++|. ....|+||||++|+||+++++=.|.          +.+..++++++++-.    ...+|.+-++.++..+
T Consensus        27 i~~l~~iL~r~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~liag~~~~g~~e~r~~~i~~~~  106 (268)
T d1r6bx2          27 LERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDFEKRFKALLKQL  106 (268)
T ss_dssp             HHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCCCSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechHhccCccchhHHHHHHHHHHHh
Confidence            667777775 4668999999999999999875554          356789998765422    2678999999999887


Q ss_pred             ccCCCcEEEEEecCccc------ch---hhhHHhh-hccCCccccC--cchhHHHHHH
Q psy12736        501 GVKNQATVFLFTAAEIV------EE---GYQVFTI-QLSRGYNEAS--FKEDLKSLYN  546 (567)
Q Consensus       501 g~~~~~~vfl~~d~qi~------~e---~fle~in-lL~~Gevp~L--f~~eE~~~i~  546 (567)
                      . +...++++++|-+..      ..   ..-..+- .|+.|++.-+  =++||+.++.
T Consensus       107 ~-~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~rg~i~vIgatT~eey~~~~  163 (268)
T d1r6bx2         107 E-QDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSGKIRVIGSTTYQEFSNIF  163 (268)
T ss_dssp             S-SSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSSCCCEEEEEECHHHHHCCC
T ss_pred             h-ccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHhCCCCeEEEeCCHHHHHHHH
Confidence            5 445566666653322      11   2233445 7899998744  3467776654

>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=97.06  E-value=0.0004  Score=64.34  Aligned_cols=56  Identities=18%  Similarity=0.385  Sum_probs=37.7

Q ss_pred             eCcccccceeecCCCCCccccccCcchhhHHHHHHHHHhcCC--CeEEeccCCCCchhhHHHHHhccC
Q psy12736        153 PWRHLVRSYVHDGDKSFGDILVPTTDSTKLTWILSLMNEIKR--PCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       153 ~W~~~v~~~~~~~~~~~~~i~VpT~dtvR~~~ll~~ll~~~~--pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ||.+...+      ..+.+++.+. +   ....++.+++++.  |+||+||+|||||++++.+.+.+.
T Consensus         3 pw~ekyrP------~~~~divg~~-~---~~~~L~~~i~~~~~~~lLl~Gp~G~GKttl~~~la~~l~   60 (227)
T d1sxjc2           3 PWVEKYRP------ETLDEVYGQN-E---VITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIY   60 (227)
T ss_dssp             CHHHHTCC------SSGGGCCSCH-H---HHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHH
T ss_pred             chhhhhCC------CCHHHccCcH-H---HHHHHHHHHHcCCCCeEEEECCCCCChhHHHHHHHHHhh
Confidence            67665322      2456666542 1   2234566666655  599999999999999999988754

>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=97.03  E-value=0.00041  Score=66.13  Aligned_cols=69  Identities=19%  Similarity=0.344  Sum_probs=53.5

Q ss_pred             CCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecC---CCChhhHHHHHHHHHHHhccCCCcEEEEEecCccc
Q psy12736        446 SRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSR---GYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIV  517 (567)
Q Consensus       446 p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k---~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~qi~  517 (567)
                      |+| +||.|++||||+++++..|.-.+..++.+..+.   .| ..+-...++.++..|- ..+|++++++|-+..
T Consensus        38 ~~g-iLL~GppGtGKT~l~~ala~~~~~~~~~i~~~~l~~~~-~g~~~~~l~~~f~~A~-~~~p~il~iDeid~l  109 (258)
T d1e32a2          38 PRG-ILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKL-AGESESNLRKAFEEAE-KNAPAIIFIDELDAI  109 (258)
T ss_dssp             CCE-EEEECCTTSSHHHHHHHHHHHTTCEEEEECHHHHTTSC-TTHHHHHHHHHHHHHH-HTCSEEEEESSGGGT
T ss_pred             Cce-eEEecCCCCCchHHHHHHHHHhCCeEEEEEchhhcccc-cccHHHHHHHHHHHHH-hcCCeEEEehhhhhh
Confidence            455 899999999999999999999999999997543   23 2223456788888774 578999999876553

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=96.95  E-value=0.002  Score=59.85  Aligned_cols=45  Identities=16%  Similarity=0.189  Sum_probs=35.7

Q ss_pred             CCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCChhhHH
Q psy12736        446 SRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFK  490 (567)
Q Consensus       446 p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~~~~f~  490 (567)
                      +-.|+||.|++|+||+++++..|.-.++++...+-+.......+.
T Consensus        34 ~~~~~Ll~GPpG~GKTtla~~la~~~~~~~~~~~~~~~~~~~~~~   78 (239)
T d1ixsb2          34 PLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEKPGDLA   78 (239)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHHHHTCCEEEEETTTCCSHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHhCCCeEeccCCccccchhhH
Confidence            457999999999999999999999999998887655443433333

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=96.93  E-value=0.00021  Score=65.09  Aligned_cols=35  Identities=17%  Similarity=0.401  Sum_probs=27.8

Q ss_pred             HHHHHHHHh-cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        183 TWILSLMNE-IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       183 ~~ll~~ll~-~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .-++..|.. .+.|++|+||||+|||+++..+.+++
T Consensus        32 ~~l~~iL~r~~k~n~lLvG~pGVGKTalv~~LA~ri   67 (195)
T d1jbka_          32 RRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRI   67 (195)
T ss_dssp             HHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHhccCCCCeEEEecCCcccHHHHHHHHHHH
Confidence            445566664 66799999999999999998887644

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.86  E-value=0.00017  Score=63.62  Aligned_cols=26  Identities=23%  Similarity=0.333  Sum_probs=23.3

Q ss_pred             CCeEEeccCCCCchhhHHHHHhccCC
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      ++|+|+||+|||||++++.++..+.+
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l~~   27 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVLKS   27 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHHH
Confidence            78999999999999999999887643

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.83  E-value=0.00077  Score=62.47  Aligned_cols=32  Identities=25%  Similarity=0.365  Sum_probs=25.7

Q ss_pred             HHHHHhcCC--CeEEeccCCCCchhhHHHHHhcc
Q psy12736        186 LSLMNEIKR--PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       186 l~~ll~~~~--pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ++.+++++.  +++|+||+|||||++++.+.+++
T Consensus        24 l~~~i~~~~~~~lll~Gp~G~GKTtl~~~i~~~l   57 (237)
T d1sxjd2          24 LKKTLKSANLPHMLFYGPPGTGKTSTILALTKEL   57 (237)
T ss_dssp             HHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHcCCCCeEEEECCCCCChHHHHHHHHHHH
Confidence            455666553  59999999999999999988764

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=96.74  E-value=0.0014  Score=64.07  Aligned_cols=71  Identities=15%  Similarity=0.290  Sum_probs=50.2

Q ss_pred             CCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecC----CCChhhHHHHHHHHHHHhccC----CCcEEEEEecCcc
Q psy12736        446 SRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSR----GYNEASFKEDLKSLYNLLGVK----NQATVFLFTAAEI  516 (567)
Q Consensus       446 p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k----~y~~~~f~edLk~~~~~ag~~----~~~~vfl~~d~qi  516 (567)
                      |.+++||+|++|+||+.|+|-.|..++..++.+..+.    +|-..+--.-++.++..|+..    .+|.++++++-+-
T Consensus        48 ~~~~iLl~GPpG~GKT~lAkalA~~~~~~~~~i~~s~~~~~~~~~~~~~~~~~~~f~~a~~~~~~~~~~~IIf~DEIdk  126 (309)
T d1ofha_          48 TPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDK  126 (309)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGGSSCCSGGGSTTHHHHHHHHTTTTCHHHHHHHCEEEEECGGG
T ss_pred             CCceEEEECCCCCCHHHHHHHHhhccccchhcccccccccceeEeeeccccccccchhhhcccccccCCceEEehhhhh
Confidence            6799999999999999999999999999999987653    221122223466666666532    2467777776443

>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=96.72  E-value=0.001  Score=63.55  Aligned_cols=68  Identities=12%  Similarity=0.186  Sum_probs=52.4

Q ss_pred             CCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecC--CCChhhHHHHHHHHHHHhccCCCcEEEEEecCc
Q psy12736        447 RGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSR--GYNEASFKEDLKSLYNLLGVKNQATVFLFTAAE  515 (567)
Q Consensus       447 ~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k--~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~q  515 (567)
                      ..++||.|++|+||+++++-.|.-.+..++.+..+.  +....+-...++.++..|.. ..|++++++|-+
T Consensus        41 ~~giLL~Gp~GtGKT~l~~ala~~~~~~~~~~~~~~l~~~~~~~~~~~l~~~f~~A~~-~~p~il~ideid  110 (265)
T d1r7ra3          41 SKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEANVREIFDKARQ-AAPCVLFFDELD  110 (265)
T ss_dssp             CCEEEEBCCTTSSHHHHHHHHHHHTTCEEEEECHHHHHTSCTTTHHHHHHHHHHHHHH-TCSEEEEESSGG
T ss_pred             CCeEEEECCCCCcchhHHHHHHHHhCCcEEEEEHHHhhhccccchHHHHHHHHHHHHh-cCCcceeHHhhh
Confidence            346999999999999999999999999999997432  11122334678888888854 578999988754

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=96.72  E-value=0.00046  Score=64.36  Aligned_cols=26  Identities=19%  Similarity=0.249  Sum_probs=22.8

Q ss_pred             CCeEEeccCCCCchhhHHHHHhccCC
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      .++||+||||||||++++.+.+.+..
T Consensus        36 ~~~L~~GPpGtGKT~lA~~la~~~~~   61 (238)
T d1in4a2          36 DHVLLAGPPGLGKTTLAHIIASELQT   61 (238)
T ss_dssp             CCEEEESSTTSSHHHHHHHHHHHHTC
T ss_pred             CeEEEECCCCCcHHHHHHHHHhccCC
Confidence            57999999999999999998887653

>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=96.71  E-value=0.0025  Score=64.09  Aligned_cols=123  Identities=22%  Similarity=0.318  Sum_probs=74.9

Q ss_pred             cCcceEEecHHHHHHHHHHHHHHhc-CCCceEEeccCCCcHhHHHH-HHHHH---------cCCeEEEEEecC---CCC-
Q psy12736        421 KARLDLVLFEDAREHLTRIHRALRL-SRGHCMVVGVEGGGKRSLVR-LASFA---------AGYQVFTIQLSR---GYN-  485 (567)
Q Consensus       421 ~~~~~lvlf~dai~hi~ri~RvL~~-p~Gh~LLvG~~GsGr~sl~r-laa~i---------~~~~~~~i~~~k---~y~-  485 (567)
                      .++++-++=.|.  -|.++.++|.. -..|+||||.+|+||++++. ||-.|         .+..++.+.+++   +.+ 
T Consensus        18 ~g~ld~~~gr~~--ei~~~~~~L~r~~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~   95 (387)
T d1qvra2          18 EGKLDPVIGRDE--EIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKY   95 (387)
T ss_dssp             TTCSCCCCSCHH--HHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC---------
T ss_pred             cCCCCCCcCcHH--HHHHHHHHHhcCCCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhhhcccCc
Confidence            345554544443  25666777754 56689999999999999987 55333         356788887654   222 


Q ss_pred             hhhHHHHHHHHHHHhccCCCcEEEEEecCccc-c----hhhh---HHhh-hccCCcccc--CcchhHHHHH
Q psy12736        486 EASFKEDLKSLYNLLGVKNQATVFLFTAAEIV-E----EGYQ---VFTI-QLSRGYNEA--SFKEDLKSLY  545 (567)
Q Consensus       486 ~~~f~edLk~~~~~ag~~~~~~vfl~~d~qi~-~----e~fl---e~in-lL~~Gevp~--Lf~~eE~~~i  545 (567)
                      ..+|.+-++.++..+...+.++++++++-+-. .    ++-+   ..+- .|+.|++.-  -=++||+..+
T Consensus        96 ~g~~e~r~~~i~~~~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~rg~~~~I~~tT~~ey~~~  166 (387)
T d1qvra2          96 RGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALARGELRLIGATTLDEYREI  166 (387)
T ss_dssp             --CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHHTTCCCEEEEECHHHHHHH
T ss_pred             chhHHHHHHHHHHHhccCCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHHhCCCcceeeecCHHHHHHh
Confidence            36899999999988765556787777764332 1    1122   2233 588999874  3457888654

>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=96.70  E-value=0.0013  Score=62.43  Aligned_cols=52  Identities=15%  Similarity=0.023  Sum_probs=33.2

Q ss_pred             cccccccCCHHHHHHHHHHhhhhh-hcChHHHHHHHHHhCCCCCCccccccChhhHHHHHhh
Q psy12736        253 ATEKIIFNTKEMFVRAWRNEFTRT-ICDRLNTDELVIAELPPTPAKFHYIFNLRDLSRIIQG  313 (567)
Q Consensus       253 ~~~~~~~~s~~sl~~I~~~il~~~-~~~~i~~y~~i~~~llptp~k~HY~FnlRDlsrv~qG  313 (567)
                      ..+.++.|+.+.-..|+..++... +...++ +..+.+.   |.     -|+.+||..+++.
T Consensus       165 ~~i~~~~P~~~~R~~il~~~l~~~~~~~~~~-~~~la~~---t~-----G~s~adl~~lv~~  217 (258)
T d1e32a2         165 REVDIGIPDATGRLEILQIHTKNMKLADDVD-LEQVANE---TH-----GHVGADLAALCSE  217 (258)
T ss_dssp             EEEECCCCCHHHHHHHHHHTTTTSCBCTTCC-HHHHHHH---CT-----TCCHHHHHHHHHH
T ss_pred             ceeECCCCCHHHHHHHhhhhccCcccccccc-hhhhhhc---cc-----CCCHHHHHHHHHH
Confidence            468899999999999999887642 122233 2334333   11     1677888777764

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.66  E-value=0.0013  Score=61.45  Aligned_cols=24  Identities=29%  Similarity=0.474  Sum_probs=21.6

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .++||+||+|||||++++.+.+.+
T Consensus        34 ~~lll~Gp~G~GKTt~~~~la~~l   57 (252)
T d1sxje2          34 PHLLLYGPNGTGKKTRCMALLESI   57 (252)
T ss_dssp             CCEEEECSTTSSHHHHHHTHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhh
Confidence            369999999999999999998875

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=96.66  E-value=0.00055  Score=64.35  Aligned_cols=37  Identities=19%  Similarity=0.188  Sum_probs=28.4

Q ss_pred             HHHHHHHHhc----CCCeEEeccCCCCchhhHHHHHhccCC
Q psy12736        183 TWILSLMNEI----KRPCIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       183 ~~ll~~ll~~----~~pvLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      ..++..++++    ..+++++||||||||++++.+.+.+..
T Consensus        29 ~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l~~   69 (276)
T d1fnna2          29 DILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKD   69 (276)
T ss_dssp             HHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHHhc
Confidence            3445555543    268999999999999999999888754

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=96.65  E-value=0.00061  Score=67.15  Aligned_cols=41  Identities=20%  Similarity=0.264  Sum_probs=35.6

Q ss_pred             hHHHHHHHHHhcCCCeEEeccCCCCchhhHHHHHhccCCCc
Q psy12736        181 KLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSLSPDK  221 (567)
Q Consensus       181 R~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l~~~~  221 (567)
                      ....++..++..++++|++||||||||++++.++...+++.
T Consensus       154 ~~~~~l~~~v~~~~nili~G~tgSGKTT~l~al~~~i~~~~  194 (323)
T d1g6oa_         154 QAISAIKDGIAIGKNVIVCGGTGSGKTTYIKSIMEFIPKEE  194 (323)
T ss_dssp             HHHHHHHHHHHHTCCEEEEESTTSSHHHHHHHHGGGSCTTC
T ss_pred             HHHHHHHHHHHhCCCEEEEeeccccchHHHHHHhhhccccc
Confidence            45567888999999999999999999999999998876544

>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=96.60  E-value=0.00042  Score=59.67  Aligned_cols=25  Identities=28%  Similarity=0.424  Sum_probs=22.5

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +++++|+||+|||||++.+.+-+++
T Consensus         2 ~k~I~l~G~~GsGKSTvak~La~~L   26 (169)
T d1kaga_           2 KRNIFLVGPMGAGKSTIGRQLAQQL   26 (169)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHHT
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHh
Confidence            5799999999999999998887776

>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=96.57  E-value=0.0028  Score=61.95  Aligned_cols=89  Identities=18%  Similarity=0.172  Sum_probs=59.5

Q ss_pred             hcCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCC----C---------ChhhHHHHHHHHHHHhccCCCcEEEE
Q psy12736        444 RLSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRG----Y---------NEASFKEDLKSLYNLLGVKNQATVFL  510 (567)
Q Consensus       444 ~~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~----y---------~~~~f~edLk~~~~~ag~~~~~~vfl  510 (567)
                      ..|.|..||+|++|+||+.|++..|-..+.+++.+..+.-    |         +..-  .+-...+.....++...|++
T Consensus        49 ~~p~~~~lf~Gp~GvGKT~lak~la~~l~~~~i~~d~s~~~~~~~~~~l~g~~~gy~g--~~~~~~l~~~~~~~~~~vvl  126 (315)
T d1r6bx3          49 HKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVSRLIGAPPGYVG--FDQGGLLTDAVIKHPHAVLL  126 (315)
T ss_dssp             TSCSEEEEEECSTTSSHHHHHHHHHHHHTCEEEEEEGGGCSSSSCCSSSCCCCSCSHH--HHHTTHHHHHHHHCSSEEEE
T ss_pred             CCCceEEEEECCCcchhHHHHHHHHhhccCCeeEeccccccchhhhhhhcccCCCccc--cccCChhhHHHHhCccchhh
Confidence            3467889999999999999999999999999988876531    0         1000  01112222222345567888


Q ss_pred             EecCcccchhhhHHhh-hccCCccc
Q psy12736        511 FTAAEIVEEGYQVFTI-QLSRGYNE  534 (567)
Q Consensus       511 ~~d~qi~~e~fle~in-lL~~Gevp  534 (567)
                      +++-+-..+.+...+= +|..|.+.
T Consensus       127 ~DeieKa~~~V~~~lLqild~G~lt  151 (315)
T d1r6bx3         127 LDEIEKAHPDVFNILLQVMDNGTLT  151 (315)
T ss_dssp             EETGGGSCHHHHHHHHHHHHHSEEE
T ss_pred             hcccccccchHhhhhHHhhccceec
Confidence            8887777777766665 77666654

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.54  E-value=0.0011  Score=62.03  Aligned_cols=71  Identities=15%  Similarity=0.245  Sum_probs=47.9

Q ss_pred             CCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCChhhHHHHHHHHHH-------------HhccCCCcEEEEEec
Q psy12736        447 RGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYN-------------LLGVKNQATVFLFTA  513 (567)
Q Consensus       447 ~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~~~~f~edLk~~~~-------------~ag~~~~~~vfl~~d  513 (567)
                      ..|+||.|++|+||+++++..|.-.+++++.+..+...+...++..++....             .....++..++++++
T Consensus        52 ~~~lll~GPpG~GKTt~a~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~ide  131 (253)
T d1sxja2          52 FRAAMLYGPPGIGKTTAAHLVAQELGYDILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDE  131 (253)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHHTTCEEEEECTTSCCCHHHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECS
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHhhhhccccccchhhHHHHHHHHHHhhcchhhhhhhhhhhcccccccceEEEeee
Confidence            3589999999999999999999999999998876654444433333322221             112344566777776


Q ss_pred             Cccc
Q psy12736        514 AEIV  517 (567)
Q Consensus       514 ~qi~  517 (567)
                      .+..
T Consensus       132 ~~~~  135 (253)
T d1sxja2         132 VDGM  135 (253)
T ss_dssp             GGGC
T ss_pred             cccc
Confidence            5543

>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=96.48  E-value=0.0037  Score=58.31  Aligned_cols=32  Identities=22%  Similarity=0.258  Sum_probs=24.1

Q ss_pred             HHHHHhcCC-C--eEEeccCCCCchhhHHHHHhcc
Q psy12736        186 LSLMNEIKR-P--CIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       186 l~~ll~~~~-p--vLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +..++++++ |  +|++||+|||||+++..+.+.+
T Consensus        24 L~~~i~~~~~~~~~Ll~Gp~G~GKtt~a~~~~~~l   58 (239)
T d1njfa_          24 LANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGL   58 (239)
T ss_dssp             HHHHHHTTCCCSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHh
Confidence            444555443 3  8999999999999999877654

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=96.48  E-value=0.00051  Score=63.81  Aligned_cols=46  Identities=20%  Similarity=0.232  Sum_probs=32.1

Q ss_pred             CCccccccCcchhhHHHHHHHHHhcC--CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        168 SFGDILVPTTDSTKLTWILSLMNEIK--RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       168 ~~~~i~VpT~dtvR~~~ll~~ll~~~--~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+.|++.+. +.+   --+..+++++  .|+||+||+|||||++++.+.+.+
T Consensus        22 ~~~diig~~-~~~---~~l~~~i~~~~~~~lll~Gp~G~GKTtla~~iak~l   69 (231)
T d1iqpa2          22 RLDDIVGQE-HIV---KRLKHYVKTGSMPHLLFAGPPGVGKTTAALALAREL   69 (231)
T ss_dssp             STTTCCSCH-HHH---HHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             CHHHccCcH-HHH---HHHHHHHHcCCCCeEEEECCCCCcHHHHHHHHHHHH
Confidence            466666553 222   2244555554  569999999999999999988765

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=96.47  E-value=0.002  Score=59.64  Aligned_cols=75  Identities=12%  Similarity=0.088  Sum_probs=45.0

Q ss_pred             CCceEEeccCCCcHhHHHHHHHHHcC-----CeEEEEEecCCCChhhHHHHHHHHHHHh-ccCCCcEEEEEecCcccchh
Q psy12736        447 RGHCMVVGVEGGGKRSLVRLASFAAG-----YQVFTIQLSRGYNEASFKEDLKSLYNLL-GVKNQATVFLFTAAEIVEEG  520 (567)
Q Consensus       447 ~Gh~LLvG~~GsGr~sl~rlaa~i~~-----~~~~~i~~~k~y~~~~f~edLk~~~~~a-g~~~~~~vfl~~d~qi~~e~  520 (567)
                      .+|+||.|++|+||+++++..|...+     +.++++..+..-+....++......... ....+..+++++|.+-....
T Consensus        45 ~~~lll~Gp~G~GKTtla~~iak~l~~~~~~~~~~e~n~s~~~~~~~~~~~~~~~~~~~~~~~~~~~iilide~d~~~~~  124 (231)
T d1iqpa2          45 MPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERGINVIREKVKEFARTKPIGGASFKIIFLDEADALTQD  124 (231)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHHHHHTTHHHHHHHHHSCCGGGCSCEEEEEETGGGSCHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHHhcccCCCeeEEecCcccchhHHHHHHHHHHhhhhccCCCceEEeehhhhhcchh
Confidence            46899999999999999998886543     3566665442212222233333333222 22346778888876555444


Q ss_pred             h
Q psy12736        521 Y  521 (567)
Q Consensus       521 f  521 (567)
                      .
T Consensus       125 ~  125 (231)
T d1iqpa2         125 A  125 (231)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=96.47  E-value=0.0014  Score=66.07  Aligned_cols=35  Identities=17%  Similarity=0.411  Sum_probs=27.3

Q ss_pred             HHHHHHHHHh-cCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        182 LTWILSLMNE-IKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       182 ~~~ll~~ll~-~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ..-+++.|.. .+.+++|+||+|+|||+++..+.++
T Consensus        31 i~~~~~~L~r~~k~n~llvG~~GvGKtaiv~~la~~   66 (387)
T d1qvra2          31 IRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQR   66 (387)
T ss_dssp             HHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCCCCCeEECCCCCCHHHHHHHHHHH
Confidence            4556777774 4566999999999999999876553

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.41  E-value=0.00064  Score=61.22  Aligned_cols=27  Identities=22%  Similarity=0.535  Sum_probs=24.4

Q ss_pred             CCeEEeccCCCCchhhHHHHHhccCCC
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSLSPD  220 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l~~~  220 (567)
                      +||+|+||+|+|||++++.+++..+..
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~~~~~~   28 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFAEYPDS   28 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCTTT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhCCcc
Confidence            799999999999999999999887653

>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=96.38  E-value=0.0013  Score=64.33  Aligned_cols=67  Identities=21%  Similarity=0.294  Sum_probs=50.8

Q ss_pred             hcCCCceEEeccCCCcHhHHHHHHHHHcC--CeEEEEEecCCCCh--hhHHHHHHHHHHHhccCCCcEEEEEec
Q psy12736        444 RLSRGHCMVVGVEGGGKRSLVRLASFAAG--YQVFTIQLSRGYNE--ASFKEDLKSLYNLLGVKNQATVFLFTA  513 (567)
Q Consensus       444 ~~p~Gh~LLvG~~GsGr~sl~rlaa~i~~--~~~~~i~~~k~y~~--~~f~edLk~~~~~ag~~~~~~vfl~~d  513 (567)
                      +.|+|++||+|++|+||+.+++-.|.-.+  ..++++..+.-++.  -+|.+-+|.++..|-   +|.++++++
T Consensus       120 ~~~~g~~l~~G~pG~GKT~la~ala~~~~~~~~~~~~~~~~~~~~~~G~~e~~~~~~f~~a~---~~~ilf~DE  190 (321)
T d1w44a_         120 RYASGMVIVTGKGNSGKTPLVHALGEALGGKDKYATVRFGEPLSGYNTDFNVFVDDIARAML---QHRVIVIDS  190 (321)
T ss_dssp             EEESEEEEEECSSSSCHHHHHHHHHHHHHTTSCCEEEEBSCSSTTCBCCHHHHHHHHHHHHH---HCSEEEEEC
T ss_pred             ccCCceEEEECCCCccHHHHHHHHHHHhcCCCCeEEEEhhHhhhcccchHHHHHHHHHHHHh---hccEEEeeh
Confidence            57899999999999999999998877754  56788876554432  356788999998883   355666665

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=96.35  E-value=0.00059  Score=63.69  Aligned_cols=26  Identities=19%  Similarity=0.231  Sum_probs=22.4

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      -.|+||+||||||||++++.+.+.+.
T Consensus        35 ~~~~Ll~GPpG~GKTtla~~la~~~~   60 (239)
T d1ixsb2          35 LEHLLLFGPPGLGKTTLAHVIAHELG   60 (239)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhC
Confidence            35899999999999999998877653

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=96.34  E-value=0.00072  Score=63.92  Aligned_cols=23  Identities=22%  Similarity=0.229  Sum_probs=20.2

Q ss_pred             eEEeccCCCCchhhHHHHHhccC
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ++++||||||||++++.+++.+.
T Consensus        49 l~l~GppGtGKT~l~~~l~~~l~   71 (287)
T d1w5sa2          49 YGSIGRVGIGKTTLAKFTVKRVS   71 (287)
T ss_dssp             EECTTCCSSSHHHHHHHHHHHHH
T ss_pred             EEeECCCCCCHHHHHHHHHHHHH
Confidence            56789999999999999998764

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=96.33  E-value=0.0016  Score=61.32  Aligned_cols=24  Identities=17%  Similarity=0.300  Sum_probs=21.1

Q ss_pred             CeEEeccCCCCchhhHHHHHhccC
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .+||+||||||||++++.+.+.+.
T Consensus        34 ~ilL~GpPGtGKT~la~~la~~~~   57 (273)
T d1gvnb_          34 AFLLGGQPGSGKTSLRSAIFEETQ   57 (273)
T ss_dssp             EEEEECCTTSCTHHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhh
Confidence            399999999999999998887764

>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=96.24  E-value=0.0008  Score=57.73  Aligned_cols=23  Identities=17%  Similarity=0.303  Sum_probs=20.0

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      =++++||||||||++++.++...
T Consensus         4 lIii~G~pGsGKTTla~~L~~~~   26 (152)
T d1ly1a_           4 IILTIGCPGSGKSTWAREFIAKN   26 (152)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHhC
Confidence            47899999999999999887754

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=96.19  E-value=0.00082  Score=65.75  Aligned_cols=26  Identities=19%  Similarity=0.330  Sum_probs=22.8

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      -...+||+||||||||.+++.+.+.+
T Consensus        48 ~~~~iLl~GPpG~GKT~lAkalA~~~   73 (309)
T d1ofha_          48 TPKNILMIGPTGVGKTEIARRLAKLA   73 (309)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHhhcc
Confidence            35789999999999999999887765

>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=96.17  E-value=0.0064  Score=59.33  Aligned_cols=102  Identities=19%  Similarity=0.231  Sum_probs=63.4

Q ss_pred             HHHHHHHHHH-HHH---Hh---cCCCceEEeccCCCcHhHHHHHHHHHc---CCeEEEEEecCC---------------C
Q psy12736        430 EDAREHLTRI-HRA---LR---LSRGHCMVVGVEGGGKRSLVRLASFAA---GYQVFTIQLSRG---------------Y  484 (567)
Q Consensus       430 ~dai~hi~ri-~Rv---L~---~p~Gh~LLvG~~GsGr~sl~rlaa~i~---~~~~~~i~~~k~---------------y  484 (567)
                      ++|++.|++. .|.   ++   .|.|.+||+|++|+||+.+++..|-..   +..++.+..+.-               |
T Consensus        29 ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l~~~~~~~~~~~~~~~~~~~~~~~L~g~~~gy  108 (315)
T d1qvra3          29 DEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAVSRLIGAPPGY  108 (315)
T ss_dssp             HHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSSGGGEEEECTTTCCSSGGGGGC-------
T ss_pred             HHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHHHhcCCCcceEEEeccccccchhhhhhcCCCCCC
Confidence            4667766653 333   22   356778999999999999999776653   456777754321               1


Q ss_pred             ChhhHHHHHHHHHHHhccCCCcEEEEEecCcccchhhhHHhh-hccCCcccc
Q psy12736        485 NEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEGYQVFTI-QLSRGYNEA  535 (567)
Q Consensus       485 ~~~~f~edLk~~~~~ag~~~~~~vfl~~d~qi~~e~fle~in-lL~~Gevp~  535 (567)
                      .-.+-...|...++    ++...|++++|-+-.++.+...+- +|..|.+++
T Consensus       109 vG~~~~~~l~~~~~----~~p~~Vvl~DEieK~~~~v~~~ll~~l~~g~~~~  156 (315)
T d1qvra3         109 VGYEEGGQLTEAVR----RRPYSVILFDEIEKAHPDVFNILLQILDDGRLTD  156 (315)
T ss_dssp             -------CHHHHHH----HCSSEEEEESSGGGSCHHHHHHHHHHHTTTEECC
T ss_pred             cCcccCChHHHHHH----hCCCcEEEEehHhhcCHHHHHHHHHHhccCceeC
Confidence            11110112333333    244578889988877888888887 888876653

>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=96.11  E-value=0.0011  Score=59.41  Aligned_cols=27  Identities=7%  Similarity=0.300  Sum_probs=24.1

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhccCC
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      ++|++|+||+|+|||++++.+++..+.
T Consensus         3 ~k~ivl~Gpsg~GK~tl~~~L~~~~~~   29 (178)
T d1kgda_           3 RKTLVLLGAHGVGRRHIKNTLITKHPD   29 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHCTT
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHhCCc
Confidence            689999999999999999999887654

>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=96.06  E-value=0.00077  Score=59.44  Aligned_cols=25  Identities=24%  Similarity=0.462  Sum_probs=22.2

Q ss_pred             CeEEeccCCCCchhhHHHHHhccCC
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      .++++||+|||||++++.++..+..
T Consensus         2 ki~I~G~~G~GKSTLl~~i~~~l~~   26 (178)
T d1ye8a1           2 KIIITGEPGVGKTTLVKKIVERLGK   26 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHGG
T ss_pred             EEEEECCCCcHHHHHHHHHHhcCCC
Confidence            4899999999999999999887654

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.05  E-value=0.0012  Score=59.71  Aligned_cols=27  Identities=22%  Similarity=0.495  Sum_probs=23.8

Q ss_pred             CCeEEeccCCCCchhhHHHHHhccCCC
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSLSPD  220 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l~~~  220 (567)
                      +|++|+||+|+|||++++.++...+..
T Consensus         1 rpIvl~GPsGsGK~tl~~~L~~~~~~~   27 (190)
T d1lvga_           1 RPVVLSGPSGAGKSTLLKKLFQEHSSI   27 (190)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHHTTT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhCCCc
Confidence            699999999999999999998876543

>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=96.04  E-value=0.0011  Score=57.56  Aligned_cols=24  Identities=25%  Similarity=0.397  Sum_probs=21.3

Q ss_pred             CeEEeccCCCCchhhHHHHHhccC
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      =++++||+|||||++++.+.+.+.
T Consensus         4 lI~i~G~~GsGKTTva~~L~~~~~   27 (176)
T d2bdta1           4 LYIITGPAGVGKSTTCKRLAAQLD   27 (176)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            478999999999999999888764

>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=96.02  E-value=0.0093  Score=54.31  Aligned_cols=34  Identities=12%  Similarity=0.142  Sum_probs=24.6

Q ss_pred             HHHHHHHhcCC--CeEEeccCCCCchhhHHHHHhcc
Q psy12736        184 WILSLMNEIKR--PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       184 ~ll~~ll~~~~--pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+.+.+-.++.  .+|++||+|+|||+++..+.+.+
T Consensus        13 ~l~~~~~~~~l~h~lLl~Gp~G~GKtt~a~~~a~~l   48 (207)
T d1a5ta2          13 KLVASYQAGRGHHALLIQALPGMGDDALIYALSRYL   48 (207)
T ss_dssp             HHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCcCeEEEEECCCCCcHHHHHHHHHHhc
Confidence            34444444332  38999999999999999887754

>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=95.99  E-value=0.00086  Score=58.93  Aligned_cols=26  Identities=8%  Similarity=0.273  Sum_probs=22.5

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      -+.++++||+|||||++++.+-+.+.
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~~~   32 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAVFN   32 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35799999999999999999887763

>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=95.96  E-value=0.0098  Score=54.45  Aligned_cols=73  Identities=14%  Similarity=0.166  Sum_probs=49.0

Q ss_pred             CCceEEeccCCCcHhHHHHHHHHHcC-----CeEEEEEecCCCChhhHHHHHHHHHHHhcc--CCCcEEEEEecCcccch
Q psy12736        447 RGHCMVVGVEGGGKRSLVRLASFAAG-----YQVFTIQLSRGYNEASFKEDLKSLYNLLGV--KNQATVFLFTAAEIVEE  519 (567)
Q Consensus       447 ~Gh~LLvG~~GsGr~sl~rlaa~i~~-----~~~~~i~~~k~y~~~~f~edLk~~~~~ag~--~~~~~vfl~~d~qi~~e  519 (567)
                      ..|+||.|++|+||++++++.|.-.+     +.+.++..+..-+....++.++........  .++..++++++.+-..+
T Consensus        36 ~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~~~~~~~~~i~~~~~~~~~~~~~~~~~~~kviiiDe~d~~~~  115 (224)
T d1sxjb2          36 MPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGIDVVRNQIKHFAQKKLHLPPGKHKIVILDEADSMTA  115 (224)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSHHHHHTHHHHHHHBCCCCCTTCCEEEEEESGGGSCH
T ss_pred             CCeEEEECCCCCCchhhHHHHHHHHhccccccccccccccccCCceehhhHHHHHHHhhccCCCcceEEEEEecccccch
Confidence            46899999999999999998776543     346677666655666666666665544321  34556777776554443

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.88  E-value=0.0028  Score=60.33  Aligned_cols=25  Identities=16%  Similarity=0.203  Sum_probs=22.4

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+.+||+||+|||||++++.+...+
T Consensus        41 ~~giLL~Gp~GtGKT~l~~ala~~~   65 (265)
T d1r7ra3          41 SKGVLFYGPPGCGKTLLAKAIANEC   65 (265)
T ss_dssp             CCEEEEBCCTTSSHHHHHHHHHHHT
T ss_pred             CCeEEEECCCCCcchhHHHHHHHHh
Confidence            4679999999999999999988875

>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=95.87  E-value=0.0014  Score=57.04  Aligned_cols=25  Identities=16%  Similarity=0.207  Sum_probs=21.5

Q ss_pred             CCeEEeccCCCCchhhHHHHHhccC
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      -.++++||+|||||++.+.+.+++.
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~~l~   29 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELASKSG   29 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHC
Confidence            4688999999999999998877763

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=95.80  E-value=0.0017  Score=66.55  Aligned_cols=25  Identities=20%  Similarity=0.351  Sum_probs=22.3

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+++|++||||||||.+++.+-+-+
T Consensus        49 ksNILliGPTGvGKTlLAr~LAk~l   73 (443)
T d1g41a_          49 PKNILMIGPTGVGKTEIARRLAKLA   73 (443)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             cccEEEECCCCCCHHHHHHHHHHHh
Confidence            5799999999999999999887655

>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=95.74  E-value=0.0059  Score=56.84  Aligned_cols=127  Identities=17%  Similarity=0.210  Sum_probs=67.4

Q ss_pred             eEEecHHHHHHHHHHHHHHhcCC-Cc-eEEeccCCCcHhHHHHHHHHHcCC------------------------eEEEE
Q psy12736        425 DLVLFEDAREHLTRIHRALRLSR-GH-CMVVGVEGGGKRSLVRLASFAAGY------------------------QVFTI  478 (567)
Q Consensus       425 ~lvlf~dai~hi~ri~RvL~~p~-Gh-~LLvG~~GsGr~sl~rlaa~i~~~------------------------~~~~i  478 (567)
                      +++..+++++.+...   +...+ .| +||.|++|+||++++++.+...++                        +++++
T Consensus        13 dlig~~~~~~~L~~~---i~~~~~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~   89 (239)
T d1njfa_          13 DVVGQEHVLTALANG---LSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLIEI   89 (239)
T ss_dssp             GSCSCHHHHHHHHHH---HHTTCCCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHHTCCTTEEEE
T ss_pred             HccChHHHHHHHHHH---HHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcCccccccCccccchHHHHHHcCCCCeEEEe
Confidence            344445555544332   33332 35 688999999999999998765432                        35566


Q ss_pred             EecCCCChhhHHHHHHHHHHHhc---cCCCcEEEEEecCcccchhhhHHhh-hccC--CccccCcchhHHHHHHHhhccc
Q psy12736        479 QLSRGYNEASFKEDLKSLYNLLG---VKNQATVFLFTAAEIVEEGYQVFTI-QLSR--GYNEASFKEDLKSLYNLLGVKN  552 (567)
Q Consensus       479 ~~~k~y~~~~f~edLk~~~~~ag---~~~~~~vfl~~d~qi~~e~fle~in-lL~~--Gevp~Lf~~eE~~~i~~~~~~~  552 (567)
                      +-+...+..    ++|.++..+.   ..++..++++.+.+-..+.....+= .|..  +.+.=++..++.+.|. .+++.
T Consensus        90 ~~~~~~~i~----~ir~~~~~~~~~~~~~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il~tn~~~~i~-~~i~S  164 (239)
T d1njfa_          90 DAASRTKVE----DTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLP-VTILS  164 (239)
T ss_dssp             ETTCSSSHH----HHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSC-HHHHT
T ss_pred             cchhcCCHH----HHHHHHHHHHhccccCCCEEEEEECcccCCHHHHHHHHHHHhcCCCCeEEEEEcCCccccC-hhHhh
Confidence            544444444    4555555442   3456667777776655443322222 2221  2222333444444554 55555


Q ss_pred             cceeeee
Q psy12736        553 QATVFLF  559 (567)
Q Consensus       553 ~~~~~~~  559 (567)
                      .+...-+
T Consensus       165 Rc~~i~~  171 (239)
T d1njfa_         165 RCLQFHL  171 (239)
T ss_dssp             TSEEEEC
T ss_pred             hhccccc
Confidence            5544433

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.65  E-value=0.02  Score=52.13  Aligned_cols=91  Identities=11%  Similarity=0.120  Sum_probs=50.0

Q ss_pred             eEEecHHHHHHHHHHHHHHhc-CCCceEEeccCCCcHhHHHHHHHHHcC-C----eEEEEEecCCCChhhHHHHHHHHHH
Q psy12736        425 DLVLFEDAREHLTRIHRALRL-SRGHCMVVGVEGGGKRSLVRLASFAAG-Y----QVFTIQLSRGYNEASFKEDLKSLYN  498 (567)
Q Consensus       425 ~lvlf~dai~hi~ri~RvL~~-p~Gh~LLvG~~GsGr~sl~rlaa~i~~-~----~~~~i~~~k~y~~~~f~edLk~~~~  498 (567)
                      ++|--+++++.+...   +.. .-+|+||.|++|+||++++++.|.-.+ .    .+++...+...+........+....
T Consensus        15 divg~~~~~~~L~~~---i~~~~~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~   91 (227)
T d1sxjc2          15 EVYGQNEVITTVRKF---VDEGKLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGIDVVRNQIKDFAS   91 (227)
T ss_dssp             GCCSCHHHHHHHHHH---HHTTCCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCSHHHHHTHHHHHHH
T ss_pred             HccCcHHHHHHHHHH---HHcCCCCeEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEecccccCCeeeeecchhhccc
Confidence            344445555554443   222 245899999999999999998776432 2    2455555544454433333333322


Q ss_pred             Hh-ccCCCcEEEEEecCcccc
Q psy12736        499 LL-GVKNQATVFLFTAAEIVE  518 (567)
Q Consensus       499 ~a-g~~~~~~vfl~~d~qi~~  518 (567)
                      .. ...++..++++++.+-..
T Consensus        92 ~~~~~~~~~kiiiiDe~d~~~  112 (227)
T d1sxjc2          92 TRQIFSKGFKLIILDEADAMT  112 (227)
T ss_dssp             BCCSSSCSCEEEEETTGGGSC
T ss_pred             cccccCCCeEEEEEeccccch
Confidence            22 223344566666655443

>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=95.61  E-value=0.0018  Score=56.61  Aligned_cols=27  Identities=15%  Similarity=0.103  Sum_probs=22.9

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .|.-|+|+|++|||||++.+.+.+++.
T Consensus         5 ~g~~I~l~G~~GsGKTTia~~La~~L~   31 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIARALQVTLN   31 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            456689999999999999988877764

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=95.60  E-value=0.0037  Score=61.30  Aligned_cols=28  Identities=25%  Similarity=0.302  Sum_probs=23.9

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhccCC
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      .+.|+||+||||||||++++.+-.-|++
T Consensus        27 ~~h~vLl~G~pG~GKT~lar~~~~iLp~   54 (333)
T d1g8pa_          27 GIGGVLVFGDRGTGKSTAVRALAALLPE   54 (333)
T ss_dssp             GGCCEEEECCGGGCTTHHHHHHHHHSCC
T ss_pred             CCCeEEEECCCCccHHHHHHHHHHhCCC
Confidence            5679999999999999999987665554

>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=95.60  E-value=0.0024  Score=55.74  Aligned_cols=26  Identities=23%  Similarity=0.281  Sum_probs=22.3

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      +.+++++||+|||||++.+.+-.++.
T Consensus         5 ~~~I~i~G~~GsGKTT~~~~La~~l~   30 (174)
T d1y63a_           5 GINILITGTPGTGKTSMAEMIAAELD   30 (174)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHHHST
T ss_pred             CCEEEEEeCCCCCHHHHHHHHHHHhC
Confidence            45699999999999999988777764

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=95.58  E-value=0.002  Score=60.70  Aligned_cols=23  Identities=17%  Similarity=0.206  Sum_probs=20.4

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .|||+||||||||++++.+-+.+
T Consensus        42 ~vLL~GppGtGKT~la~alA~~~   64 (246)
T d1d2na_          42 SVLLEGPPHSGKTALAAKIAEES   64 (246)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECcCCCCHHHHHHHHhhcc
Confidence            48999999999999999887654

>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=95.56  E-value=0.0021  Score=57.73  Aligned_cols=26  Identities=27%  Similarity=0.574  Sum_probs=21.2

Q ss_pred             cCCC--eEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRP--CIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~p--vLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..+|  |+++||||||||++++.+.+++
T Consensus         3 ~~kp~iI~i~G~pGSGKsT~a~~La~~~   30 (194)
T d1qf9a_           3 KSKPNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CCCCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            4565  6889999999999998877654

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.47  E-value=0.0025  Score=56.51  Aligned_cols=24  Identities=25%  Similarity=0.326  Sum_probs=20.2

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .=++++|+||||||++++.++...
T Consensus        15 ~liil~G~pGsGKST~a~~l~~~~   38 (172)
T d1yj5a2          15 EVVVAVGFPGAGKSTFIQEHLVSA   38 (172)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTGGG
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhc
Confidence            347899999999999999887653

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=95.47  E-value=0.0024  Score=60.63  Aligned_cols=26  Identities=27%  Similarity=0.340  Sum_probs=22.6

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..+.+||+||||||||.+++.+-+.+
T Consensus        44 ~~~~iLL~GppGtGKT~la~~iA~~~   69 (256)
T d1lv7a_          44 IPKGVLMVGPPGTGKTLLAKAIAGEA   69 (256)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCeEEeeCCCCCCccHHHHHHHHHc
Confidence            35679999999999999999888765

>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=95.47  E-value=0.0021  Score=56.13  Aligned_cols=26  Identities=12%  Similarity=0.107  Sum_probs=21.7

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .|+-++|+||+|||||++.+.+.+++
T Consensus         3 ~g~iI~l~G~~GsGKSTia~~La~~l   28 (176)
T d1zp6a1           3 GGNILLLSGHPGSGKSTIAEALANLP   28 (176)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTCS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            46778999999999999987776654

>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=95.41  E-value=0.0025  Score=55.25  Aligned_cols=24  Identities=21%  Similarity=0.290  Sum_probs=21.0

Q ss_pred             eEEeccCCCCchhhHHHHHhccCC
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      +.++|++|||||++++++++.+..
T Consensus         5 i~itG~~GSGKTTL~~~L~~~l~~   28 (170)
T d1np6a_           5 LAFAAWSGTGKTTLLKKLIPALCA   28 (170)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHH
Confidence            468999999999999999987653

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=95.39  E-value=0.0034  Score=57.42  Aligned_cols=31  Identities=16%  Similarity=0.190  Sum_probs=26.0

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhccCCCcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSLSPDKY  222 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l~~~~~  222 (567)
                      +|+-++++||+|+|||++++.++...+...+
T Consensus         1 ~G~livi~GPSG~GK~tl~~~L~~~~p~~~~   31 (205)
T d1s96a_           1 QGTLYIVSAPSGAGKSSLIQALLKTQPLYDT   31 (205)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHSCTTTE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhhCCccCc
Confidence            4778999999999999999999988764433

>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=95.38  E-value=0.0032  Score=56.01  Aligned_cols=27  Identities=11%  Similarity=0.245  Sum_probs=23.8

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhccCC
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      |+-++|+||+|+|||++++.++...+.
T Consensus         2 G~iivl~GpsG~GK~tl~~~L~~~~~~   28 (182)
T d1znwa1           2 GRVVVLSGPSAVGKSTVVRCLRERIPN   28 (182)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHSTT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhhCCC
Confidence            677899999999999999998887764

>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=95.38  E-value=0.0043  Score=57.91  Aligned_cols=28  Identities=18%  Similarity=0.112  Sum_probs=24.4

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ..+++++++||+|+|||++++.+++.+.
T Consensus        27 ~~~~~i~i~G~~G~GKTsLl~~~~~~~~   54 (283)
T d2fnaa2          27 LRAPITLVLGLRRTGKSSIIKIGINELN   54 (283)
T ss_dssp             TCSSEEEEEESTTSSHHHHHHHHHHHHT
T ss_pred             ccCCEEEEEcCCCCcHHHHHHHHHHHCC
Confidence            3677899999999999999999988764

>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=95.34  E-value=0.0034  Score=54.55  Aligned_cols=28  Identities=18%  Similarity=0.236  Sum_probs=23.7

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhccCC
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      .++=|+|+|++|||||++++.+.+.+..
T Consensus         2 ~~kiI~l~G~~GsGKsTva~~L~~~l~~   29 (178)
T d1qhxa_           2 TTRMIILNGGSSAGKSGIVRCLQSVLPE   29 (178)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHSSS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHcCC
Confidence            3566889999999999999998888753

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=95.19  E-value=0.0034  Score=54.57  Aligned_cols=26  Identities=19%  Similarity=0.357  Sum_probs=21.4

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ++-++|+||+|||||++.+.+.+.+.
T Consensus         6 ~~iivl~G~~GsGKsT~a~~La~~l~   31 (171)
T d1knqa_           6 HHIYVLMGVSGSGKSAVASEVAHQLH   31 (171)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            34477899999999999999877763

>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=95.13  E-value=0.004  Score=54.69  Aligned_cols=25  Identities=28%  Similarity=0.449  Sum_probs=22.0

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+|++|+|++|||||++.+.+-+.+
T Consensus         2 ~~~Iil~G~~GsGKSTia~~LA~~L   26 (170)
T d1e6ca_           2 TEPIFMVGARGCGMTTVGRELARAL   26 (170)
T ss_dssp             CCCEEEESCTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHh
Confidence            4789999999999999998877765

>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=94.96  E-value=0.0059  Score=57.19  Aligned_cols=35  Identities=23%  Similarity=0.175  Sum_probs=30.0

Q ss_pred             cCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEe
Q psy12736        445 LSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQL  480 (567)
Q Consensus       445 ~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~  480 (567)
                      +|.| +||+|++||||+++++..|-..+..++.|+.
T Consensus        31 ~P~~-ilL~GpPGtGKT~la~~la~~~~~~~~~i~~   65 (273)
T d1gvnb_          31 SPTA-FLLGGQPGSGKTSLRSAIFEETQGNVIVIDN   65 (273)
T ss_dssp             SCEE-EEEECCTTSCTHHHHHHHHHHTTTCCEEECT
T ss_pred             CCEE-EEEECCCCCCHHHHHHHHHHHhhcceEEEec
Confidence            4554 8999999999999999888888888888853

>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: YFV helicase domain
species: Yellow fever virus [TaxId: 11089]

Probab=94.95  E-value=0.0042  Score=51.75  Aligned_cols=24  Identities=17%  Similarity=0.148  Sum_probs=20.6

Q ss_pred             HHhcCCCeEEeccCCCCchhhHHH
Q psy12736        189 MNEIKRPCIVVGDTGTSKTATMMN  212 (567)
Q Consensus       189 ll~~~~pvLl~GptGtGKT~~i~~  212 (567)
                      +++.|+.++|++|||+|||..+-.
T Consensus         3 ~l~~~~~~il~~~tGsGKT~~~~~   26 (140)
T d1yksa1           3 MLKKGMTTVLDFHPGAGKTRRFLP   26 (140)
T ss_dssp             TTSTTCEEEECCCTTSSTTTTHHH
T ss_pred             HHHcCCcEEEEcCCCCChhHHHHH
Confidence            577899999999999999976643

>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=94.94  E-value=0.0046  Score=53.89  Aligned_cols=24  Identities=17%  Similarity=0.367  Sum_probs=21.0

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ++++|+|++|||||++.+.+-+.+
T Consensus         1 k~I~liG~~GsGKsTi~k~La~~l   24 (161)
T d1viaa_           1 KNIVFIGFMGSGKSTLARALAKDL   24 (161)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHh
Confidence            579999999999999998877765

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=94.85  E-value=0.043  Score=49.65  Aligned_cols=119  Identities=13%  Similarity=0.124  Sum_probs=63.6

Q ss_pred             HHHHHhcCC-Cc-eEEeccCCCcHhHHHHHHHHHc------------------------CCeEEEEEecCCCChhhHHHH
Q psy12736        439 IHRALRLSR-GH-CMVVGVEGGGKRSLVRLASFAA------------------------GYQVFTIQLSRGYNEASFKED  492 (567)
Q Consensus       439 i~RvL~~p~-Gh-~LLvG~~GsGr~sl~rlaa~i~------------------------~~~~~~i~~~k~y~~~~f~ed  492 (567)
                      +.+.+...+ .| .||.|++|+||+++++..|...                        ...++.+...+.-+. --.++
T Consensus        14 l~~~~~~~~l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~-i~~~~   92 (207)
T d1a5ta2          14 LVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKGKNT-LGVDA   92 (207)
T ss_dssp             HHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTTCSS-BCHHH
T ss_pred             HHHHHHcCCcCeEEEEECCCCCcHHHHHHHHHHhcccccccccccccccchhhhhhhccccccchhhhhhcccc-cccch
Confidence            333344433 56 6899999999999999766532                        122333332221111 11345


Q ss_pred             HHHHHHHh---ccCCCcEEEEEecCcccchhhhHHhh-hccC--CccccCcchhHHHHHHHhhccccceeeee
Q psy12736        493 LKSLYNLL---GVKNQATVFLFTAAEIVEEGYQVFTI-QLSR--GYNEASFKEDLKSLYNLLGVKNQATVFLF  559 (567)
Q Consensus       493 Lk~~~~~a---g~~~~~~vfl~~d~qi~~e~fle~in-lL~~--Gevp~Lf~~eE~~~i~~~~~~~~~~~~~~  559 (567)
                      +|.+....   ...++.-++++.|.+-..+.-...+= +|..  ..+--+|..++..+|. .+++..+..+-+
T Consensus        93 ir~l~~~~~~~~~~~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~~ll-~tI~SRc~~i~~  164 (207)
T d1a5ta2          93 VREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLL-ATLRSRCRLHYL  164 (207)
T ss_dssp             HHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSC-HHHHTTSEEEEC
T ss_pred             hhHHhhhhhhccccCccceEEechhhhhhhhhhHHHHHHHHhhcccceeeeeecChhhhh-hhhcceeEEEec
Confidence            55555443   34566778888887666553322222 3332  1222345556666665 666666655444

>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=0.094  Score=48.15  Aligned_cols=26  Identities=19%  Similarity=0.130  Sum_probs=21.9

Q ss_pred             CCCceEEeccCCCcHhHHHHHHHHHc
Q psy12736        446 SRGHCMVVGVEGGGKRSLVRLASFAA  471 (567)
Q Consensus       446 p~Gh~LLvG~~GsGr~sl~rlaa~i~  471 (567)
                      +.+|+||.|++|+||++++|..+...
T Consensus        42 ~~~~lll~GppGtGKT~l~~~l~~~l   67 (276)
T d1fnna2          42 HYPRATLLGRPGTGKTVTLRKLWELY   67 (276)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHHH
Confidence            34799999999999999998777653

>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=94.66  E-value=0.0064  Score=54.48  Aligned_cols=28  Identities=18%  Similarity=0.279  Sum_probs=23.4

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ++..+-+++.||||||||++++.+..++
T Consensus         5 ~~~~~iI~l~G~pGSGKsT~a~~La~~~   32 (194)
T d3adka_           5 LKKSKIIFVVGGPGSGKGTQCEKIVQKY   32 (194)
T ss_dssp             HHTSCEEEEEECTTSSHHHHHHHHHHHT
T ss_pred             ccCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            4566778899999999999999877764

>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=94.65  E-value=0.0081  Score=60.60  Aligned_cols=29  Identities=28%  Similarity=0.378  Sum_probs=24.4

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhccCCC
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSLSPD  220 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l~~~  220 (567)
                      .+==+|++||||||||+++..+++.++..
T Consensus       157 ~~GliLvtGpTGSGKSTTl~~~l~~~~~~  185 (401)
T d1p9ra_         157 PHGIILVTGPTGSGKSTTLYAGLQELNSS  185 (401)
T ss_dssp             SSEEEEEECSTTSCHHHHHHHHHHHHCCT
T ss_pred             hhceEEEEcCCCCCccHHHHHHhhhhcCC
Confidence            34458999999999999999999987653

>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=94.59  E-value=0.0058  Score=56.03  Aligned_cols=65  Identities=11%  Similarity=0.095  Sum_probs=37.0

Q ss_pred             CceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecCCCChhhHHHHHHHHHHHhccCCCcEEEEEecCcc
Q psy12736        448 GHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEI  516 (567)
Q Consensus       448 Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~qi  516 (567)
                      -+.+||-..++|..++...+.+-....+-.+-+||--....    +=.++..+-..+.|+.|+=....+
T Consensus       129 ~~~~LVl~a~~~~~~~~~~~~~~~~~~~~~lIlTKlDe~~~----~G~~l~~~~~~~~Pi~~i~~Gq~v  193 (211)
T d2qy9a2         129 HEVMLTIDASTGQNAVSQAKLFHEAVGLTGITLTKLDGTAK----GGVIFSVADQFGIPIRYIGVGERI  193 (211)
T ss_dssp             SEEEEEEEGGGTHHHHHHHHHHHHHSCCCEEEEECCTTCTT----TTHHHHHHHHHCCCEEEEECSSSG
T ss_pred             ceeeeehhcccCcchHHHHhhhhhccCCceEEEeecCCCCC----ccHHHHHHHHHCCCEEEEeCCCCc
Confidence            45677878888888888877776655555555554211110    112233333345788887665544

>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=94.52  E-value=0.006  Score=56.03  Aligned_cols=26  Identities=31%  Similarity=0.456  Sum_probs=20.3

Q ss_pred             cCCC--eEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRP--CIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~p--vLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .++|  ++|+||||+|||+++..+-..+
T Consensus         8 ~~~p~vi~lvGptGvGKTTTiAKLAa~~   35 (213)
T d1vmaa2           8 PEPPFVIMVVGVNGTGKTTSCGKLAKMF   35 (213)
T ss_dssp             SSSCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            3455  7889999999999988765543

>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=94.49  E-value=0.0066  Score=54.09  Aligned_cols=25  Identities=12%  Similarity=0.316  Sum_probs=21.4

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      |..++|.||||||||++.+.+-.++
T Consensus         3 ~~riil~G~pGSGKsT~a~~La~~~   27 (190)
T d1ak2a1           3 GVRAVLLGPPGAGKGTQAPKLAKNF   27 (190)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHHHHh
Confidence            5678899999999999998776654

>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=94.46  E-value=0.0071  Score=51.51  Aligned_cols=22  Identities=18%  Similarity=0.261  Sum_probs=19.8

Q ss_pred             CeEEeccCCCCchhhHHHHHhc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .|+++|++|+|||++++++...
T Consensus         2 kivlvG~~~vGKSsLi~~l~~~   23 (160)
T d1r8sa_           2 RILMVGLDAAGKTTILYKLKLG   23 (160)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999998765

>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=94.45  E-value=0.013  Score=49.65  Aligned_cols=30  Identities=20%  Similarity=0.354  Sum_probs=26.7

Q ss_pred             ceEEeccCCCcHhHHHHHHHHHcCCeEEEE
Q psy12736        449 HCMVVGVEGGGKRSLVRLASFAAGYQVFTI  478 (567)
Q Consensus       449 h~LLvG~~GsGr~sl~rlaa~i~~~~~~~i  478 (567)
                      +++|+|++||||+|++|+.|-..++.++..
T Consensus         4 ~I~l~G~~GsGKSTvak~La~~L~~~~id~   33 (169)
T d1kaga_           4 NIFLVGPMGAGKSTIGRQLAQQLNMEFYDS   33 (169)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHTTCEEEEH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCCeEee
Confidence            689999999999999999998889887654

>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=94.44  E-value=0.0063  Score=53.19  Aligned_cols=26  Identities=19%  Similarity=0.299  Sum_probs=21.9

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ++=|++.|++|||||++++.+...+.
T Consensus         1 ~kiI~i~G~~GsGKsT~~~~L~~~l~   26 (190)
T d1khta_           1 NKVVVVTGVPGVGSTTSSQLAMDNLR   26 (190)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHH
Confidence            35588999999999999998877664

>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=94.41  E-value=0.0068  Score=55.42  Aligned_cols=26  Identities=35%  Similarity=0.415  Sum_probs=20.8

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .++-++|+||||+|||+++..+-..+
T Consensus         5 ~~~vi~lvGptGvGKTTTiaKLA~~~   30 (207)
T d1okkd2           5 KGRVVLVVGVNGVGKTTTIAKLGRYY   30 (207)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            34568999999999999998875543

>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=94.31  E-value=0.044  Score=49.30  Aligned_cols=115  Identities=11%  Similarity=0.098  Sum_probs=68.0

Q ss_pred             HHHHhcCCC-ceEEeccCCCcHhHHHH-HHHHHcCC-----eEEEEEec-CCCChhhHHHHHHHHHHHhccCCCcEEEEE
Q psy12736        440 HRALRLSRG-HCMVVGVEGGGKRSLVR-LASFAAGY-----QVFTIQLS-RGYNEASFKEDLKSLYNLLGVKNQATVFLF  511 (567)
Q Consensus       440 ~RvL~~p~G-h~LLvG~~GsGr~sl~r-laa~i~~~-----~~~~i~~~-k~y~~~~f~edLk~~~~~ag~~~~~~vfl~  511 (567)
                      .|++.+..+ |+|+.|++|+||+++++ ||.++...     +++.|... ++++..+-|+ +.+.+......++.-|+++
T Consensus         7 ~~~i~~~~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~~~i~~~~~~I~Id~IR~-i~~~~~~~~~~~~~KviII   85 (198)
T d2gnoa2           7 KRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDDIRT-IKDFLNYSPELYTRKYVIV   85 (198)
T ss_dssp             HHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCHHHHHH-HHHHHTSCCSSSSSEEEEE
T ss_pred             HHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhccccCCCCEEEEeCCcCCCCHHHHHH-HHHHHhhCcccCCCEEEEE
Confidence            445666555 56899999999999976 45555433     57777654 4677776664 5555555556677778888


Q ss_pred             ecCcccchhhhHHhh-hccCCc-----cccCcchhHHHHHHHhhccccceeeee
Q psy12736        512 TAAEIVEEGYQVFTI-QLSRGY-----NEASFKEDLKSLYNLLGVKNQATVFLF  559 (567)
Q Consensus       512 ~d~qi~~e~fle~in-lL~~Ge-----vp~Lf~~eE~~~i~~~~~~~~~~~~~~  559 (567)
                      .+.+-...   +.-| ||..=|     .-=++..+..+.|. .+++..+..+-+
T Consensus        86 d~ad~l~~---~aqNaLLK~LEEPp~~t~fiLit~~~~~ll-~TI~SRC~~i~~  135 (198)
T d2gnoa2          86 HDCERMTQ---QAANAFLKALEEPPEYAVIVLNTRRWHYLL-PTIKSRVFRVVV  135 (198)
T ss_dssp             TTGGGBCH---HHHHHTHHHHHSCCTTEEEEEEESCGGGSC-HHHHTTSEEEEC
T ss_pred             eCccccch---hhhhHHHHHHhCCCCCceeeeccCChhhCH-HHHhcceEEEeC
Confidence            77666554   2333 332221     11233344444554 555555555443

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=94.21  E-value=0.12  Score=48.78  Aligned_cols=52  Identities=17%  Similarity=0.162  Sum_probs=33.5

Q ss_pred             CCCceEEeccCCCcHhHHHHHHHHHcC------C-eEEEEEecCCCChhhHHHHHHHHH
Q psy12736        446 SRGHCMVVGVEGGGKRSLVRLASFAAG------Y-QVFTIQLSRGYNEASFKEDLKSLY  497 (567)
Q Consensus       446 p~Gh~LLvG~~GsGr~sl~rlaa~i~~------~-~~~~i~~~k~y~~~~f~edLk~~~  497 (567)
                      +.+.+.++|+||.||++|++-+..-..      + .++-+.+++.++.......+..++
T Consensus        43 ~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~l~~~~~~~~  101 (277)
T d2a5yb3          43 DSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILL  101 (277)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCHHHHHHHHHHHH
Confidence            345668999999999999987654321      1 244567777776554444444433

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=94.18  E-value=0.022  Score=58.01  Aligned_cols=36  Identities=17%  Similarity=0.313  Sum_probs=33.1

Q ss_pred             CCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecC
Q psy12736        447 RGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSR  482 (567)
Q Consensus       447 ~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k  482 (567)
                      ..|+||+|++||||+-|+|-.|-+.+-+++..+.|+
T Consensus        49 ksNILliGPTGvGKTlLAr~LAk~l~VPFv~~daT~   84 (443)
T d1g41a_          49 PKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATK   84 (443)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEGGG
T ss_pred             cccEEEECCCCCCHHHHHHHHHHHhCCCEEEeecce
Confidence            359999999999999999999999999999998775

>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=94.13  E-value=0.0041  Score=55.20  Aligned_cols=26  Identities=23%  Similarity=0.234  Sum_probs=20.9

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      |.-++|+|++|||||++.+.+-+.+.
T Consensus        19 g~vI~L~G~pGSGKTTiAk~La~~l~   44 (195)
T d1x6va3          19 GCTVWLTGLSGAGKTTVSMALEEYLV   44 (195)
T ss_dssp             CEEEEEESSCHHHHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            34577999999999999988766653

>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=94.13  E-value=0.011  Score=51.49  Aligned_cols=23  Identities=26%  Similarity=0.468  Sum_probs=20.6

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      -|+++|++|+|||+++++++.+-
T Consensus         4 Ki~lvG~~~vGKTsli~r~~~~~   26 (168)
T d2atva1           4 KLAIFGRAGVGKSALVVRFLTKR   26 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            47999999999999999999753

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=94.09  E-value=0.011  Score=58.85  Aligned_cols=25  Identities=28%  Similarity=0.476  Sum_probs=21.2

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..++|++||||||||-+++.+-+.+
T Consensus        68 ~~niLfiGPTGvGKTElAk~LA~~~   92 (364)
T d1um8a_          68 KSNILLIGPTGSGKTLMAQTLAKHL   92 (364)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CcceeeeCCCCccHHHHHHHHHhhc
Confidence            4679999999999999998876543

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=94.09  E-value=0.015  Score=54.49  Aligned_cols=35  Identities=11%  Similarity=0.255  Sum_probs=27.3

Q ss_pred             hHHHHHHHHHhcCCCeEEeccCCCCchhhHHHHHh
Q psy12736        181 KLTWILSLMNEIKRPCIVVGDTGTSKTATMMNFLR  215 (567)
Q Consensus       181 R~~~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~  215 (567)
                      +...-++.+...+.||++.||+|||||.+++.+-.
T Consensus        11 ~~~~~~~~~a~~~~pvlI~Ge~GtGK~~~A~~ih~   45 (247)
T d1ny5a2          11 EILEKIKKISCAECPVLITGESGVGKEVVARLIHK   45 (247)
T ss_dssp             HHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHH
Confidence            33444666777899999999999999988876543

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=94.08  E-value=0.027  Score=51.37  Aligned_cols=25  Identities=24%  Similarity=0.295  Sum_probs=21.5

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|++++||+|||||.+++.+-+..
T Consensus        36 ~n~l~l~G~~G~GKTHLl~A~~~~~   60 (213)
T d1l8qa2          36 YNPIFIYGSVGTGKTHLLQAAGNEA   60 (213)
T ss_dssp             CSSEEEECSSSSSHHHHHHHHHHHH
T ss_pred             CCcEEEECCCCCcHHHHHHHHHHHh
Confidence            3679999999999999998877654

>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=94.07  E-value=0.0089  Score=53.18  Aligned_cols=24  Identities=8%  Similarity=0.088  Sum_probs=19.9

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..+++.||+|||||++++.+-+++
T Consensus         4 m~I~i~GppGsGKsT~a~~La~~~   27 (189)
T d1zaka1           4 LKVMISGAPASGKGTQCELIKTKY   27 (189)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            358899999999999998765554

>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=94.06  E-value=0.015  Score=50.52  Aligned_cols=30  Identities=27%  Similarity=0.461  Sum_probs=27.1

Q ss_pred             ceEEeccCCCcHhHHHHHHHHHcCCeEEEE
Q psy12736        449 HCMVVGVEGGGKRSLVRLASFAAGYQVFTI  478 (567)
Q Consensus       449 h~LLvG~~GsGr~sl~rlaa~i~~~~~~~i  478 (567)
                      +++|+|++||||+|+.|+.|-..++.++.+
T Consensus         3 ~IvliG~~G~GKSTig~~La~~l~~~fiD~   32 (165)
T d2iyva1           3 KAVLVGLPGSGKSTIGRRLAKALGVGLLDT   32 (165)
T ss_dssp             SEEEECSTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             cEEEECCCCCCHHHHHHHHHHHhCCCeEee
Confidence            478999999999999999999999998764

>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=94.02  E-value=0.026  Score=49.19  Aligned_cols=30  Identities=27%  Similarity=0.408  Sum_probs=27.2

Q ss_pred             ceEEeccCCCcHhHHHHHHHHHcCCeEEEE
Q psy12736        449 HCMVVGVEGGGKRSLVRLASFAAGYQVFTI  478 (567)
Q Consensus       449 h~LLvG~~GsGr~sl~rlaa~i~~~~~~~i  478 (567)
                      +++|+|++||||+|++++.|--.|+.++..
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~~Lg~~~id~   33 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELARALGYEFVDT   33 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHHTCEEEEH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhCCCEEeh
Confidence            578999999999999999999999998764

>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=94.00  E-value=0.013  Score=50.76  Aligned_cols=22  Identities=18%  Similarity=0.466  Sum_probs=20.0

Q ss_pred             CeEEeccCCCCchhhHHHHHhc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .|+++|++|+|||+++++++..
T Consensus         4 Kv~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           4 KMVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3899999999999999999865

>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=93.97  E-value=0.0094  Score=52.32  Aligned_cols=23  Identities=13%  Similarity=0.270  Sum_probs=19.6

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+++.||||||||++++.+..++
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1zina1           2 NLVLMGLPGAGKGTQAEKIVAAY   24 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            47899999999999998776654

>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=93.95  E-value=0.013  Score=52.85  Aligned_cols=25  Identities=24%  Similarity=0.332  Sum_probs=22.1

Q ss_pred             CCeEEeccCCCCchhhHHHHHhccC
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      +.|+++|++|+|||+++++++..-.
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~~~~   25 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLTGQY   25 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSCC
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCC
Confidence            5799999999999999999987543

>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=93.95  E-value=0.024  Score=49.12  Aligned_cols=30  Identities=20%  Similarity=0.327  Sum_probs=27.0

Q ss_pred             ceEEeccCCCcHhHHHHHHHHHcCCeEEEE
Q psy12736        449 HCMVVGVEGGGKRSLVRLASFAAGYQVFTI  478 (567)
Q Consensus       449 h~LLvG~~GsGr~sl~rlaa~i~~~~~~~i  478 (567)
                      +++|+|++||||+|+.+..|--.|+.++..
T Consensus         2 ~I~liG~~GsGKsTi~k~La~~l~~~~~d~   31 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARALAKDLDLVFLDS   31 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHTCEEEEH
T ss_pred             cEEEECCCCCCHHHHHHHHHHHhCCCEEec
Confidence            588999999999999999988889998864

>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=93.93  E-value=0.013  Score=50.85  Aligned_cols=24  Identities=25%  Similarity=0.475  Sum_probs=21.1

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .-|+++|++|+|||+++++++.+-
T Consensus         4 ~Ki~lvG~~~vGKTsLi~r~~~~~   27 (167)
T d1kaoa_           4 YKVVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCcCHHHHHHHHHhCC
Confidence            358999999999999999998753

>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=93.89  E-value=0.011  Score=52.88  Aligned_cols=22  Identities=18%  Similarity=0.412  Sum_probs=19.3

Q ss_pred             eEEeccCCCCchhhHHHHHhcc
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +++.||||||||++++.+.+++
T Consensus        11 I~i~GppGSGKsT~a~~La~~~   32 (196)
T d1ukza_          11 IFVLGGPGAGKGTQCEKLVKDY   32 (196)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6788999999999999887765

>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=93.89  E-value=0.0097  Score=54.50  Aligned_cols=22  Identities=27%  Similarity=0.297  Sum_probs=14.5

Q ss_pred             eEEeccCCCCchhhHHHHHhcc
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ++|+||||+|||+++..+-..+
T Consensus        15 i~lvGptGvGKTTTiAKLA~~~   36 (211)
T d1j8yf2          15 IMLVGVQGTGKATTAGKLAYFY   36 (211)
T ss_dssp             EEEECSCCC----HHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            7789999999999988776544

>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=93.89  E-value=0.01  Score=52.49  Aligned_cols=23  Identities=13%  Similarity=0.254  Sum_probs=20.0

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+++.||||||||++++.+-.++
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEKY   24 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            47899999999999998877765

>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=93.88  E-value=0.085  Score=47.84  Aligned_cols=50  Identities=18%  Similarity=0.240  Sum_probs=35.4

Q ss_pred             CCceEEeccCCCcHhHHHHHHHHHc------CCeEEEEEecCCCChhhHHHHHHHH
Q psy12736        447 RGHCMVVGVEGGGKRSLVRLASFAA------GYQVFTIQLSRGYNEASFKEDLKSL  496 (567)
Q Consensus       447 ~Gh~LLvG~~GsGr~sl~rlaa~i~------~~~~~~i~~~k~y~~~~f~edLk~~  496 (567)
                      .+|++|.|++|+||+++++..|.-.      ......+..+...+.....+.++..
T Consensus        33 ~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (237)
T d1sxjd2          33 LPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKVKNF   88 (237)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHTTHHHHH
T ss_pred             CCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheeccccccchHHHHHHHHH
Confidence            3679999999999999999888643      4566677665555555444555544

>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=93.86  E-value=0.0099  Score=59.06  Aligned_cols=41  Identities=24%  Similarity=0.220  Sum_probs=28.8

Q ss_pred             cchhhHHHHHHHHHh---cCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        177 TDSTKLTWILSLMNE---IKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       177 ~dtvR~~~ll~~ll~---~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ++.....+ +..++.   .++.++++||||||||++++.+.+.+.
T Consensus       136 ~~~~i~~~-l~~~~~~~~~~~~~~~~g~~~~gk~~~~~~~~~~~~  179 (362)
T d1svma_         136 MDSVVYDF-LKCMVYNIPKKRYWLFKGPIDSGKTTLAAALLELCG  179 (362)
T ss_dssp             HHHHHHHH-HHHHHHCCTTCCEEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             hHHHHHHH-HHHHHhCCCCcCeEEEECCCCCCHHHHHHHHHHHcC
Confidence            33343443 444443   345699999999999999999988764

>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=93.85  E-value=0.013  Score=51.15  Aligned_cols=23  Identities=30%  Similarity=0.629  Sum_probs=20.4

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      -|+++|++|+|||+++++++..-
T Consensus         5 KivvvG~~~vGKTsli~r~~~~~   27 (173)
T d2a5ja1           5 KYIIIGDTGVGKSCLLLQFTDKR   27 (173)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHhcCC
Confidence            38899999999999999998753

>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=93.79  E-value=0.011  Score=51.60  Aligned_cols=24  Identities=21%  Similarity=0.445  Sum_probs=20.9

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .-|+++|++|+|||+++++++.+-
T Consensus         3 ~Ki~viG~~~vGKTsLi~r~~~~~   26 (171)
T d2erxa1           3 YRVAVFGAGGVGKSSLVLRFVKGT   26 (171)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTCC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCC
Confidence            358999999999999999998753

>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=93.74  E-value=0.015  Score=50.48  Aligned_cols=30  Identities=27%  Similarity=0.407  Sum_probs=24.3

Q ss_pred             HHHHhcCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        187 SLMNEIKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       187 ~~ll~~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ..+-+....|+++|.+|+|||++++++...
T Consensus         9 ~~~~~k~~kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1           9 RLFNHQEHKVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             HHHTTSCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             HHhCCCeEEEEEECCCCCCHHHHHHHHhcC
Confidence            344456678999999999999999987653

>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=93.74  E-value=0.015  Score=50.36  Aligned_cols=23  Identities=13%  Similarity=0.374  Sum_probs=20.5

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      -|+++|.+|+|||+++++++.+-
T Consensus         5 KivlvG~~~vGKTsLi~r~~~~~   27 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCENK   27 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47999999999999999998753

>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=93.73  E-value=0.05  Score=53.82  Aligned_cols=39  Identities=15%  Similarity=0.284  Sum_probs=33.7

Q ss_pred             hcCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEecC
Q psy12736        444 RLSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLSR  482 (567)
Q Consensus       444 ~~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~k  482 (567)
                      ..|-|++|++|++|+||+.++|-.|...+..+..++.++
T Consensus        65 ~~p~~niLfiGPTGvGKTElAk~LA~~~~~~~ir~D~s~  103 (364)
T d1um8a_          65 ELSKSNILLIGPTGSGKTLMAQTLAKHLDIPIAISDATS  103 (364)
T ss_dssp             TCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEGGG
T ss_pred             cCCCcceeeeCCCCccHHHHHHHHHhhcccceeehhhhh
Confidence            458999999999999999999977777788888887764

>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=93.67  E-value=0.013  Score=50.12  Aligned_cols=24  Identities=17%  Similarity=0.318  Sum_probs=21.0

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ...|+++|++|+|||++++++...
T Consensus         5 e~kI~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           5 EMRILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCC
Confidence            345899999999999999998875

>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=93.64  E-value=0.017  Score=50.32  Aligned_cols=22  Identities=14%  Similarity=0.460  Sum_probs=20.0

Q ss_pred             eEEeccCCCCchhhHHHHHhcc
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l  217 (567)
                      |+++|++|+|||+++++++.+-
T Consensus         8 i~vvG~~~vGKTsLi~~l~~~~   29 (169)
T d3raba_           8 ILIIGNSSVGKTSFLFRYADDS   29 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHcCC
Confidence            8999999999999999998753

>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=93.59  E-value=0.011  Score=52.06  Aligned_cols=23  Identities=17%  Similarity=0.419  Sum_probs=19.9

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+++.||||||||++.+.+-.++
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~~   24 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEKL   24 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            57899999999999998877665

>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=93.58  E-value=0.012  Score=52.68  Aligned_cols=22  Identities=27%  Similarity=0.286  Sum_probs=19.3

Q ss_pred             eEEeccCCCCchhhHHHHHhcc
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l  217 (567)
                      |+++|.||||||++.+.+-+.+
T Consensus         5 i~l~GlpgsGKSTla~~L~~~l   26 (213)
T d1bifa1           5 IVMVGLPARGKTYISKKLTRYL   26 (213)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            5789999999999999887655

>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=93.58  E-value=0.017  Score=50.23  Aligned_cols=23  Identities=13%  Similarity=0.520  Sum_probs=20.5

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      -|+++|++|+|||+++.+++..-
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~~   30 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVKGQ   30 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47899999999999999998754

>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=93.55  E-value=0.017  Score=50.93  Aligned_cols=28  Identities=36%  Similarity=0.591  Sum_probs=22.8

Q ss_pred             CeEEeccCCCCchhhHHHHHhccCCCcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSLSPDKY  222 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l~~~~~  222 (567)
                      -|+++|++|+|||+++++++.+--++.+
T Consensus         4 KivliG~~~vGKTsli~r~~~~~f~~~~   31 (179)
T d1m7ba_           4 KIVVVGDSQCGKTALLHVFAKDCFPENY   31 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSCCCSSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCCCCCcc
Confidence            4799999999999999999986433433

>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=93.52  E-value=0.018  Score=49.93  Aligned_cols=23  Identities=26%  Similarity=0.489  Sum_probs=20.6

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      -|+++|++|+|||+++++++.+-
T Consensus         5 Ki~viG~~~vGKTsli~~l~~~~   27 (166)
T d1ctqa_           5 KLVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            48999999999999999998753

>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=93.49  E-value=0.026  Score=48.41  Aligned_cols=30  Identities=20%  Similarity=0.392  Sum_probs=26.3

Q ss_pred             ceEEeccCCCcHhHHHHHHHHHcCCeEEEE
Q psy12736        449 HCMVVGVEGGGKRSLVRLASFAAGYQVFTI  478 (567)
Q Consensus       449 h~LLvG~~GsGr~sl~rlaa~i~~~~~~~i  478 (567)
                      +++|+|++||||+|+++..|--.++.++.+
T Consensus         6 ~I~i~G~pGsGKTTia~~La~~l~~~~i~~   35 (173)
T d1rkba_           6 NILLTGTPGVGKTTLGKELASKSGLKYINV   35 (173)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCcEEec
Confidence            578999999999999999988889888753

>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=93.47  E-value=0.014  Score=51.38  Aligned_cols=23  Identities=13%  Similarity=0.174  Sum_probs=19.6

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .+++.||||||||+..+.+.+++
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~~   24 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEKY   24 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999998777665

>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=93.46  E-value=0.018  Score=49.80  Aligned_cols=23  Identities=26%  Similarity=0.537  Sum_probs=20.5

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      -|+++|++|+|||+++++++.+-
T Consensus         6 KivlvG~~~vGKTsli~~~~~~~   28 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTEKK   28 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            38999999999999999998753

>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=93.46  E-value=0.017  Score=50.29  Aligned_cols=24  Identities=33%  Similarity=0.559  Sum_probs=21.2

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .-|+++|.+|+|||+++++++.+-
T Consensus         6 ~Ki~lvG~~~vGKTsLi~r~~~~~   29 (171)
T d2erya1           6 YRLVVVGGGGVGKSALTIQFIQSY   29 (171)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCC
Confidence            459999999999999999998753

>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=93.46  E-value=0.017  Score=50.50  Aligned_cols=23  Identities=35%  Similarity=0.613  Sum_probs=20.6

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .|+++|++|+|||+++++++.+-
T Consensus         8 Kv~lvG~~~vGKTsLi~r~~~~~   30 (173)
T d2fn4a1           8 KLVVVGGGGVGKSALTIQFIQSY   30 (173)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            58999999999999999998753

>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=93.41  E-value=0.019  Score=49.88  Aligned_cols=23  Identities=13%  Similarity=0.447  Sum_probs=20.6

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      -|+++|++|+|||+++++++.+-
T Consensus         5 Ki~vvG~~~vGKTsLi~~~~~~~   27 (170)
T d1ek0a_           5 KLVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47899999999999999998764

>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=93.40  E-value=0.018  Score=52.73  Aligned_cols=23  Identities=35%  Similarity=0.489  Sum_probs=20.6

Q ss_pred             eEEeccCCCCchhhHHHHHhccC
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      |+++|++|+|||++++++++.+.
T Consensus         3 i~v~G~~GsGKTTLl~~ll~~~~   25 (244)
T d1yrba1           3 VVFVGTAGSGKTTLTGEFGRYLE   25 (244)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHT
T ss_pred             EEEEcCCCCcHHHHHHHHHHHHh
Confidence            67999999999999999998654

>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=93.38  E-value=0.012  Score=57.36  Aligned_cols=26  Identities=23%  Similarity=0.254  Sum_probs=20.4

Q ss_pred             cCCCe-EEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPC-IVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pv-Ll~GptGtGKT~~i~~~l~~l  217 (567)
                      ..+.+ |++||||||||.+++.+-..+
T Consensus       121 ~~~g~~l~~G~pG~GKT~la~ala~~~  147 (321)
T d1w44a_         121 YASGMVIVTGKGNSGKTPLVHALGEAL  147 (321)
T ss_dssp             EESEEEEEECSSSSCHHHHHHHHHHHH
T ss_pred             cCCceEEEECCCCccHHHHHHHHHHHh
Confidence            34454 558999999999999887765

>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=93.37  E-value=0.019  Score=49.68  Aligned_cols=27  Identities=26%  Similarity=0.513  Sum_probs=22.2

Q ss_pred             CeEEeccCCCCchhhHHHHHhccCCCc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSLSPDK  221 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l~~~~  221 (567)
                      .|+++|.+|+|||+++++++..--.+.
T Consensus         5 KivvvG~~~vGKTsli~r~~~~~f~~~   31 (167)
T d1c1ya_           5 KLVVLGSGGVGKSALTVQFVQGIFVEK   31 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHCCCCCS
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCCc
Confidence            489999999999999999987643333

>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=93.37  E-value=0.016  Score=49.15  Aligned_cols=21  Identities=14%  Similarity=0.195  Sum_probs=19.2

Q ss_pred             eEEeccCCCCchhhHHHHHhc
Q psy12736        196 CIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~  216 (567)
                      ++++|++|+|||++++++...
T Consensus         3 I~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           3 LLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            689999999999999998865

>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=93.34  E-value=0.015  Score=50.50  Aligned_cols=23  Identities=22%  Similarity=0.404  Sum_probs=19.5

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .++|+|++|||||++.+.+-.++
T Consensus         3 ~IvliG~~G~GKSTig~~La~~l   25 (165)
T d2iyva1           3 KAVLVGLPGSGKSTIGRRLAKAL   25 (165)
T ss_dssp             SEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHHHh
Confidence            47888999999999998876665

>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=93.34  E-value=0.011  Score=51.49  Aligned_cols=24  Identities=25%  Similarity=0.320  Sum_probs=21.1

Q ss_pred             EEeccCCCCchhhHHHHHhccCCC
Q psy12736        197 IVVGDTGTSKTATMMNFLRSLSPD  220 (567)
Q Consensus       197 Ll~GptGtGKT~~i~~~l~~l~~~  220 (567)
                      -++|++|||||+++.++++.+...
T Consensus         5 ~I~G~~gSGKTTli~~l~~~L~~~   28 (165)
T d1xjca_           5 QVVGYKHSGKTTLMEKWVAAAVRE   28 (165)
T ss_dssp             EEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEeCCCCCHHHHHHHHHHHHHhC
Confidence            489999999999999999887643

>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=93.33  E-value=0.018  Score=50.90  Aligned_cols=23  Identities=22%  Similarity=0.460  Sum_probs=20.3

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .|+++|++|+|||++++++++.-
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~~~   29 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTDNK   29 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHCSC
T ss_pred             EEEEECCCCcCHHHHHHHHhcCC
Confidence            38999999999999999998653

>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=93.30  E-value=0.02  Score=50.13  Aligned_cols=24  Identities=21%  Similarity=0.351  Sum_probs=21.0

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +-|+++|++|+|||+++.++...-
T Consensus         3 ~KivvvG~~~vGKTsLi~~~~~~~   26 (177)
T d1kmqa_           3 KKLVIVGDGACGKTCLLIVNSKDQ   26 (177)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCC
Confidence            358999999999999999998764

>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=93.30  E-value=0.13  Score=46.68  Aligned_cols=86  Identities=16%  Similarity=0.196  Sum_probs=51.7

Q ss_pred             eEEeccCCCcHhHHHHHHHHHc---CCeEEEEEe----------------------------------cCCCChhhHHHH
Q psy12736        450 CMVVGVEGGGKRSLVRLASFAA---GYQVFTIQL----------------------------------SRGYNEASFKED  492 (567)
Q Consensus       450 ~LLvG~~GsGr~sl~rlaa~i~---~~~~~~i~~----------------------------------~k~y~~~~f~ed  492 (567)
                      +.|.|++||||+-|++-+|.-.   +..+.-+..                                  ..--+..+|.+.
T Consensus        39 l~l~G~~G~GKTHLl~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dll~iDDi~~i~~~~~~~~~  118 (213)
T d1l8qa2          39 IFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSADDFAQAMVEHLKKGTINEFRNMYKSVDLLLLDDVQFLSGKERTQIE  118 (213)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHHHHHHHHHHHHHHTCHHHHHHHHHTCSEEEEECGGGGTTCHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHHhccCccceEEechHHHHHHHHHHHHccchhhHHHHHhhccchhhhhhhhhcCchHHHHH
Confidence            7899999999999986655432   233333221                                  111134566777


Q ss_pred             HHHHHHHhccCCCcEEEEEecCcccc-hhhhHHhh-hccCCccccC
Q psy12736        493 LKSLYNLLGVKNQATVFLFTAAEIVE-EGYQVFTI-QLSRGYNEAS  536 (567)
Q Consensus       493 Lk~~~~~ag~~~~~~vfl~~d~qi~~-e~fle~in-lL~~Gevp~L  536 (567)
                      |-.++..+--.++++++-- +....+ +..++|+- =|.+|-+-.+
T Consensus       119 lf~lin~~~~~~~~iiits-~~~p~~l~~~~~dL~SRL~~g~~~~i  163 (213)
T d1l8qa2         119 FFHIFNTLYLLEKQIILAS-DRHPQKLDGVSDRLVSRFEGGILVEI  163 (213)
T ss_dssp             HHHHHHHHHHTTCEEEEEE-SSCGGGCTTSCHHHHHHHHTSEEEEC
T ss_pred             HHHHHHHHhhccceEEEec-CCcchhccccchHHHHHhhCceEEEE
Confidence            7777777765666655543 332222 34567777 7777876655

>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=93.29  E-value=0.014  Score=51.82  Aligned_cols=22  Identities=18%  Similarity=0.385  Sum_probs=19.2

Q ss_pred             eEEeccCCCCchhhHHHHHhcc
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +++.||||||||+.++.+..++
T Consensus         4 I~i~GppGSGKsT~a~~La~~~   25 (194)
T d1teva_           4 VFVLGGPGAGKGTQCARIVEKY   25 (194)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6899999999999998877765

>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=93.24  E-value=0.016  Score=52.34  Aligned_cols=24  Identities=25%  Similarity=0.470  Sum_probs=20.7

Q ss_pred             CCeEEe-ccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVV-GDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~-GptGtGKT~~i~~~l~~l  217 (567)
                      .||+.+ ||||||||+..+.+.+++
T Consensus         3 ~piI~I~GppGSGKgT~ak~La~~~   27 (225)
T d1ckea_           3 APVITIDGPSGAGKGTLCKAMAEAL   27 (225)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            477776 999999999999988876

>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=93.24  E-value=0.021  Score=49.20  Aligned_cols=23  Identities=17%  Similarity=0.394  Sum_probs=20.3

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      -|+++|.+|+|||+++++++.+-
T Consensus         2 Kv~vvG~~~vGKTsLi~r~~~~~   24 (164)
T d1yzqa1           2 KLVFLGEQSVGKTSLITRFMYDS   24 (164)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            37899999999999999998753

>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=93.23  E-value=0.021  Score=49.47  Aligned_cols=24  Identities=17%  Similarity=0.371  Sum_probs=20.9

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .-|+++|++|+|||+++++++.+-
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~~~   28 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVEGQ   28 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCcCHHHHHHHHHhCC
Confidence            458999999999999999998653

>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=93.17  E-value=0.022  Score=49.04  Aligned_cols=22  Identities=32%  Similarity=0.487  Sum_probs=20.1

Q ss_pred             CeEEeccCCCCchhhHHHHHhc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .|+++|++|+|||+++++++..
T Consensus         4 Kv~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           4 KIIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3899999999999999999875

>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=93.15  E-value=0.022  Score=50.21  Aligned_cols=22  Identities=32%  Similarity=0.640  Sum_probs=20.1

Q ss_pred             eEEeccCCCCchhhHHHHHhcc
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l  217 (567)
                      |+++|.+|||||+++++++..-
T Consensus         5 v~vvG~~~vGKSSLi~~l~~~~   26 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVNKK   26 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            8999999999999999998754

>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=93.12  E-value=0.012  Score=53.79  Aligned_cols=25  Identities=24%  Similarity=0.293  Sum_probs=19.7

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +.-++|+||+|+|||+++..+-..+
T Consensus        10 ~~vi~lvGp~GvGKTTTiaKLA~~~   34 (207)
T d1ls1a2          10 RNLWFLVGLQGSGKTTTAAKLALYY   34 (207)
T ss_dssp             SEEEEEECCTTTTHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            3346789999999999998876544

>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=93.09  E-value=0.023  Score=50.10  Aligned_cols=23  Identities=30%  Similarity=0.671  Sum_probs=20.7

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      -++++|.+|+|||+++++++.+-
T Consensus         7 KivviG~~~vGKTsli~~~~~~~   29 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTNA   29 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            48999999999999999999764

>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=93.03  E-value=0.086  Score=47.87  Aligned_cols=22  Identities=36%  Similarity=0.539  Sum_probs=18.9

Q ss_pred             eEEeccCCCcHh-HHHHHHHHHc
Q psy12736        450 CMVVGVEGGGKR-SLVRLASFAA  471 (567)
Q Consensus       450 ~LLvG~~GsGr~-sl~rlaa~i~  471 (567)
                      ++|+|+.|+||+ +++|||++..
T Consensus        12 i~lvGptGvGKTTTiAKLA~~~~   34 (211)
T d2qy9a2          12 ILMVGVNGVGKTTTIGKLARQFE   34 (211)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            479999999995 5699999875

>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=93.03  E-value=0.024  Score=48.94  Aligned_cols=23  Identities=17%  Similarity=0.043  Sum_probs=20.2

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .++++|++|+|||++++++..+-
T Consensus         4 ki~i~G~~~~GKTsLl~~l~~~~   26 (164)
T d1zd9a1           4 ELTLVGLQYSGKTTFVNVIASGQ   26 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            47899999999999999987653

>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=93.01  E-value=0.02  Score=51.19  Aligned_cols=25  Identities=12%  Similarity=0.248  Sum_probs=21.2

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ...++|.||||||||++.+.+-.++
T Consensus         6 ~mrIiliG~PGSGKtT~a~~La~~~   30 (189)
T d2ak3a1           6 LLRAAIMGAPGSGKGTVSSRITKHF   30 (189)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHB
T ss_pred             ceeEEEECCCCCCHHHHHHHHHHHH
Confidence            4568899999999999998877765

>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=92.97  E-value=0.039  Score=47.42  Aligned_cols=28  Identities=21%  Similarity=0.483  Sum_probs=23.4

Q ss_pred             cCCC-ceEEeccCCCcHhHHHHHHHHHcC
Q psy12736        445 LSRG-HCMVVGVEGGGKRSLVRLASFAAG  472 (567)
Q Consensus       445 ~p~G-h~LLvG~~GsGr~sl~rlaa~i~~  472 (567)
                      +|.| |++|.|++||||+|+++..|--.+
T Consensus         2 ~pk~~~I~i~G~~GsGKTT~~~~La~~l~   30 (174)
T d1y63a_           2 QPKGINILITGTPGTGKTSMAEMIAAELD   30 (174)
T ss_dssp             CCSSCEEEEECSTTSSHHHHHHHHHHHST
T ss_pred             CCCCCEEEEEeCCCCCHHHHHHHHHHHhC
Confidence            5666 789999999999999998876554

>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=92.96  E-value=0.018  Score=50.78  Aligned_cols=24  Identities=17%  Similarity=0.326  Sum_probs=20.3

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..+++.||+|||||++.+.+-.++
T Consensus         3 mrIvl~G~pGSGKtT~a~~La~~~   26 (180)
T d1akya1           3 IRMVLIGPPGAGKGTQAPNLQERF   26 (180)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            458899999999999998877654

>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=92.95  E-value=0.024  Score=49.29  Aligned_cols=23  Identities=26%  Similarity=0.572  Sum_probs=20.5

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      -|+++|++|+|||++++++..+-
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~~   29 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQGL   29 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            38999999999999999998753

>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=92.90  E-value=0.024  Score=49.59  Aligned_cols=23  Identities=26%  Similarity=0.588  Sum_probs=20.6

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .++++|++|+|||+++++++..-
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~~   28 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRNE   28 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            48999999999999999998753

>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=92.89  E-value=0.04  Score=50.02  Aligned_cols=46  Identities=20%  Similarity=0.122  Sum_probs=32.1

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhccCCCcceeee----c-CCCCCceEE
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSLSPDKYLVIA----E-LPPTPAKFH  236 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l~~~~~~~~~----e-gPp~gkk~v  236 (567)
                      ..|.=+++.|+||+|||+++.++..+..........    + ++..+.+++
T Consensus        32 ~~G~l~~i~G~~G~GKT~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (258)
T d2i1qa2          32 ESQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAV   82 (258)
T ss_dssp             ETTEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEE
T ss_pred             cCCeEEEEEeCCCCCHHHHHHHHHHHHHhcCCCceEEeecccchhcCceEE
Confidence            357789999999999999999998776443322211    1 455566665

>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=92.88  E-value=0.014  Score=50.77  Aligned_cols=26  Identities=12%  Similarity=0.124  Sum_probs=21.7

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      +....++|+|++|+|||++++++...
T Consensus        11 ~k~~kI~lvG~~~vGKTsLl~~l~~~   36 (186)
T d1f6ba_          11 KKTGKLVFLGLDNAGKTTLLHMLKDD   36 (186)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHHSCC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            34557999999999999999988654

>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=92.88  E-value=0.017  Score=50.56  Aligned_cols=23  Identities=26%  Similarity=0.358  Sum_probs=19.2

Q ss_pred             eEEeccCCCCchhhHHHHHhccC
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ++++|++|||||++++.+-..+.
T Consensus         4 ivi~G~~GsGKTT~~~~La~~L~   26 (194)
T d1nksa_           4 GIVTGIPGVGKSTVLAKVKEILD   26 (194)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            46789999999999988766654

>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=92.87  E-value=0.022  Score=51.87  Aligned_cols=32  Identities=13%  Similarity=0.062  Sum_probs=25.9

Q ss_pred             HHHHHh----cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        186 LSLMNE----IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       186 l~~ll~----~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ++.++.    .|.-+++.||||||||+++.+++.+.
T Consensus        23 LD~ll~GGi~~G~~~li~G~pGsGKT~l~lq~~~~~   58 (251)
T d1szpa2          23 LDTLLGGGVETGSITELFGEFRTGKSQLCHTLAVTC   58 (251)
T ss_dssp             HHHHHTSSEESSSEEEEEESTTSSHHHHHHHHTTTT
T ss_pred             HHhhhCCCCcCCeEEEEEcCCCCCHHHHHHHHHHHh
Confidence            445554    57889999999999999999987653

>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=92.85  E-value=0.017  Score=54.00  Aligned_cols=27  Identities=19%  Similarity=0.178  Sum_probs=22.9

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|..+-++||+|+|||++++-++.-+
T Consensus        27 ~~Ge~vaIvG~sGsGKSTLl~ll~gl~   53 (241)
T d2pmka1          27 KQGEVIGIVGRSGSGKSTLTKLIQRFY   53 (241)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhcC
Confidence            358899999999999999998776644

>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=92.84  E-value=0.025  Score=49.98  Aligned_cols=23  Identities=35%  Similarity=0.700  Sum_probs=20.5

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .|+++|.+|+|||+++++++.+-
T Consensus        11 Ki~lvG~~~vGKTsLi~r~~~~~   33 (185)
T d2atxa1          11 KCVVVGDGAVGKTCLLMSYANDA   33 (185)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhhCC
Confidence            38999999999999999998754

>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=92.81  E-value=0.025  Score=49.35  Aligned_cols=22  Identities=27%  Similarity=0.564  Sum_probs=20.1

Q ss_pred             eEEeccCCCCchhhHHHHHhcc
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l  217 (567)
                      |+++|++|+|||+++++++.+-
T Consensus         9 I~vvG~~~vGKSSli~~~~~~~   30 (174)
T d1wmsa_           9 VILLGDGGVGKSSLMNRYVTNK   30 (174)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            8999999999999999998753

>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=92.77  E-value=0.025  Score=49.09  Aligned_cols=22  Identities=32%  Similarity=0.585  Sum_probs=19.9

Q ss_pred             CeEEeccCCCCchhhHHHHHhc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      -|+++|++|+|||+++++++.+
T Consensus         6 KivlvG~~~vGKTsli~~~~~~   27 (168)
T d1u8za_           6 KVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3899999999999999998865

>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=92.69  E-value=0.026  Score=48.72  Aligned_cols=22  Identities=23%  Similarity=0.646  Sum_probs=20.0

Q ss_pred             eEEeccCCCCchhhHHHHHhcc
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l  217 (567)
                      |+++|++|+|||+++++++..-
T Consensus         5 i~vvG~~~vGKTSli~~l~~~~   26 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVEDK   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7899999999999999998754

>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=92.69  E-value=0.026  Score=49.07  Aligned_cols=23  Identities=35%  Similarity=0.678  Sum_probs=20.3

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .|+++|++|+|||+++++++.+-
T Consensus         6 Ki~lvG~~~vGKTsll~~~~~~~   28 (169)
T d1x1ra1           6 KLVVVGDGGVGKSALTIQFFQKI   28 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            37899999999999999998753

>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=92.65  E-value=0.028  Score=48.85  Aligned_cols=22  Identities=32%  Similarity=0.653  Sum_probs=19.8

Q ss_pred             eEEeccCCCCchhhHHHHHhcc
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ++++|++|+|||++++++..+-
T Consensus         5 i~~vG~~~vGKSsLi~~~~~~~   26 (175)
T d1ky3a_           5 VIILGDSGVGKTSLMHRYVNDK   26 (175)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHcCC
Confidence            7899999999999999988653

>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=92.60  E-value=0.034  Score=51.17  Aligned_cols=25  Identities=12%  Similarity=0.155  Sum_probs=21.8

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .++-..++|++|+|||++++.++..
T Consensus        94 ~~kt~~~~G~SGVGKSTLiN~L~~~  118 (225)
T d1u0la2          94 KGKISTMAGLSGVGKSSLLNAINPG  118 (225)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHSTT
T ss_pred             cCCeEEEECCCCCCHHHHHHhhcch
Confidence            4788899999999999999988654

>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=92.60  E-value=0.019  Score=49.20  Aligned_cols=24  Identities=8%  Similarity=0.212  Sum_probs=20.8

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      |..|+++|++|+|||+++++++.+
T Consensus         1 ~~kI~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           1 GMKVVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            346899999999999999998854

>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=92.58  E-value=0.016  Score=51.18  Aligned_cols=30  Identities=17%  Similarity=0.179  Sum_probs=22.9

Q ss_pred             hcCCCc---e-EEeccCCCcHhHHHHHHHHHcCC
Q psy12736        444 RLSRGH---C-MVVGVEGGGKRSLVRLASFAAGY  473 (567)
Q Consensus       444 ~~p~Gh---~-LLvG~~GsGr~sl~rlaa~i~~~  473 (567)
                      .+-.||   + +|+|++||||+|+++..|-..++
T Consensus        12 ~~~~~~~g~vI~L~G~pGSGKTTiAk~La~~l~~   45 (195)
T d1x6va3          12 GTRGGFRGCTVWLTGLSGAGKTTVSMALEEYLVC   45 (195)
T ss_dssp             SSSCSCCCEEEEEESSCHHHHHHHHHHHHHHHHH
T ss_pred             hhhcCCCCeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            344566   3 59999999999999988876543

>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=92.52  E-value=0.022  Score=49.05  Aligned_cols=23  Identities=17%  Similarity=0.244  Sum_probs=19.6

Q ss_pred             CCeEEeccCCCCchhhHHHHHhc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ..|+++|++|+|||++++++...
T Consensus         3 ~ki~ivG~~~~GKTsLi~~l~~~   25 (165)
T d1ksha_           3 LRLLMLGLDNAGKTTILKKFNGE   25 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEEEECCCCCCHHHHHHHHcCC
Confidence            35899999999999999987543

>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=92.51  E-value=0.03  Score=48.74  Aligned_cols=21  Identities=29%  Similarity=0.695  Sum_probs=19.6

Q ss_pred             eEEeccCCCCchhhHHHHHhc
Q psy12736        196 CIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~  216 (567)
                      |+++|.+|+|||++++++..+
T Consensus         8 I~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           8 FLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            899999999999999999865

>d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: HCV helicase domain
species: Human hepatitis C virus (HCV), different isolates [TaxId: 11103]

Probab=92.43  E-value=0.024  Score=47.36  Aligned_cols=25  Identities=12%  Similarity=0.082  Sum_probs=20.2

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ..+..++++|||+|||..+..++.+
T Consensus         7 ~~~~~ll~apTGsGKT~~~~~~~~~   31 (136)
T d1a1va1           7 SFQVAHLHAPTGSGKSTKVPAAYAA   31 (136)
T ss_dssp             SCEEEEEECCTTSCTTTHHHHHHHT
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHH
Confidence            4567899999999999988766653

>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=92.38  E-value=0.034  Score=47.79  Aligned_cols=27  Identities=19%  Similarity=0.384  Sum_probs=21.5

Q ss_pred             cCCCce-EEeccCCCcHhHHHHHHHHHc
Q psy12736        445 LSRGHC-MVVGVEGGGKRSLVRLASFAA  471 (567)
Q Consensus       445 ~p~Gh~-LLvG~~GsGr~sl~rlaa~i~  471 (567)
                      ..+|.+ +|+|.+||||+|+++..|...
T Consensus         3 ~~~g~~I~l~G~~GsGKTTia~~La~~L   30 (183)
T d1m8pa3           3 ATQGFTIFLTGYMNSGKDAIARALQVTL   30 (183)
T ss_dssp             TTCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            457776 599999999999998777443

>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=92.37  E-value=0.032  Score=48.17  Aligned_cols=22  Identities=32%  Similarity=0.625  Sum_probs=20.1

Q ss_pred             CeEEeccCCCCchhhHHHHHhc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .|+++|.+|+|||++++++...
T Consensus         6 Ki~lvG~~~vGKTsli~rl~~~   27 (167)
T d1z0ja1           6 KVCLLGDTGVGKSSIMWRFVED   27 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4899999999999999999875

>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=92.36  E-value=0.024  Score=51.24  Aligned_cols=28  Identities=21%  Similarity=0.178  Sum_probs=23.4

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ..|.-+-++||.|+|||++++-+..-++
T Consensus        25 ~~Gei~~l~G~NGsGKSTLl~~i~gl~~   52 (200)
T d1sgwa_          25 EKGNVVNFHGPNGIGKTTLLKTISTYLK   52 (200)
T ss_dssp             ETTCCEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhcccc
Confidence            4688899999999999999988766554

>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=92.33  E-value=0.02  Score=49.96  Aligned_cols=22  Identities=36%  Similarity=0.525  Sum_probs=18.5

Q ss_pred             CeEEeccCCCCchhhHHHHHhc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      -|+++|++|+|||+++++++..
T Consensus         5 Ki~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           5 KLVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEEECTTSSHHHHHHTTC--
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4899999999999999988765

>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=92.32  E-value=0.022  Score=53.49  Aligned_cols=27  Identities=15%  Similarity=0.170  Sum_probs=22.8

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|.-+-++||+|||||++++-++.-+
T Consensus        38 ~~Ge~vaivG~sGsGKSTLl~li~gl~   64 (251)
T d1jj7a_          38 RPGEVTALVGPNGSGKSTVAALLQNLY   64 (251)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhccc
Confidence            358899999999999999998766544

>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=92.32  E-value=0.022  Score=53.60  Aligned_cols=27  Identities=19%  Similarity=0.277  Sum_probs=22.3

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|..+-++||+|||||++++-++.-+
T Consensus        39 ~~Ge~iaivG~sGsGKSTLl~ll~gl~   65 (253)
T d3b60a1          39 PAGKTVALVGRSGSGKSTIASLITRFY   65 (253)
T ss_dssp             CTTCEEEEEECTTSSHHHHHHHHTTTT
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhccc
Confidence            358899999999999999997665543

>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=92.32  E-value=0.026  Score=48.93  Aligned_cols=22  Identities=32%  Similarity=0.629  Sum_probs=20.1

Q ss_pred             CeEEeccCCCCchhhHHHHHhc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      -++++|++|+|||+++++++..
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3899999999999999999875

>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=92.30  E-value=0.033  Score=49.41  Aligned_cols=23  Identities=30%  Similarity=0.658  Sum_probs=20.5

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      -|+++|++|+|||+++.+++..-
T Consensus         5 KvvllG~~~vGKTSli~r~~~~~   27 (191)
T d2ngra_           5 KCVVVGDGAVGKTCLLISYTTNK   27 (191)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            48999999999999999998754

>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=92.27  E-value=0.033  Score=49.60  Aligned_cols=22  Identities=18%  Similarity=0.563  Sum_probs=20.2

Q ss_pred             eEEeccCCCCchhhHHHHHhcc
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l  217 (567)
                      |+++|++|+|||+++++++..-
T Consensus         9 ivvvG~~~vGKTsli~~l~~~~   30 (194)
T d2bcgy1           9 LLLIGNSGVGKSCLLLRFSDDT   30 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCcCHHHHHHHHhhCC
Confidence            8899999999999999998754

>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=92.21  E-value=0.027  Score=50.24  Aligned_cols=22  Identities=18%  Similarity=0.311  Sum_probs=20.0

Q ss_pred             CeEEeccCCCCchhhHHHHHhc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .|+|+|++|+|||++++.+...
T Consensus         5 ~V~lvG~~n~GKTSLln~l~~~   26 (209)
T d1nrjb_           5 SIIIAGPQNSGKTSLLTLLTTD   26 (209)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999999875

>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=92.21  E-value=0.021  Score=49.71  Aligned_cols=25  Identities=12%  Similarity=0.174  Sum_probs=21.3

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ....|+++|++|+|||++++++...
T Consensus        11 k~~kIvlvG~~~vGKTSli~rl~~~   35 (173)
T d1e0sa_          11 KEMRILMLGLDAAGKTTILYKLKLG   35 (173)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHTTCC
T ss_pred             CeEEEEEECCCCCCHHHHHHHHhcC
Confidence            3457999999999999999987654

>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=92.20  E-value=0.025  Score=49.80  Aligned_cols=38  Identities=11%  Similarity=0.140  Sum_probs=25.5

Q ss_pred             hHHHHHHHHH--hcCCCe--EEeccCCCCchhhHHHHHhccC
Q psy12736        181 KLTWILSLMN--EIKRPC--IVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       181 R~~~ll~~ll--~~~~pv--Ll~GptGtGKT~~i~~~l~~l~  218 (567)
                      |..++.+..+  +.+.|+  -++||+|||||++++.+...+.
T Consensus         6 ~~~~~~~~~~~~~~~~~~iIgI~G~~GSGKSTla~~L~~~l~   47 (198)
T d1rz3a_           6 RIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQTLR   47 (198)
T ss_dssp             HHHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccCCCCEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            3444444443  334564  3789999999999998876553

>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=92.20  E-value=0.02  Score=54.33  Aligned_cols=21  Identities=33%  Similarity=0.689  Sum_probs=17.8

Q ss_pred             CCCeEEeccCCCCchhhHHHH
Q psy12736        193 KRPCIVVGDTGTSKTATMMNF  213 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~  213 (567)
                      ..|+++.|++|||||+++-..
T Consensus        14 ~~~~lI~g~aGTGKTt~l~~r   34 (306)
T d1uaaa1          14 TGPCLVLAGAGSGKTRVITNK   34 (306)
T ss_dssp             SSEEEECCCTTSCHHHHHHHH
T ss_pred             CCCEEEEeeCCccHHHHHHHH
Confidence            578999999999999876553

>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=92.08  E-value=0.14  Score=46.49  Aligned_cols=50  Identities=36%  Similarity=0.539  Sum_probs=27.4

Q ss_pred             eEEeccCCCcHh-HHHHHHHHHc--CCeEEEEEecCCCChhhHHHHHHHHHHHhc
Q psy12736        450 CMVVGVEGGGKR-SLVRLASFAA--GYQVFTIQLSRGYNEASFKEDLKSLYNLLG  501 (567)
Q Consensus       450 ~LLvG~~GsGr~-sl~rlaa~i~--~~~~~~i~~~k~y~~~~f~edLk~~~~~ag  501 (567)
                      ++|||+.|+||+ +++|||++..  +.++--|. ...|.... .|.|+..-...|
T Consensus        15 i~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit-~Dt~R~ga-~eQL~~~a~~l~   67 (211)
T d1j8yf2          15 IMLVGVQGTGKATTAGKLAYFYKKKGFKVGLVG-ADVYRPAA-LEQLQQLGQQIG   67 (211)
T ss_dssp             EEEECSCCC----HHHHHHHHHHHTTCCEEEEE-CCCSSHHH-HHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCceEEEE-eeccccch-hHHHHHhccccC
Confidence            578999999995 5699999875  33443333 23344433 244554444444

>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=92.00  E-value=0.034  Score=50.91  Aligned_cols=32  Identities=28%  Similarity=0.332  Sum_probs=26.8

Q ss_pred             HHHHHh----cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        186 LSLMNE----IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       186 l~~ll~----~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ++.++.    .+.-+++.||||||||+++.+++.+.
T Consensus        15 LD~~l~GGi~~gsl~li~G~pGsGKT~l~~qia~~~   50 (242)
T d1tf7a2          15 LDEMCGGGFFKDSIILATGATGTGKTLLVSRFVENA   50 (242)
T ss_dssp             HHHHTTSSEESSCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             HHHhhcCCCcCCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            455555    67889999999999999999998774

>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=91.96  E-value=0.028  Score=53.69  Aligned_cols=29  Identities=31%  Similarity=0.410  Sum_probs=23.8

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhccCC
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSLSP  219 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l~~  219 (567)
                      ..|.-+-++||+|+|||++++-++.-+++
T Consensus        60 ~~Ge~vaivG~nGsGKSTLl~~i~Gl~~p   88 (281)
T d1r0wa_          60 EKGEMLAITGSTGSGKTSLLMLILGELEA   88 (281)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHHTSSCC
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhCCCcC
Confidence            35777889999999999999888766543

>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=91.95  E-value=0.13  Score=46.56  Aligned_cols=55  Identities=24%  Similarity=0.436  Sum_probs=32.6

Q ss_pred             CCCce-EEeccCCCcHh-HHHHHHHHHcC--CeEEEEEecCCCChhhHHHHHHHHHHHhcc
Q psy12736        446 SRGHC-MVVGVEGGGKR-SLVRLASFAAG--YQVFTIQLSRGYNEASFKEDLKSLYNLLGV  502 (567)
Q Consensus       446 p~Gh~-LLvG~~GsGr~-sl~rlaa~i~~--~~~~~i~~~k~y~~~~f~edLk~~~~~ag~  502 (567)
                      |++.+ +|+|+.|+||+ +++|||++...  .++.-|. .-.|.... .|.||..-...|+
T Consensus         4 ~~~~vi~lvGptGvGKTTTiaKLA~~~~~~g~kV~lit-~Dt~R~gA-~eQL~~~a~~l~i   62 (207)
T d1okkd2           4 PKGRVVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCA-GDTFRAAG-GTQLSEWGKRLSI   62 (207)
T ss_dssp             CSSSEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEEC-CCCSSTTH-HHHHHHHHHHHTC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEE-eccccccc-hhhHhhcccccCc
Confidence            44444 89999999995 55999999864  4444332 22343322 2445555555543

>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=91.92  E-value=0.027  Score=54.67  Aligned_cols=40  Identities=13%  Similarity=0.220  Sum_probs=26.6

Q ss_pred             ChHHHHHHHHHHHHHHhhhhcccCcceEEecHHHHHHHHHH
Q psy12736        399 DYSAVGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRI  439 (567)
Q Consensus       399 d~~~l~~~~~~~l~~yn~~~~~~~~~~lvlf~dai~hi~ri  439 (567)
                      +.+.+.++++..++++.... .....++.+-++|+++++.-
T Consensus       218 ~~~~~~~I~~~~l~~~~~~l-~~~~i~l~~~~~a~~~l~~~  257 (315)
T d1r6bx3         218 STDVIHQVVDKFIVELQVQL-DQKGVSLEVSQEARNWLAEK  257 (315)
T ss_dssp             CHHHHHHHHHHHHHHHHHHH-HHTTEEEEECHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHHHHH-HhcCcchhhHHHHHHHHHHh
Confidence            34556666666666666432 14567888899999988764

>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=91.91  E-value=0.06  Score=47.43  Aligned_cols=33  Identities=15%  Similarity=0.221  Sum_probs=25.7

Q ss_pred             CCC-ceEEeccCCCcHhHHHHHHHHHcCCeEEEE
Q psy12736        446 SRG-HCMVVGVEGGGKRSLVRLASFAAGYQVFTI  478 (567)
Q Consensus       446 p~G-h~LLvG~~GsGr~sl~rlaa~i~~~~~~~i  478 (567)
                      |.| .++|+|++||||.|.+++.|--.|+..+.+
T Consensus         1 p~~~riil~G~pGSGKsT~a~~La~~~g~~~i~~   34 (190)
T d1ak2a1           1 PKGVRAVLLGPPGAGKGTQAPKLAKNFCVCHLAT   34 (190)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHHHHTCEEEEH
T ss_pred             CCccEEEEECCCCCCHHHHHHHHHHHhCCeEEeH
Confidence            444 478999999999999988887667765543

>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=91.86  E-value=0.04  Score=48.09  Aligned_cols=22  Identities=18%  Similarity=0.617  Sum_probs=19.9

Q ss_pred             eEEeccCCCCchhhHHHHHhcc
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l  217 (567)
                      |+++|++|+|||++++++..+-
T Consensus        10 i~vvG~~~vGKTsli~~l~~~~   31 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDDT   31 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            8999999999999999988753

>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=91.83  E-value=0.088  Score=48.40  Aligned_cols=37  Identities=19%  Similarity=0.334  Sum_probs=28.7

Q ss_pred             cCCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEec
Q psy12736        445 LSRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLS  481 (567)
Q Consensus       445 ~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~  481 (567)
                      ..+.++++.|++|+||+||++-++.-.+.....+...
T Consensus        27 ~~~~~i~i~G~~G~GKTsLl~~~~~~~~~~~~~i~~~   63 (283)
T d2fnaa2          27 LRAPITLVLGLRRTGKSSIIKIGINELNLPYIYLDLR   63 (283)
T ss_dssp             TCSSEEEEEESTTSSHHHHHHHHHHHHTCCEEEEEGG
T ss_pred             ccCCEEEEEcCCCCcHHHHHHHHHHHCCCCeEEEEec
Confidence            3456789999999999999987766667776666543

>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=91.81  E-value=0.026  Score=55.85  Aligned_cols=25  Identities=32%  Similarity=0.571  Sum_probs=20.7

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .+.-+++.||+|||||+++..++..
T Consensus       162 ~~~~~vI~G~pGTGKTt~i~~~l~~  186 (359)
T d1w36d1         162 TRRISVISGGPGTGKTTTVAKLLAA  186 (359)
T ss_dssp             TBSEEEEECCTTSTHHHHHHHHHHH
T ss_pred             cCCeEEEEcCCCCCceehHHHHHHH
Confidence            4568899999999999999876554

>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=91.79  E-value=0.031  Score=49.38  Aligned_cols=27  Identities=15%  Similarity=0.066  Sum_probs=23.5

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .|.=+++.||||+|||++..+++.+..
T Consensus        22 ~G~v~~i~G~~GsGKT~l~l~la~~~~   48 (242)
T d1n0wa_          22 TGSITEMFGEFRTGKTQICHTLAVTCQ   48 (242)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            577899999999999999999887643

>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=91.76  E-value=0.029  Score=48.96  Aligned_cols=22  Identities=14%  Similarity=0.277  Sum_probs=19.5

Q ss_pred             CeEEeccCCCCchhhHHHHHhc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .|+|+|+||+|||++++.++.+
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3789999999999999998754

>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=91.71  E-value=0.18  Score=45.69  Aligned_cols=50  Identities=36%  Similarity=0.430  Sum_probs=30.3

Q ss_pred             eEEeccCCCcHh-HHHHHHHHHc--CCeEEEEEecCCCChhhHHHHHHHHHHHhc
Q psy12736        450 CMVVGVEGGGKR-SLVRLASFAA--GYQVFTIQLSRGYNEASFKEDLKSLYNLLG  501 (567)
Q Consensus       450 ~LLvG~~GsGr~-sl~rlaa~i~--~~~~~~i~~~k~y~~~~f~edLk~~~~~ag  501 (567)
                      ++|||+.|+||+ +++|||++..  +.++.-|.+ ..|.... .|.||..-...|
T Consensus        14 i~lvGptGvGKTTTiAKLAa~~~~~~~kV~lit~-Dt~R~gA-~eQL~~~a~~l~   66 (213)
T d1vmaa2          14 IMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAA-DTFRAAA-IEQLKIWGERVG   66 (213)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEE-CTTCHHH-HHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCceEEEee-cccccch-hHHHHHHhhhcC
Confidence            489999999995 5699999875  444444432 2344332 244555444443

>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=91.67  E-value=0.026  Score=52.66  Aligned_cols=26  Identities=15%  Similarity=0.130  Sum_probs=21.7

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .|.-+-++||+|||||++++-++.-+
T Consensus        27 ~Ge~vaivG~sGsGKSTLl~ll~gl~   52 (242)
T d1mv5a_          27 PNSIIAFAGPSGGGKSTIFSLLERFY   52 (242)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            57888999999999999997766544

>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=91.62  E-value=0.029  Score=49.21  Aligned_cols=23  Identities=17%  Similarity=0.313  Sum_probs=19.7

Q ss_pred             CCCeEEeccCCCCchhhHHHHHh
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLR  215 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~  215 (567)
                      ...|+++|++|+|||++++++..
T Consensus        17 ~~KI~lvG~~~vGKTsLi~~l~~   39 (182)
T d1moza_          17 ELRILILGLDGAGKTTILYRLQI   39 (182)
T ss_dssp             CEEEEEEEETTSSHHHHHHHTCC
T ss_pred             eEEEEEECCCCCCHHHHHHHHhc
Confidence            45799999999999999988743

>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=91.61  E-value=0.032  Score=48.39  Aligned_cols=21  Identities=14%  Similarity=0.434  Sum_probs=18.5

Q ss_pred             eEEeccCCCCchhhHHHHHhc
Q psy12736        196 CIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~  216 (567)
                      |.++|++|+|||+++++++..
T Consensus         3 V~liG~~n~GKSsLi~~L~~~   23 (171)
T d1mkya1           3 VLIVGRPNVGKSTLFNKLVKK   23 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHC-
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999998753

>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=91.59  E-value=0.034  Score=48.18  Aligned_cols=21  Identities=24%  Similarity=0.335  Sum_probs=19.0

Q ss_pred             eEEeccCCCCchhhHHHHHhc
Q psy12736        196 CIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~  216 (567)
                      |+++|++|+|||++++++...
T Consensus         4 i~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCcCHHHHHHHHhCC
Confidence            789999999999999998764

>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=91.48  E-value=0.03  Score=51.42  Aligned_cols=26  Identities=19%  Similarity=0.201  Sum_probs=23.3

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .|.-+++.||||||||++..+++.+.
T Consensus        35 ~G~~~li~G~pGsGKT~~~lq~~~~~   60 (254)
T d1pzna2          35 TQAITEVFGEFGSGKTQLAHTLAVMV   60 (254)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHh
Confidence            57789999999999999999998764

>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=91.22  E-value=0.056  Score=46.39  Aligned_cols=33  Identities=18%  Similarity=0.356  Sum_probs=27.8

Q ss_pred             CCce-EEeccCCCcHhHHHHHHHHHcCCeEEEEE
Q psy12736        447 RGHC-MVVGVEGGGKRSLVRLASFAAGYQVFTIQ  479 (567)
Q Consensus       447 ~Gh~-LLvG~~GsGr~sl~rlaa~i~~~~~~~i~  479 (567)
                      +|.+ +|.|++||||+|+++..+-..+..++.+.
T Consensus         3 ~g~iI~l~G~~GsGKSTia~~La~~lg~~~~~~~   36 (176)
T d1zp6a1           3 GGNILLLSGHPGSGKSTIAEALANLPGVPKVHFH   36 (176)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTCSSSCEEEEC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhCCCEEEec
Confidence            4554 68999999999999999888888887773

>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=91.21  E-value=0.07  Score=46.03  Aligned_cols=25  Identities=28%  Similarity=0.384  Sum_probs=21.3

Q ss_pred             ceEEeccCCCcHhHHHHHHHHHcCC
Q psy12736        449 HCMVVGVEGGGKRSLVRLASFAAGY  473 (567)
Q Consensus       449 h~LLvG~~GsGr~sl~rlaa~i~~~  473 (567)
                      +++|+|++||||+||.+..+-..+.
T Consensus         2 ki~I~G~~G~GKSTLl~~i~~~l~~   26 (178)
T d1ye8a1           2 KIIITGEPGVGKTTLVKKIVERLGK   26 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHGG
T ss_pred             EEEEECCCCcHHHHHHHHHHhcCCC
Confidence            5799999999999999888776544

>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=91.19  E-value=0.056  Score=45.43  Aligned_cols=26  Identities=23%  Similarity=0.512  Sum_probs=20.0

Q ss_pred             eEEeccCCCcHhHHHH-HHHHHcCCeE
Q psy12736        450 CMVVGVEGGGKRSLVR-LASFAAGYQV  475 (567)
Q Consensus       450 ~LLvG~~GsGr~sl~r-laa~i~~~~~  475 (567)
                      +++.|++||||+|+++ |++...++..
T Consensus         5 Iii~G~pGsGKTTla~~L~~~~~~~~~   31 (152)
T d1ly1a_           5 ILTIGCPGSGKSTWAREFIAKNPGFYN   31 (152)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHSTTEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHhCCCCEE
Confidence            5789999999999988 6665555443

>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=91.18  E-value=0.045  Score=47.59  Aligned_cols=22  Identities=18%  Similarity=0.388  Sum_probs=19.7

Q ss_pred             CeEEeccCCCCchhhHHHHHhc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      -|+++|++|+|||++++++...
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~~~   26 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFAGV   26 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4899999999999999998764

>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=91.10  E-value=0.035  Score=49.13  Aligned_cols=25  Identities=12%  Similarity=0.385  Sum_probs=22.6

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .++-||++|++|+|||+++..++.+
T Consensus        14 ~g~gvli~G~sG~GKS~lal~l~~~   38 (177)
T d1knxa2          14 FGVGVLLTGRSGIGKSECALDLINK   38 (177)
T ss_dssp             TTEEEEEEESSSSSHHHHHHHHHTT
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHc
Confidence            5788999999999999999988864

>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=91.10  E-value=0.041  Score=48.05  Aligned_cols=22  Identities=23%  Similarity=0.339  Sum_probs=19.8

Q ss_pred             CeEEeccCCCCchhhHHHHHhc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .|.++|.+|+|||+++++++..
T Consensus         7 ~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           7 FVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999998864

>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=91.08  E-value=0.026  Score=53.02  Aligned_cols=26  Identities=23%  Similarity=0.213  Sum_probs=21.6

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ..|.-+-++||+|||||++++-++.-
T Consensus        42 ~~Ge~vaivG~sGsGKSTLl~ll~gl   67 (255)
T d2hyda1          42 EKGETVAFVGMSGGGKSTLINLIPRF   67 (255)
T ss_dssp             CTTCEEEEECSTTSSHHHHHTTTTTS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHHhc
Confidence            36889999999999999998765543

>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=91.04  E-value=0.042  Score=51.49  Aligned_cols=34  Identities=18%  Similarity=0.300  Sum_probs=26.2

Q ss_pred             HHHHHHHHh---cCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        183 TWILSLMNE---IKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       183 ~~ll~~ll~---~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .-++..+-+   ....++|+|.||+|||++++.++.+
T Consensus        19 ~e~~~~l~~~~~~~l~I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          19 LELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             HHHHHHHHHTTCCEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             HHHHHHHhhcCCCCcEEEEECCCCCcHHHHHHHHhCC
Confidence            344444443   4468999999999999999999974

>d1wp9a1 c.37.1.19 (A:1-200) putative ATP-dependent RNA helicase PF2015 {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: Tandem AAA-ATPase domain
domain: putative ATP-dependent RNA helicase PF2015
species: Pyrococcus furiosus [TaxId: 2261]

Probab=91.04  E-value=0.043  Score=48.70  Aligned_cols=21  Identities=33%  Similarity=0.482  Sum_probs=16.9

Q ss_pred             CCCeEEeccCCCCchhhHHHH
Q psy12736        193 KRPCIVVGDTGTSKTATMMNF  213 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~  213 (567)
                      ++++|+++|||+|||.+....
T Consensus        23 ~~n~lv~~pTGsGKT~i~~~~   43 (200)
T d1wp9a1          23 ETNCLIVLPTGLGKTLIAMMI   43 (200)
T ss_dssp             GSCEEEECCTTSCHHHHHHHH
T ss_pred             cCCeEEEeCCCCcHHHHHHHH
Confidence            567999999999999855443

>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=91.03  E-value=0.039  Score=47.83  Aligned_cols=24  Identities=13%  Similarity=0.217  Sum_probs=20.1

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ...|+++|++|+|||++++++...
T Consensus        16 ~~kI~vvG~~~vGKSsLi~~l~~~   39 (176)
T d1fzqa_          16 EVRILLLGLDNAGKTTLLKQLASE   39 (176)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             EEEEEEECCCCCCHHHHHHHHhcC
Confidence            345999999999999999887553

>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=90.98  E-value=0.032  Score=48.61  Aligned_cols=22  Identities=27%  Similarity=0.629  Sum_probs=8.7

Q ss_pred             eEEeccCCCCchhhHHHHHhcc
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l  217 (567)
                      |+++|.+|||||+++++++.+-
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~~   30 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSEDA   30 (173)
T ss_dssp             EEEECCCCC-------------
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            8999999999999999988643

>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=90.95  E-value=0.035  Score=50.37  Aligned_cols=28  Identities=11%  Similarity=0.125  Sum_probs=22.9

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      +.+.-+.|+|.||+|||++.+.+.+++.
T Consensus        22 ~kg~vIwltGlsGsGKTTia~~L~~~l~   49 (208)
T d1m7ga_          22 QRGLTIWLTGLSASGKSTLAVELEHQLV   49 (208)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            3455699999999999999998877653

>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=90.94  E-value=0.04  Score=48.69  Aligned_cols=25  Identities=20%  Similarity=0.473  Sum_probs=22.5

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .++-||++|++|+|||+++..++.+
T Consensus        13 ~g~gvl~~G~sG~GKStlal~l~~~   37 (176)
T d1kkma_          13 YGLGVLITGDSGVGKSETALELVQR   37 (176)
T ss_dssp             TTEEEEEECCTTSCHHHHHHHHHHT
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHc
Confidence            5788999999999999999988874

>d2p6ra3 c.37.1.19 (A:1-202) Hel308 helicase {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: Tandem AAA-ATPase domain
domain: Hel308 helicase
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=90.92  E-value=0.024  Score=50.90  Aligned_cols=24  Identities=13%  Similarity=0.041  Sum_probs=19.1

Q ss_pred             HHHHHhcCCCeEEeccCCCCchhhH
Q psy12736        186 LSLMNEIKRPCIVVGDTGTSKTATM  210 (567)
Q Consensus       186 l~~ll~~~~pvLl~GptGtGKT~~i  210 (567)
                      +..++ +++++++++|||||||.+.
T Consensus        34 i~~l~-~~~~~il~apTGsGKT~~a   57 (202)
T d2p6ra3          34 VEKVF-SGKNLLLAMPTAAGKTLLA   57 (202)
T ss_dssp             HHHHT-TCSCEEEECSSHHHHHHHH
T ss_pred             HHHHH-cCCCEEEEcCCCCchhHHH
Confidence            34333 5889999999999999875

>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=90.92  E-value=0.04  Score=52.73  Aligned_cols=22  Identities=18%  Similarity=0.428  Sum_probs=18.4

Q ss_pred             cCCCeEEeccCCCCchhhHHHH
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNF  213 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~  213 (567)
                      ...|+++.|++|||||+++-+.
T Consensus        23 ~~g~~lV~g~aGSGKTt~l~~r   44 (318)
T d1pjra1          23 TEGPLLIMAGAGSGKTRVLTHR   44 (318)
T ss_dssp             CSSCEEEEECTTSCHHHHHHHH
T ss_pred             CCCCEEEEecCCccHHHHHHHH
Confidence            4569999999999999887553

>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=90.88  E-value=0.082  Score=45.14  Aligned_cols=31  Identities=19%  Similarity=0.311  Sum_probs=25.1

Q ss_pred             Cce-EEeccCCCcHhHHHHHHHHHcCCeEEEE
Q psy12736        448 GHC-MVVGVEGGGKRSLVRLASFAAGYQVFTI  478 (567)
Q Consensus       448 Gh~-LLvG~~GsGr~sl~rlaa~i~~~~~~~i  478 (567)
                      +|+ +|.|++||||+|+++..|...++..+..
T Consensus         6 ~~iivl~G~~GsGKsT~a~~La~~l~~~~~~~   37 (171)
T d1knqa_           6 HHIYVLMGVSGSGKSAVASEVAHQLHAAFLDG   37 (171)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHHTCEEEEG
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCCeech
Confidence            454 6899999999999998887778776553

>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=90.84  E-value=0.04  Score=50.91  Aligned_cols=26  Identities=15%  Similarity=0.322  Sum_probs=21.5

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|.-+-++||+|||||++++ ++..+
T Consensus        29 ~~Ge~~~iiG~sGsGKSTLl~-~i~gl   54 (230)
T d1l2ta_          29 KEGEFVSIMGPSGSGKSTMLN-IIGCL   54 (230)
T ss_dssp             CTTCEEEEECSTTSSHHHHHH-HHTTS
T ss_pred             cCCCEEEEECCCCCCcchhhH-hccCC
Confidence            358888999999999999987 66655

>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=90.77  E-value=0.044  Score=48.53  Aligned_cols=21  Identities=10%  Similarity=0.287  Sum_probs=19.2

Q ss_pred             CeEEeccCCCCchhhHHHHHh
Q psy12736        195 PCIVVGDTGTSKTATMMNFLR  215 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~  215 (567)
                      .|.++|+||+|||++++.++.
T Consensus        25 ~I~lvG~~n~GKSTLin~L~g   45 (195)
T d1svia_          25 EIALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHhcC
Confidence            488999999999999999975

>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=90.73  E-value=0.079  Score=45.47  Aligned_cols=29  Identities=21%  Similarity=0.150  Sum_probs=25.1

Q ss_pred             ceEEeccCCCcHhHHHHHHHHHcCCeEEE
Q psy12736        449 HCMVVGVEGGGKRSLVRLASFAAGYQVFT  477 (567)
Q Consensus       449 h~LLvG~~GsGr~sl~rlaa~i~~~~~~~  477 (567)
                      .+++.|++||||+||++.-|.-.+..++.
T Consensus         9 ~I~i~G~~GsGKTTla~~La~~~~~~~i~   37 (192)
T d1lw7a2           9 TVAILGGESSGKSVLVNKLAAVFNTTSAW   37 (192)
T ss_dssp             EEEEECCTTSHHHHHHHHHHHHTTCEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCeEe
Confidence            57999999999999999888888877654

>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=90.53  E-value=0.11  Score=44.27  Aligned_cols=30  Identities=17%  Similarity=0.173  Sum_probs=25.7

Q ss_pred             eEEeccCCCcHhHHHHHHHHHcCCeEEEEE
Q psy12736        450 CMVVGVEGGGKRSLVRLASFAAGYQVFTIQ  479 (567)
Q Consensus       450 ~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~  479 (567)
                      ++|.|++||||+|+++..+...+...+.+.
T Consensus         6 I~l~G~~GsGKsTva~~L~~~l~~~~~~~~   35 (178)
T d1qhxa_           6 IILNGGSSAGKSGIVRCLQSVLPEPWLAFG   35 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHSSSCEEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCCeEEee
Confidence            578899999999999999998887776653

>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=90.52  E-value=0.092  Score=44.56  Aligned_cols=27  Identities=15%  Similarity=0.295  Sum_probs=21.7

Q ss_pred             eEEeccCCCcHhHHHHHHHHHcCCeEE
Q psy12736        450 CMVVGVEGGGKRSLVRLASFAAGYQVF  476 (567)
Q Consensus       450 ~LLvG~~GsGr~sl~rlaa~i~~~~~~  476 (567)
                      ++|.|++||||+|+++..|-..+...+
T Consensus         5 I~i~G~~GsGKTTva~~L~~~~~~~~~   31 (176)
T d2bdta1           5 YIITGPAGVGKSTTCKRLAAQLDNSAY   31 (176)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHSSSEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCCEE
Confidence            589999999999998877766665544

>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=90.51  E-value=0.1  Score=45.06  Aligned_cols=43  Identities=14%  Similarity=0.162  Sum_probs=30.5

Q ss_pred             chhhHHHHHHHHHh--cCCC---eEEeccCCCCchhhHHHHHhccCCC
Q psy12736        178 DSTKLTWILSLMNE--IKRP---CIVVGDTGTSKTATMMNFLRSLSPD  220 (567)
Q Consensus       178 dtvR~~~ll~~ll~--~~~p---vLl~GptGtGKT~~i~~~l~~l~~~  220 (567)
                      +|.+...-+...+.  ..+|   |+|.|+=|+|||++++.+++.+-..
T Consensus        13 ~t~~lg~~la~~l~~~~~~~g~ii~L~G~LGaGKTtfvr~~~~~lg~~   60 (158)
T d1htwa_          13 SMLRFGKKFAEILLKLHTEKAIMVYLNGDLGAGKTTLTRGMLQGIGHQ   60 (158)
T ss_dssp             HHHHHHHHHHHHHHHHCCSSCEEEEEECSTTSSHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHHHHhccCCCCeEEEEecCCCccHHHHHHHHHhhcccc
Confidence            45666554444442  2233   8899999999999999999987543

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=90.50  E-value=0.046  Score=47.96  Aligned_cols=25  Identities=20%  Similarity=0.497  Sum_probs=22.6

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .++-||++|++|+|||+++-.++++
T Consensus        14 ~g~gvli~G~sg~GKS~la~~l~~~   38 (169)
T d1ko7a2          14 YGVGVLITGDSGIGKSETALELIKR   38 (169)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHT
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHc
Confidence            5889999999999999999888875

>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=90.45  E-value=0.073  Score=51.52  Aligned_cols=25  Identities=32%  Similarity=0.410  Sum_probs=22.4

Q ss_pred             CCceEEeccCCCcHhHHHHHHHHHc
Q psy12736        447 RGHCMVVGVEGGGKRSLVRLASFAA  471 (567)
Q Consensus       447 ~Gh~LLvG~~GsGr~sl~rlaa~i~  471 (567)
                      +||+||+|++|+||++++|-.+.+.
T Consensus        28 ~h~vLl~G~pG~GKT~lar~~~~iL   52 (333)
T d1g8pa_          28 IGGVLVFGDRGTGKSTAVRALAALL   52 (333)
T ss_dssp             GCCEEEECCGGGCTTHHHHHHHHHS
T ss_pred             CCeEEEECCCCccHHHHHHHHHHhC
Confidence            5789999999999999999888765

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=90.42  E-value=0.17  Score=49.71  Aligned_cols=38  Identities=16%  Similarity=0.231  Sum_probs=32.1

Q ss_pred             hcCCC-ceEEeccCCCcHhHHHHHHHHHcCCeEEEEEec
Q psy12736        444 RLSRG-HCMVVGVEGGGKRSLVRLASFAAGYQVFTIQLS  481 (567)
Q Consensus       444 ~~p~G-h~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~~  481 (567)
                      ..|.+ .+||.|++|+||+++++..|..++.++++++.+
T Consensus       150 ~~~~~~~~~~~g~~~~gk~~~~~~~~~~~~~~~i~in~s  188 (362)
T d1svma_         150 NIPKKRYWLFKGPIDSGKTTLAAALLELCGGKALNVNLP  188 (362)
T ss_dssp             CCTTCCEEEEECSTTSSHHHHHHHHHHHHCCEEECCSSC
T ss_pred             CCCCcCeEEEECCCCCCHHHHHHHHHHHcCCCEEEEECc
Confidence            44655 468999999999999999999999999887654

>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=90.42  E-value=0.05  Score=49.02  Aligned_cols=22  Identities=9%  Similarity=0.214  Sum_probs=18.3

Q ss_pred             EEeccCCCCchhhHHHHHhccC
Q psy12736        197 IVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       197 Ll~GptGtGKT~~i~~~l~~l~  218 (567)
                      .+-||+|||||+..+.+-.++.
T Consensus         7 aIdGp~GsGKgT~ak~La~~lg   28 (223)
T d1q3ta_           7 AIDGPASSGKSTVAKIIAKDFG   28 (223)
T ss_dssp             EEECSSCSSHHHHHHHHHHHHC
T ss_pred             EEECCCCCCHHHHHHHHHHHhC
Confidence            3559999999999998887763

>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=90.42  E-value=0.05  Score=50.24  Aligned_cols=24  Identities=17%  Similarity=0.210  Sum_probs=20.0

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHh
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLR  215 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~  215 (567)
                      .|.-+-++||+|||||++++-+..
T Consensus        25 ~Gei~~liGpsGsGKSTLl~~i~G   48 (232)
T d2awna2          25 EGEFVVFVGPSGCGKSTLLRMIAG   48 (232)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCChHHHHHHHHhc
Confidence            577888999999999999875433

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=90.37  E-value=0.082  Score=47.52  Aligned_cols=60  Identities=17%  Similarity=0.105  Sum_probs=37.6

Q ss_pred             cchhhHHHHHHHHHh---cCCCeEEeccCCCCchhhHHHHHhccCCCcceeee-----c-CCCCCceEE
Q psy12736        177 TDSTKLTWILSLMNE---IKRPCIVVGDTGTSKTATMMNFLRSLSPDKYLVIA-----E-LPPTPAKFH  236 (567)
Q Consensus       177 ~dtvR~~~ll~~ll~---~~~pvLl~GptGtGKT~~i~~~l~~l~~~~~~~~~-----e-gPp~gkk~v  236 (567)
                      +|.+.....+..+++   .+..++++||++||||+++..++.-+........|     + .|-.+++.+
T Consensus        34 i~~~~Fl~~l~~~l~~~PKkn~i~~~GP~~TGKS~f~~sl~~~l~G~vis~~N~~s~F~Lq~l~~~kv~  102 (205)
T d1tuea_          34 IEFITFLGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFIQGAVISFVNSTSHFWLEPLTDTKVA  102 (205)
T ss_dssp             CCHHHHHHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHHTCEECCCCCSSSCGGGGGGTTCSSE
T ss_pred             ccHHHHHHHHHHHHcCCCCceEEEEECCCCccHHHHHHHHHHHhCCEEEeccCCCCCcccccccCCeEE
Confidence            344445555555664   34568899999999999999887766422111112     1 455666666

>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=90.35  E-value=0.17  Score=50.33  Aligned_cols=47  Identities=17%  Similarity=0.270  Sum_probs=35.4

Q ss_pred             HHHHHHHHHHHhcCCCceEEeccCCCcHhHH-HHHHHHHc--CCeEEEEE
Q psy12736        433 REHLTRIHRALRLSRGHCMVVGVEGGGKRSL-VRLASFAA--GYQVFTIQ  479 (567)
Q Consensus       433 i~hi~ri~RvL~~p~Gh~LLvG~~GsGr~sl-~rlaa~i~--~~~~~~i~  479 (567)
                      -.++..+-|++.+|+|=+|+.|+.||||+|. .-+..++.  +.+++.+|
T Consensus       144 ~~~~~~l~~l~~~~~GliLvtGpTGSGKSTTl~~~l~~~~~~~~~i~tiE  193 (401)
T d1p9ra_         144 AHNHDNFRRLIKRPHGIILVTGPTGSGKSTTLYAGLQELNSSERNILTVE  193 (401)
T ss_dssp             HHHHHHHHHHHTSSSEEEEEECSTTSCHHHHHHHHHHHHCCTTSCEEEEE
T ss_pred             HHHHHHHHHHHhhhhceEEEEcCCCCCccHHHHHHhhhhcCCCceEEEec
Confidence            3556677788999999999999999999766 44445553  35567765

>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=90.23  E-value=0.052  Score=50.39  Aligned_cols=27  Identities=22%  Similarity=0.188  Sum_probs=21.6

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|.-+-++||+|||||++++-+..-+
T Consensus        27 ~~Ge~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          27 KDGEFMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhcCC
Confidence            357888899999999999987655433

>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=90.20  E-value=0.046  Score=54.76  Aligned_cols=26  Identities=27%  Similarity=0.293  Sum_probs=22.0

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..+|++++|+||+|||++++.++.++
T Consensus        49 ~~~H~~I~G~tGsGKT~~l~~li~~~   74 (433)
T d1e9ra_          49 EPRHLLVNGATGTGKSVLLRELAYTG   74 (433)
T ss_dssp             GGGCEEEEECTTSSHHHHHHHHHHHH
T ss_pred             ccceEEEEeCCCCcHHHHHHHHHHHH
Confidence            35799999999999999988877653

>d1gkub1 c.37.1.16 (B:1-250) Helicase-like "domain" of reverse gyrase {Archaeon 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: Helicase-like "domain" of reverse gyrase
domain: Helicase-like "domain" of reverse gyrase
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=90.20  E-value=0.064  Score=49.22  Aligned_cols=28  Identities=18%  Similarity=0.078  Sum_probs=20.9

Q ss_pred             HHHHHHHhcCCCeEEeccCCCCchhhHHH
Q psy12736        184 WILSLMNEIKRPCIVVGDTGTSKTATMMN  212 (567)
Q Consensus       184 ~ll~~ll~~~~pvLl~GptGtGKT~~i~~  212 (567)
                      ..+..++ .|+++++++|||+|||....-
T Consensus        50 ~~i~~~l-~g~~~~i~apTGsGKT~~~~~   77 (237)
T d1gkub1          50 MWAKRIL-RKESFAATAPTGVGKTSFGLA   77 (237)
T ss_dssp             HHHHHHH-TTCCEECCCCBTSCSHHHHHH
T ss_pred             HHHHHHH-CCCCEEEEecCCChHHHHHHH
Confidence            3344444 589999999999999976543

>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=90.14  E-value=0.055  Score=50.19  Aligned_cols=26  Identities=19%  Similarity=0.161  Sum_probs=21.2

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .|.-+-++||+|||||++++-+..-+
T Consensus        31 ~Ge~~~liGpsGaGKSTLl~~i~Gl~   56 (239)
T d1v43a3          31 DGEFLVLLGPSGCGKTTTLRMIAGLE   56 (239)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcCC
Confidence            57788899999999999998655433

>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=90.12  E-value=0.058  Score=48.51  Aligned_cols=21  Identities=24%  Similarity=0.408  Sum_probs=18.1

Q ss_pred             EeccCCCCchhhHHHHHhccC
Q psy12736        198 VVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       198 l~GptGtGKT~~i~~~l~~l~  218 (567)
                      ++|++|||||++.+.+...+.
T Consensus         7 I~G~~gSGKSTla~~L~~~l~   27 (213)
T d1uj2a_           7 VSGGTASGKSSVCAKIVQLLG   27 (213)
T ss_dssp             EECSTTSSHHHHHHHHHHHTT
T ss_pred             EECCCCCCHHHHHHHHHHHhc
Confidence            569999999999998877664

>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=90.09  E-value=0.048  Score=49.86  Aligned_cols=26  Identities=15%  Similarity=0.008  Sum_probs=23.1

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .|.-+++.||||||||++..+++.+.
T Consensus        36 ~G~~~~i~G~~GsGKT~lalq~~~~~   61 (258)
T d1v5wa_          36 SMAITEAFGEFRTGKTQLSHTLCVTA   61 (258)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHHHHHT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            57789999999999999999998753

>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=90.04  E-value=0.05  Score=50.53  Aligned_cols=25  Identities=16%  Similarity=0.153  Sum_probs=20.4

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHh
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLR  215 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~  215 (567)
                      ..|.-+-++||+|||||++++-+..
T Consensus        29 ~~Ge~~~iiG~sGsGKSTLl~~i~G   53 (240)
T d3dhwc1          29 PAGQIYGVIGASGAGKSTLIRCVNL   53 (240)
T ss_dssp             CSSCEEEEEESTTSSHHHHHHHHTT
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHcC
Confidence            3578889999999999999865543

>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=90.01  E-value=0.1  Score=45.22  Aligned_cols=29  Identities=21%  Similarity=0.336  Sum_probs=24.5

Q ss_pred             ceEEeccCCCcHhHHHHHHHHHcCCeEEE
Q psy12736        449 HCMVVGVEGGGKRSLVRLASFAAGYQVFT  477 (567)
Q Consensus       449 h~LLvG~~GsGr~sl~rlaa~i~~~~~~~  477 (567)
                      +++|+|++||||.|++++.|---|+..+.
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~~~~~i~   30 (182)
T d1zina1           2 NLVLMGLPGAGKGTQAEKIVAAYGIPHIS   30 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCCCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCceec
Confidence            47899999999999999888777776654

>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=89.96  E-value=0.06  Score=47.57  Aligned_cols=28  Identities=25%  Similarity=0.465  Sum_probs=21.8

Q ss_pred             hcCCC--eEEeccCCCCchhhHHHHHhccC
Q psy12736        191 EIKRP--CIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       191 ~~~~p--vLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      ++.+|  |.+.|+.|||||++++.+-+.+.
T Consensus         5 ~~~kp~~I~ieG~~GsGKTTl~~~L~~~l~   34 (197)
T d2vp4a1           5 EGTQPFTVLIEGNIGSGKTTYLNHFEKYKN   34 (197)
T ss_dssp             TTCCCEEEEEECSTTSCHHHHHHTTGGGTT
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHHHHhC
Confidence            46777  45669999999999987766653

>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=89.68  E-value=0.066  Score=46.86  Aligned_cols=23  Identities=26%  Similarity=0.381  Sum_probs=20.7

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .|+++|++|+|||+++++++.+-
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~~   29 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTGS   29 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            58899999999999999998863

>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=89.62  E-value=0.12  Score=45.00  Aligned_cols=27  Identities=30%  Similarity=0.556  Sum_probs=19.6

Q ss_pred             eEEeccCCCcHhHHHHHHHHHcCCeEE
Q psy12736        450 CMVVGVEGGGKRSLVRLASFAAGYQVF  476 (567)
Q Consensus       450 ~LLvG~~GsGr~sl~rlaa~i~~~~~~  476 (567)
                      +||+|++||||+|+++--+...++..+
T Consensus        17 iil~G~pGsGKST~a~~l~~~~~~~~i   43 (172)
T d1yj5a2          17 VVAVGFPGAGKSTFIQEHLVSAGYVHV   43 (172)
T ss_dssp             EEEECCTTSSHHHHHHHHTGGGTCEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHhcCCEEE
Confidence            489999999999998654444455443

>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=89.53  E-value=0.063  Score=47.31  Aligned_cols=19  Identities=11%  Similarity=0.314  Sum_probs=17.7

Q ss_pred             CeEEeccCCCCchhhHHHH
Q psy12736        195 PCIVVGDTGTSKTATMMNF  213 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~  213 (567)
                      -++++|.+|+|||++++++
T Consensus         4 KivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4799999999999999998

>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=89.52  E-value=0.26  Score=46.09  Aligned_cols=27  Identities=22%  Similarity=0.480  Sum_probs=21.0

Q ss_pred             hcCCCceEEeccCCCcHhHH-HHHHHHH
Q psy12736        444 RLSRGHCMVVGVEGGGKRSL-VRLASFA  470 (567)
Q Consensus       444 ~~p~Gh~LLvG~~GsGr~sl-~rlaa~i  470 (567)
                      ..+.|++|++|++||||+++ +..++++
T Consensus        11 ~~~~~~~lI~g~aGTGKTt~l~~rv~~l   38 (306)
T d1uaaa1          11 EFVTGPCLVLAGAGSGKTRVITNKIAHL   38 (306)
T ss_dssp             HCCSSEEEECCCTTSCHHHHHHHHHHHH
T ss_pred             hCCCCCEEEEeeCCccHHHHHHHHHHHH
Confidence            45789999999999999975 4445554

>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=89.46  E-value=0.067  Score=46.27  Aligned_cols=21  Identities=19%  Similarity=0.357  Sum_probs=19.2

Q ss_pred             eEEeccCCCCchhhHHHHHhc
Q psy12736        196 CIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~  216 (567)
                      |.++|.+|+|||++++++.+.
T Consensus         8 I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           8 IAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEECSSSSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999999863

>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=89.41  E-value=0.2  Score=45.21  Aligned_cols=51  Identities=27%  Similarity=0.486  Sum_probs=32.9

Q ss_pred             eEEeccCCCcHh-HHHHHHHHHc--CCeEEEEEecCCCChhhHHHHHHHHHHHhcc
Q psy12736        450 CMVVGVEGGGKR-SLVRLASFAA--GYQVFTIQLSRGYNEASFKEDLKSLYNLLGV  502 (567)
Q Consensus       450 ~LLvG~~GsGr~-sl~rlaa~i~--~~~~~~i~~~k~y~~~~f~edLk~~~~~ag~  502 (567)
                      ++|+|++|+||+ +++|||++..  +.++.-|. ...|.... .|.||..-...|+
T Consensus        13 i~lvGp~GvGKTTTiaKLA~~~~~~g~kV~lit-~Dt~R~gA-~eQL~~~a~~l~v   66 (207)
T d1ls1a2          13 WFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVA-ADTQRPAA-REQLRLLGEKVGV   66 (207)
T ss_dssp             EEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEE-CCSSCHHH-HHHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEe-cccccchH-HHHHHHHHHhcCC
Confidence            588999999995 5699998875  44544333 23455443 2556666665554

>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=89.34  E-value=0.45  Score=44.55  Aligned_cols=89  Identities=19%  Similarity=0.178  Sum_probs=61.3

Q ss_pred             cCCCce-EEeccCCCcHhHHHH-HHHHH--cCCeEEEEEecCCCChhhHHHHHHHHHHHhccCCCcEEEEEecCcccchh
Q psy12736        445 LSRGHC-MVVGVEGGGKRSLVR-LASFA--AGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEG  520 (567)
Q Consensus       445 ~p~Gh~-LLvG~~GsGr~sl~r-laa~i--~~~~~~~i~~~k~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~qi~~e~  520 (567)
                      .|.|.+ .+.|++||||++++- +|+..  .|..+.-|..-..++.. |       +.+.|++-..+ +++...  .-|.
T Consensus        57 ~~~g~i~e~~G~~~~GKT~l~l~~~~~~q~~g~~~vyIDtE~~~~~e-~-------a~~~GvD~d~i-l~~~~~--~~E~  125 (269)
T d1mo6a1          57 LPRGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHALDPD-Y-------AKKLGVDTDSL-LVSQPD--TGEQ  125 (269)
T ss_dssp             BCSSSEEEEECSSSSSHHHHHHHHHHHHHHTTCEEEEEESSCCCCHH-H-------HHHHTCCGGGC-EEECCS--SHHH
T ss_pred             cccceeEEEecCCCcHHHHHHHHHHHHHhcCCCEEEEEECCccCCHH-H-------HHHhCCCHHHe-EEecCC--CHHH
Confidence            577777 799999999999964 44332  36778888877767643 2       34458876654 444433  2467


Q ss_pred             hhHHhh-hccCCc--------cccCcchhHHHH
Q psy12736        521 YQVFTI-QLSRGY--------NEASFKEDLKSL  544 (567)
Q Consensus       521 fle~in-lL~~Ge--------vp~Lf~~eE~~~  544 (567)
                      .++.++ |+.++.        +.+|++..|++.
T Consensus       126 ~~~~~~~l~~~~~~~liIiDSi~al~~~~E~e~  158 (269)
T d1mo6a1         126 ALEIADMLIRSGALDIVVIDSVAALVPRAELEG  158 (269)
T ss_dssp             HHHHHHHHHHTTCEEEEEEECSTTCCCHHHHC-
T ss_pred             HHHHHHHHHhcCCCCEEEEecccccccHHHhcc
Confidence            889999 988885        678998777644

>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=89.32  E-value=0.074  Score=46.43  Aligned_cols=22  Identities=9%  Similarity=0.176  Sum_probs=19.6

Q ss_pred             CeEEeccCCCCchhhHHHHHhc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .++++|..|+|||++++++...
T Consensus         4 KivllG~~~vGKTsl~~r~~~~   25 (195)
T d1svsa1           4 KLLLLGAGESGKSTIVKQMKII   25 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhhC
Confidence            5899999999999999998754

>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=89.27  E-value=0.088  Score=45.11  Aligned_cols=22  Identities=36%  Similarity=0.524  Sum_probs=19.0

Q ss_pred             ceEEeccCCCcHhHHHHHHHHH
Q psy12736        449 HCMVVGVEGGGKRSLVRLASFA  470 (567)
Q Consensus       449 h~LLvG~~GsGr~sl~rlaa~i  470 (567)
                      |++|.|++|+||++|++-.+..
T Consensus         3 ~v~ItG~~GtGKTtl~~~i~~~   24 (189)
T d2i3ba1           3 HVFLTGPPGVGKTTLIHKASEV   24 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHH
Confidence            7999999999999998866644

>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=89.18  E-value=0.055  Score=47.27  Aligned_cols=24  Identities=17%  Similarity=0.252  Sum_probs=20.8

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      +..|.++|.+|+|||++++.++..
T Consensus         8 ~~kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2           8 AIKVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCC
Confidence            446899999999999999998863

>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=89.17  E-value=0.062  Score=51.96  Aligned_cols=40  Identities=20%  Similarity=0.239  Sum_probs=26.9

Q ss_pred             ChHHHHHHHHHHHHHHhhhhcccCcceEEecHHHHHHHHHH
Q psy12736        399 DYSAVGHLFTEILEEYNESAGAKARLDLVLFEDAREHLTRI  439 (567)
Q Consensus       399 d~~~l~~~~~~~l~~yn~~~~~~~~~~lvlf~dai~hi~ri  439 (567)
                      +.+.+.+.+...++++.... ....+.+.+-++++++++.-
T Consensus       223 ~~~~~~~I~~~~l~~l~~rl-~~~~i~l~i~~~~~~~L~~~  262 (315)
T d1qvra3         223 TKEQIRQIVEIQLSYLRARL-AEKRISLELTEAAKDFLAER  262 (315)
T ss_dssp             CHHHHHHHHHHHHHHHHHHH-HTTTCEEEECHHHHHHHHHH
T ss_pred             hhhhhHHHHHHHHHHHHHHH-HhccccccccHHHHHHHHHh
Confidence            44556666666666666432 14568888999999998643

>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=89.16  E-value=0.082  Score=48.95  Aligned_cols=23  Identities=22%  Similarity=0.440  Sum_probs=18.3

Q ss_pred             CeEEeccCCCCchhhHHHHHhcc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      -+-++||+|||||++++-+..-+
T Consensus        26 ~~~liGpnGaGKSTll~~i~Gl~   48 (240)
T d2onka1          26 YCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHHcCC
Confidence            34588999999999998766544

>d2bmfa2 c.37.1.14 (A:178-482) Dengue virus helicase {Dengue virus type 2 [TaxId: 11060]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: Dengue virus helicase
species: Dengue virus type 2 [TaxId: 11060]

Probab=89.06  E-value=0.061  Score=50.80  Aligned_cols=27  Identities=26%  Similarity=0.272  Sum_probs=20.6

Q ss_pred             HHhcCCCeEEeccCCCCchhh-HHHHHh
Q psy12736        189 MNEIKRPCIVVGDTGTSKTAT-MMNFLR  215 (567)
Q Consensus       189 ll~~~~pvLl~GptGtGKT~~-i~~~l~  215 (567)
                      +++.++.+++.+|||||||.. +..++.
T Consensus         5 ~~~~~~~~lv~~~TGsGKT~~~l~~~~~   32 (305)
T d2bmfa2           5 IFRKKRLTIMDLHPGAGKTKRYLPAIVR   32 (305)
T ss_dssp             SSSTTCEEEECCCTTSSTTTTHHHHHHH
T ss_pred             HhhcCCcEEEEECCCCCHHHHHHHHHHH
Confidence            456899999999999999963 334443

>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=89.03  E-value=0.13  Score=44.68  Aligned_cols=30  Identities=17%  Similarity=0.264  Sum_probs=24.9

Q ss_pred             ceEEeccCCCcHhHHHHHHHHHcCCeEEEE
Q psy12736        449 HCMVVGVEGGGKRSLVRLASFAAGYQVFTI  478 (567)
Q Consensus       449 h~LLvG~~GsGr~sl~rlaa~i~~~~~~~i  478 (567)
                      +++|.|++||||+|+++.-|-..|+..+..
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~~g~~~i~~   31 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEKLGIPQIST   31 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCceEch
Confidence            478999999999999998877778776554

>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=88.92  E-value=0.12  Score=47.17  Aligned_cols=23  Identities=22%  Similarity=0.342  Sum_probs=20.0

Q ss_pred             eEEeccCCCCchhhHHHHHhccC
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .+++|.-|+|||++++++|+...
T Consensus         6 ~iitGFLGaGKTTll~~lL~~~~   28 (222)
T d1nija1           6 TLLTGFLGAGKTTLLRHILNEQH   28 (222)
T ss_dssp             EEEEESSSSSCHHHHHHHHHSCC
T ss_pred             EEEeeCCCCCHHHHHHHHHhcCC
Confidence            47889999999999999998643

>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=88.91  E-value=0.055  Score=49.87  Aligned_cols=26  Identities=19%  Similarity=0.153  Sum_probs=21.4

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .|.-+-++||+|||||++++-+..-+
T Consensus        25 ~Ge~~~liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          25 SGEYFVILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             TTCEEEEECCCTHHHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCc
Confidence            57778899999999999997665543

>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=88.75  E-value=0.14  Score=44.53  Aligned_cols=29  Identities=17%  Similarity=0.267  Sum_probs=23.8

Q ss_pred             ceEEeccCCCcHhHHHHHHHHHcCCeEEE
Q psy12736        449 HCMVVGVEGGGKRSLVRLASFAAGYQVFT  477 (567)
Q Consensus       449 h~LLvG~~GsGr~sl~rlaa~i~~~~~~~  477 (567)
                      +++|+|++||||.|++++-|--.|+..+.
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~g~~~is   30 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEKYGTPHIS   30 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCCCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCceee
Confidence            47899999999999999777777776554

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=88.69  E-value=0.27  Score=44.42  Aligned_cols=42  Identities=21%  Similarity=0.325  Sum_probs=30.2

Q ss_pred             HHHHHHh--cCCCce-EEeccCCCcHhHHH-HHHHHHc--CCeEEEEE
Q psy12736        438 RIHRALR--LSRGHC-MVVGVEGGGKRSLV-RLASFAA--GYQVFTIQ  479 (567)
Q Consensus       438 ri~RvL~--~p~Gh~-LLvG~~GsGr~sl~-rlaa~i~--~~~~~~i~  479 (567)
                      .+.++|.  .|.|.+ ++.|++|+||++++ ++|+..+  +..+.-+.
T Consensus        14 ~LD~~l~GGi~~gsl~li~G~pGsGKT~l~~qia~~~~~~~~~~~~is   61 (242)
T d1tf7a2          14 RLDEMCGGGFFKDSIILATGATGTGKTLLVSRFVENACANKERAILFA   61 (242)
T ss_dssp             HHHHHTTSSEESSCEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             HHHHhhcCCCcCCeEEEEEeCCCCCHHHHHHHHHHHHHHhccccceee
Confidence            4667777  677876 89999999999985 6666654  44455554

>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=88.53  E-value=0.17  Score=46.53  Aligned_cols=22  Identities=23%  Similarity=0.249  Sum_probs=18.4

Q ss_pred             ceEEeccCCCcHhHHHHHHHHH
Q psy12736        449 HCMVVGVEGGGKRSLVRLASFA  470 (567)
Q Consensus       449 h~LLvG~~GsGr~sl~rlaa~i  470 (567)
                      ++++.|++|+||++++|..+.-
T Consensus        48 ~l~l~GppGtGKT~l~~~l~~~   69 (287)
T d1w5sa2          48 IYGSIGRVGIGKTTLAKFTVKR   69 (287)
T ss_dssp             EEECTTCCSSSHHHHHHHHHHH
T ss_pred             EEEeECCCCCCHHHHHHHHHHH
Confidence            3567899999999999988754

>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=88.47  E-value=0.082  Score=48.08  Aligned_cols=24  Identities=8%  Similarity=0.180  Sum_probs=20.7

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHh
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLR  215 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~  215 (567)
                      ....|+++|++|+|||++++++..
T Consensus         5 ~~~KilllG~~~vGKTsll~~~~~   28 (221)
T d1azta2           5 ATHRLLLLGAGESGKSTIVKQMRI   28 (221)
T ss_dssp             HSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             hcCEEEEECCCCCCHHHHHHHHhc
Confidence            456799999999999999999754

>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=88.43  E-value=0.17  Score=44.56  Aligned_cols=29  Identities=17%  Similarity=0.224  Sum_probs=24.5

Q ss_pred             eEEeccCCCcHhHHHHHHHHHcCCeEEEE
Q psy12736        450 CMVVGVEGGGKRSLVRLASFAAGYQVFTI  478 (567)
Q Consensus       450 ~LLvG~~GsGr~sl~rlaa~i~~~~~~~i  478 (567)
                      ++|+|++||||.|++++.|-..|+..+..
T Consensus        11 I~i~GppGSGKsT~a~~La~~~g~~~is~   39 (196)
T d1ukza_          11 IFVLGGPGAGKGTQCEKLVKDYSFVHLSA   39 (196)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHSSCEEEEH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCeEEeh
Confidence            57999999999999999988888766553

>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=88.41  E-value=0.074  Score=47.84  Aligned_cols=25  Identities=40%  Similarity=0.594  Sum_probs=21.7

Q ss_pred             cCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        192 IKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       192 ~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .|.-+++.|+||+|||+++.+++.+
T Consensus        25 ~G~~~~I~G~~G~GKT~la~~~~~~   49 (242)
T d1tf7a1          25 IGRSTLVSGTSGTGKTLFSIQFLYN   49 (242)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHH
Confidence            6788999999999999999887653

>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=88.33  E-value=0.05  Score=50.56  Aligned_cols=26  Identities=23%  Similarity=0.187  Sum_probs=21.5

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ..|.-+-++||+|||||++++-+..-
T Consensus        29 ~~Ge~~~iiG~sGsGKSTll~~i~gl   54 (242)
T d1oxxk2          29 ENGERFGILGPSGAGKTTFMRIIAGL   54 (242)
T ss_dssp             CTTCEEEEECSCHHHHHHHHHHHHTS
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHHcC
Confidence            35888999999999999999766543

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=88.26  E-value=0.54  Score=43.27  Aligned_cols=89  Identities=13%  Similarity=0.259  Sum_probs=49.9

Q ss_pred             HHHHHHhcCCCceEEeccCCCcHhHHHHHHHHHcCC---eEEEEEecCCCChhhHHHHHHH---------------HHHH
Q psy12736        438 RIHRALRLSRGHCMVVGVEGGGKRSLVRLASFAAGY---QVFTIQLSRGYNEASFKEDLKS---------------LYNL  499 (567)
Q Consensus       438 ri~RvL~~p~Gh~LLvG~~GsGr~sl~rlaa~i~~~---~~~~i~~~k~y~~~~f~edLk~---------------~~~~  499 (567)
                      +|.| +..-..++|+.|..||||+.++|.....+..   .+..+.... .+...+.+.|-.               ++.+
T Consensus        15 ~~~~-~a~~~~pvlI~Ge~GtGK~~~A~~ih~~s~~~~~~~~~~~~~~-~~~~~~~~~lfg~~~~~~~~~~~~~~g~l~~   92 (247)
T d1ny5a2          15 KIKK-ISCAECPVLITGESGVGKEVVARLIHKLSDRSKEPFVALNVAS-IPRDIFEAELFGYEKGAFTGAVSSKEGFFEL   92 (247)
T ss_dssp             HHHH-HTTCCSCEEEECSTTSSHHHHHHHHHHHSTTTTSCEEEEETTT-SCHHHHHHHHHCBCTTSSTTCCSCBCCHHHH
T ss_pred             HHHH-HhCCCCCEEEECCCCcCHHHHHHHHHHhcCCcccccccchhhh-hhhcccHHHhcCcccCCcCCcccccCCHHHc
Confidence            3444 3455779999999999999999887665433   345555443 333333333311               1222


Q ss_pred             hccCCCcEEEEEecCcccchhhhHHhh-hccCCc
Q psy12736        500 LGVKNQATVFLFTAAEIVEEGYQVFTI-QLSRGY  532 (567)
Q Consensus       500 ag~~~~~~vfl~~d~qi~~e~fle~in-lL~~Ge  532 (567)
                      |    +.-++++.+-+-.++..-+.+- +|.+|+
T Consensus        93 a----~gGtL~l~~i~~L~~~~Q~~L~~~l~~~~  122 (247)
T d1ny5a2          93 A----DGGTLFLDEIGELSLEAQAKLLRVIESGK  122 (247)
T ss_dssp             T----TTSEEEEESGGGCCHHHHHHHHHHHHHSE
T ss_pred             c----CCCEEEEeChHhCCHHHHHHHHHHHHhCC
Confidence            2    1124666776666655555554 554443

>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=88.17  E-value=0.094  Score=45.90  Aligned_cols=22  Identities=9%  Similarity=0.169  Sum_probs=19.5

Q ss_pred             CeEEeccCCCCchhhHHHHHhc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      -++++|.+|+|||+++.++...
T Consensus         4 Kiv~lG~~~vGKTsll~r~~~~   25 (200)
T d2bcjq2           4 KLLLLGTGESGKSTFIKQMRII   25 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4799999999999999998654

>d2fz4a1 c.37.1.19 (A:24-229) DNA repair protein RAD25 {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: Tandem AAA-ATPase domain
domain: DNA repair protein RAD25
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=88.16  E-value=0.15  Score=45.75  Aligned_cols=33  Identities=24%  Similarity=0.127  Sum_probs=24.8

Q ss_pred             HHHHHHHhcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        184 WILSLMNEIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       184 ~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..++.++++ .+.++++|||+|||.++-.++..+
T Consensus        77 eav~~~~~~-~~~ll~~~tG~GKT~~a~~~~~~~  109 (206)
T d2fz4a1          77 KALERWLVD-KRGCIVLPTGSGKTHVAMAAINEL  109 (206)
T ss_dssp             HHHHHHTTT-SEEEEEESSSTTHHHHHHHHHHHS
T ss_pred             HHHHHHHhC-CCcEEEeCCCCCceehHHhHHHHh
Confidence            345555554 567899999999999888777664

>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=88.15  E-value=0.19  Score=44.39  Aligned_cols=29  Identities=14%  Similarity=0.272  Sum_probs=23.6

Q ss_pred             ceEEeccCCCcHhHHHHHHHHHcCCeEEE
Q psy12736        449 HCMVVGVEGGGKRSLVRLASFAAGYQVFT  477 (567)
Q Consensus       449 h~LLvG~~GsGr~sl~rlaa~i~~~~~~~  477 (567)
                      .++|+|++||||.|+++.-|--.|+..+.
T Consensus         8 rIiliG~PGSGKtT~a~~La~~~g~~~is   36 (189)
T d2ak3a1           8 RAAIMGAPGSGKGTVSSRITKHFELKHLS   36 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHBCCEEEE
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHCCeEEc
Confidence            56899999999999998887766765543

>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=88.07  E-value=0.17  Score=43.87  Aligned_cols=29  Identities=14%  Similarity=0.224  Sum_probs=23.9

Q ss_pred             ceEEeccCCCcHhHHHHHHHHHcCCeEEE
Q psy12736        449 HCMVVGVEGGGKRSLVRLASFAAGYQVFT  477 (567)
Q Consensus       449 h~LLvG~~GsGr~sl~rlaa~i~~~~~~~  477 (567)
                      +++++|++||||.|.+++-|--.++..+.
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~~~~~~i~   30 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEKYGIPQIS   30 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHCCCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCceec
Confidence            46899999999999998887777776554

>d2eyqa3 c.37.1.19 (A:546-778) Transcription-repair coupling factor, TRCF {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: Transcription-repair coupling factor, TRCF
species: Escherichia coli [TaxId: 562]

Probab=88.03  E-value=0.19  Score=46.21  Aligned_cols=44  Identities=20%  Similarity=0.067  Sum_probs=33.0

Q ss_pred             cccCcchhhHHHHHHHHHhcCC--CeEEeccCCCCchhhHHHHHhc
Q psy12736        173 LVPTTDSTKLTWILSLMNEIKR--PCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       173 ~VpT~dtvR~~~ll~~ll~~~~--pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      +..|.|-.+...-+..-+.+++  +.||+|.+|||||.+.-..+..
T Consensus        54 ~~lt~~Q~~~~~~i~~~~~~~~~~~~LL~GdvGsGKT~V~~~a~~~   99 (233)
T d2eyqa3          54 FETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFL   99 (233)
T ss_dssp             SCCCHHHHHHHHHHHHHHHSSSCCEEEEECCCCTTTHHHHHHHHHH
T ss_pred             cccchhHHHHHHHHHHHHhccCccCeEEEcCCCCCcHHHHHHHHHH
Confidence            5567776666666666666666  5799999999999998776654

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=87.79  E-value=0.15  Score=48.11  Aligned_cols=24  Identities=17%  Similarity=0.141  Sum_probs=21.0

Q ss_pred             CCeEEeccCCCCchhhHHHHHhcc
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      .-|.++|+.|+|||++++.+++..
T Consensus        45 ~~v~I~GmgGiGKTtLA~~v~~~~   68 (277)
T d2a5yb3          45 FFLFLHGRAGSGKSVIASQALSKS   68 (277)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhh
Confidence            457899999999999999998764

>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=87.62  E-value=0.092  Score=48.66  Aligned_cols=27  Identities=19%  Similarity=0.273  Sum_probs=22.4

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|.-+-|+||.|+|||++++-+..-+
T Consensus        30 ~~Gei~~liGpnGaGKSTl~~~i~Gl~   56 (240)
T d1ji0a_          30 PRGQIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            357888899999999999998776544

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=87.59  E-value=0.54  Score=43.81  Aligned_cols=87  Identities=17%  Similarity=0.077  Sum_probs=58.2

Q ss_pred             CCCce-EEeccCCCcHhHHHHHHHHH---cCCeEEEEEecCCCChhhHHHHHHHHHHHhccCCCcEEEEEecCcccchhh
Q psy12736        446 SRGHC-MVVGVEGGGKRSLVRLASFA---AGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEGY  521 (567)
Q Consensus       446 p~Gh~-LLvG~~GsGr~sl~rlaa~i---~~~~~~~i~~~k~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~qi~~e~f  521 (567)
                      |.|++ ++.|++||||++++--+|..   .+..++-|..-..++..        .+...|++-..++ ++..+  ..|..
T Consensus        52 ~~g~itei~G~~gsGKTtl~l~~~~~~q~~g~~~vyidtE~~~~~~--------~a~~~Gvd~d~v~-~~~~~--~~E~~  120 (263)
T d1u94a1          52 PMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPI--------YARKLGVDIDNLL-CSQPD--TGEQA  120 (263)
T ss_dssp             ETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHH--------HHHHTTCCGGGCE-EECCS--SHHHH
T ss_pred             cCceEEEEecCCCcHHHHHHHHHHHHHHcCCCEEEEEccccccCHH--------HHHHhCCCHHHEE-EecCC--CHHHH
Confidence            56776 79999999999986544433   35667778777666642        2455688755543 33322  24668


Q ss_pred             hHHhh-hccCCc--------cccCcchhHHH
Q psy12736        522 QVFTI-QLSRGY--------NEASFKEDLKS  543 (567)
Q Consensus       522 le~in-lL~~Ge--------vp~Lf~~eE~~  543 (567)
                      ++.+. ++..+.        +.+||+..|.+
T Consensus       121 ~~~i~~l~~~~~~~liViDSi~al~~~~e~~  151 (263)
T d1u94a1         121 LEICDALARSGAVDVIVVDSVAALTPKAEIE  151 (263)
T ss_dssp             HHHHHHHHHHTCCSEEEEECGGGCCCHHHHT
T ss_pred             HHHHHHHHhcCCCCEEEEECccccccchhcc
Confidence            88888 887775        67888766654

>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=87.58  E-value=0.039  Score=50.90  Aligned_cols=24  Identities=13%  Similarity=0.350  Sum_probs=20.1

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      ++-.+|+|++|+|||++++.++..
T Consensus        97 ~~~~vl~G~SGVGKSSLiN~L~~~  120 (231)
T d1t9ha2          97 DKTTVFAGQSGVGKSSLLNAISPE  120 (231)
T ss_dssp             TSEEEEEESHHHHHHHHHHHHCC-
T ss_pred             cceEEEECCCCccHHHHHHhhccH
Confidence            566789999999999999988754

>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=87.57  E-value=0.15  Score=46.52  Aligned_cols=22  Identities=23%  Similarity=0.335  Sum_probs=19.5

Q ss_pred             ceEEeccCCCcHhHHHHHHHHH
Q psy12736        449 HCMVVGVEGGGKRSLVRLASFA  470 (567)
Q Consensus       449 h~LLvG~~GsGr~sl~rlaa~i  470 (567)
                      |+||.|++|+||+++++..|.-
T Consensus        35 ~lll~Gp~G~GKTt~~~~la~~   56 (252)
T d1sxje2          35 HLLLYGPNGTGKKTRCMALLES   56 (252)
T ss_dssp             CEEEECSTTSSHHHHHHTHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHh
Confidence            6899999999999999987653

>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=87.42  E-value=0.2  Score=43.91  Aligned_cols=28  Identities=21%  Similarity=0.297  Sum_probs=22.1

Q ss_pred             eEEeccCCCcHhHHHHHHHHHcCCeEEE
Q psy12736        450 CMVVGVEGGGKRSLVRLASFAAGYQVFT  477 (567)
Q Consensus       450 ~LLvG~~GsGr~sl~rlaa~i~~~~~~~  477 (567)
                      ++++|++||||.|+++..|--.|...+.
T Consensus         9 I~i~G~pGSGKsT~a~~La~~~g~~~i~   36 (194)
T d1qf9a_           9 VFVLGGPGSGKGTQCANIVRDFGWVHLS   36 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHCCEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCceEc
Confidence            4789999999999988877666665443

>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=87.32  E-value=0.25  Score=42.81  Aligned_cols=39  Identities=23%  Similarity=0.280  Sum_probs=29.3

Q ss_pred             HHHHHHHHHHHHHHhcCCCce--EEeccCCCcHhHHHHHHHH
Q psy12736        430 EDAREHLTRIHRALRLSRGHC--MVVGVEGGGKRSLVRLASF  469 (567)
Q Consensus       430 ~dai~hi~ri~RvL~~p~Gh~--LLvG~~GsGr~sl~rlaa~  469 (567)
                      .|.++++|.-.+.+ ++.|.+  -+.|++||||+|+++..+.
T Consensus         4 ~~~~~~~~~~~~~~-~~~~~~iIgI~G~~GSGKSTla~~L~~   44 (198)
T d1rz3a_           4 RDRIDFLCKTILAI-KTAGRLVLGIDGLSRSGKTTLANQLSQ   44 (198)
T ss_dssp             HHHHHHHHHHHHTS-CCSSSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhc-cCCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            47788888766554 567765  3789999999999885443

>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=87.10  E-value=0.056  Score=45.90  Aligned_cols=22  Identities=18%  Similarity=0.413  Sum_probs=19.4

Q ss_pred             CeEEeccCCCCchhhHHHHHhc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .|.++|.+|+|||++++.+...
T Consensus         2 kI~liG~~n~GKSSLin~l~g~   23 (160)
T d1xzpa2           2 RMVIVGKPNVGKSTLLNRLLNE   23 (160)
T ss_dssp             EEEEECCHHHHTCHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3789999999999999998754

>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=86.94  E-value=0.22  Score=43.18  Aligned_cols=29  Identities=14%  Similarity=0.134  Sum_probs=23.8

Q ss_pred             ceEEeccCCCcHhHHHHHHHHHcCCeEEE
Q psy12736        449 HCMVVGVEGGGKRSLVRLASFAAGYQVFT  477 (567)
Q Consensus       449 h~LLvG~~GsGr~sl~rlaa~i~~~~~~~  477 (567)
                      .++++|++||||+|++++.|--.|.....
T Consensus         4 rIvl~G~pGSGKtT~a~~La~~~g~~~i~   32 (180)
T d1akya1           4 RMVLIGPPGAGKGTQAPNLQERFHAAHLA   32 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHCCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCceEe
Confidence            46899999999999999988777765444

>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=86.87  E-value=0.51  Score=43.39  Aligned_cols=35  Identities=20%  Similarity=0.141  Sum_probs=26.3

Q ss_pred             CCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEe
Q psy12736        446 SRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQL  480 (567)
Q Consensus       446 p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~  480 (567)
                      ++..+.++|++||||+||.++.+-+....-=+|.+
T Consensus        28 ~Ge~vaIvG~sGsGKSTLl~ll~gl~~p~~G~I~i   62 (241)
T d2pmka1          28 QGEVIGIVGRSGSGKSTLTKLIQRFYIPENGQVLI   62 (241)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSSCCSEEEEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcCCCCCCEEEE
Confidence            45567899999999999999987766544334443

>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=86.82  E-value=0.16  Score=48.26  Aligned_cols=22  Identities=27%  Similarity=0.552  Sum_probs=18.8

Q ss_pred             HHhcCCCceEEeccCCCcHhHH
Q psy12736        442 ALRLSRGHCMVVGVEGGGKRSL  463 (567)
Q Consensus       442 vL~~p~Gh~LLvG~~GsGr~sl  463 (567)
                      ++..+.|++|+.|++||||++.
T Consensus        19 ~v~~~~g~~lV~g~aGSGKTt~   40 (318)
T d1pjra1          19 AVRTTEGPLLIMAGAGSGKTRV   40 (318)
T ss_dssp             HHHCCSSCEEEEECTTSCHHHH
T ss_pred             HHhCCCCCEEEEecCCccHHHH
Confidence            4556789999999999999865

>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=86.80  E-value=0.071  Score=46.09  Aligned_cols=23  Identities=9%  Similarity=0.192  Sum_probs=19.6

Q ss_pred             CCCeEEeccCCCCchhhHHHHHh
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLR  215 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~  215 (567)
                      ...|.++|.|++|||++++.++.
T Consensus        16 ~~~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          16 GIEVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             SEEEEEEECTTSSHHHHHTTTCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            34599999999999999987765

>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=86.75  E-value=0.14  Score=48.68  Aligned_cols=26  Identities=27%  Similarity=0.432  Sum_probs=19.8

Q ss_pred             cCCCeEE--eccCCCCchhhHHHHHhcc
Q psy12736        192 IKRPCIV--VGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       192 ~~~pvLl--~GptGtGKT~~i~~~l~~l  217 (567)
                      +++|+++  .|++|||||++...+...+
T Consensus        24 ~~~P~iIGi~G~qGSGKSTl~~~l~~~L   51 (286)
T d1odfa_          24 NKCPLFIFFSGPQGSGKSFTSIQIYNHL   51 (286)
T ss_dssp             CCSCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCCEEEEeECCCCCCHHHHHHHHHHHH
Confidence            4557664  7999999999887765544

>d1q0ua_ c.37.1.19 (A:) Probable DEAD box RNA helicase YqfR {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: Tandem AAA-ATPase domain
domain: Probable DEAD box RNA helicase YqfR
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=86.57  E-value=0.082  Score=47.38  Aligned_cols=21  Identities=24%  Similarity=0.164  Sum_probs=17.7

Q ss_pred             HhcCCCeEEeccCCCCchhhH
Q psy12736        190 NEIKRPCIVVGDTGTSKTATM  210 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i  210 (567)
                      +.+|++|+++.|||||||...
T Consensus        35 ~l~G~dvii~a~TGSGKTlay   55 (209)
T d1q0ua_          35 ALRGESMVGQSQTGTGKTHAY   55 (209)
T ss_dssp             HHHTCCEEEECCSSHHHHHHH
T ss_pred             HHCCCCeEeecccccccceee
Confidence            345899999999999999843

>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=86.56  E-value=0.22  Score=42.53  Aligned_cols=30  Identities=27%  Similarity=0.567  Sum_probs=26.1

Q ss_pred             HHHHHHHHhcCCCceEEeccCCCcHhHHHH
Q psy12736        436 LTRIHRALRLSRGHCMVVGVEGGGKRSLVR  465 (567)
Q Consensus       436 i~ri~RvL~~p~Gh~LLvG~~GsGr~sl~r  465 (567)
                      ..++.+++....-+++++|.+|+||+||..
T Consensus         4 ~~~~~~~~~~k~~kI~vvG~~~~GKSsLi~   33 (177)
T d1zj6a1           4 FTRIWRLFNHQEHKVIIVGLDNAGKTTILY   33 (177)
T ss_dssp             HHHHHHHHTTSCEEEEEEESTTSSHHHHHH
T ss_pred             HHHHHHHhCCCeEEEEEECCCCCCHHHHHH
Confidence            457778888888899999999999999975

>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=86.46  E-value=0.087  Score=45.99  Aligned_cols=22  Identities=14%  Similarity=0.080  Sum_probs=18.9

Q ss_pred             CeEEeccCCCCchhhHHHHHhc
Q psy12736        195 PCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .|-++|+||+|||++++.+...
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~~   24 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSSA   24 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEE
T ss_pred             eEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999887653

>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=86.44  E-value=0.12  Score=48.42  Aligned_cols=25  Identities=12%  Similarity=0.189  Sum_probs=20.9

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHh
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLR  215 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~  215 (567)
                      ..|.-+-++||+|||||++++-+..
T Consensus        26 ~~GEi~~iiG~sGsGKSTLl~~i~G   50 (258)
T d1b0ua_          26 RAGDVISIIGSSGSGKSTFLRCINF   50 (258)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHTT
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHHc
Confidence            3577888999999999999986654

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=86.19  E-value=0.61  Score=43.52  Aligned_cols=87  Identities=20%  Similarity=0.157  Sum_probs=59.7

Q ss_pred             CCCce-EEeccCCCcHhHHHHHHHHH---cCCeEEEEEecCCCChhhHHHHHHHHHHHhccCCCcEEEEEecCcccchhh
Q psy12736        446 SRGHC-MVVGVEGGGKRSLVRLASFA---AGYQVFTIQLSRGYNEASFKEDLKSLYNLLGVKNQATVFLFTAAEIVEEGY  521 (567)
Q Consensus       446 p~Gh~-LLvG~~GsGr~sl~rlaa~i---~~~~~~~i~~~k~y~~~~f~edLk~~~~~ag~~~~~~vfl~~d~qi~~e~f  521 (567)
                      |.|++ .+.|++||||++++-.++..   .|..++-|..-..++..        .+.+.|++...++ ++...  .-|..
T Consensus        55 p~g~itei~G~~~sGKT~l~l~~~~~aqk~g~~v~yiDtE~~~~~~--------~a~~~Gvd~d~i~-~~~~~--~~E~~  123 (268)
T d1xp8a1          55 PRGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAEHALDPV--------YARALGVNTDELL-VSQPD--NGEQA  123 (268)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHH--------HHHHTTCCGGGCE-EECCS--SHHHH
T ss_pred             cCceEEEEecCCccchHHHHHHHHHHHHhCCCEEEEEECCccCCHH--------HHHHhCCCchhEE-EEcCC--CHHHH
Confidence            67777 69999999999987655443   26678888877666652        3456698876654 33332  23667


Q ss_pred             hHHhh-hccCCc--------cccCcchhHHH
Q psy12736        522 QVFTI-QLSRGY--------NEASFKEDLKS  543 (567)
Q Consensus       522 le~in-lL~~Ge--------vp~Lf~~eE~~  543 (567)
                      ++.++ ++.+|+        +.+||+..|++
T Consensus       124 ~~~~~~l~~~~~~~liIiDSi~al~~r~e~~  154 (268)
T d1xp8a1         124 LEIMELLVRSGAIDVVVVDSVAALTPRAEIE  154 (268)
T ss_dssp             HHHHHHHHTTTCCSEEEEECTTTCCCSTTC-
T ss_pred             HHHHHHHHhcCCCcEEEEecccccccHHHHc
Confidence            88888 888885        66788655543

>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=86.17  E-value=0.13  Score=47.25  Aligned_cols=26  Identities=15%  Similarity=0.199  Sum_probs=21.9

Q ss_pred             HhcCCCeEEeccCCCCchhhHHHHHh
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMNFLR  215 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~~l~  215 (567)
                      +..|.-+-++||+|+|||++++.+..
T Consensus        22 I~~Gei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          22 VRAGEILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             EETTCEEECBCCTTSSHHHHHHHHHT
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhC
Confidence            45788899999999999999976554

>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=85.96  E-value=0.28  Score=43.00  Aligned_cols=28  Identities=29%  Similarity=0.394  Sum_probs=22.8

Q ss_pred             eEEeccCCCcHhHHHHHHHHHcCCeEEE
Q psy12736        450 CMVVGVEGGGKRSLVRLASFAAGYQVFT  477 (567)
Q Consensus       450 ~LLvG~~GsGr~sl~rlaa~i~~~~~~~  477 (567)
                      ++|+|++||||.|+++..|--.|...+.
T Consensus        11 I~l~G~pGSGKsT~a~~La~~~g~~~is   38 (194)
T d3adka_          11 IFVVGGPGSGKGTQCEKIVQKYGYTHLS   38 (194)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHTCCEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCeeEe
Confidence            5799999999999998888776665543

>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=85.65  E-value=0.098  Score=45.45  Aligned_cols=21  Identities=19%  Similarity=0.265  Sum_probs=18.6

Q ss_pred             CeEEeccCCCCchhhHHHHHh
Q psy12736        195 PCIVVGDTGTSKTATMMNFLR  215 (567)
Q Consensus       195 pvLl~GptGtGKT~~i~~~l~  215 (567)
                      .|.|+|.+|+|||++++.+..
T Consensus         3 ~VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           3 DVGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             SEEEECCGGGCHHHHHHHHCS
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            488999999999999998764

>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=85.48  E-value=0.14  Score=47.24  Aligned_cols=27  Identities=22%  Similarity=0.220  Sum_probs=21.6

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|.-+-|+||.|+|||++++-+..-+
T Consensus        26 ~~Gei~glvG~nGaGKSTLl~~l~G~~   52 (238)
T d1vpla_          26 EEGEIFGLIGPNGAGKTTTLRIISTLI   52 (238)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            356777899999999999998666544

>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=85.25  E-value=0.65  Score=41.46  Aligned_cols=67  Identities=22%  Similarity=0.392  Sum_probs=40.2

Q ss_pred             HHHHHHHHHHhc-CCCce-EEeccCCCcHhHHHHH-HHHHc---CCeEEEEE-------ecC--CCChhhHHHHHHHHHH
Q psy12736        434 EHLTRIHRALRL-SRGHC-MVVGVEGGGKRSLVRL-ASFAA---GYQVFTIQ-------LSR--GYNEASFKEDLKSLYN  498 (567)
Q Consensus       434 ~hi~ri~RvL~~-p~Gh~-LLvG~~GsGr~sl~rl-aa~i~---~~~~~~i~-------~~k--~y~~~~f~edLk~~~~  498 (567)
                      .+|.|-.|.-.. -.|.+ .|.|.+||||+|+++. +..+.   ++.++.+.       +++  +|+..+-.+..+.+..
T Consensus         9 ~~~~~~~r~~~~~~kg~vIwltGlsGsGKTTia~~L~~~l~~~~~~~~~~ldgD~iR~~l~~~l~ys~~~r~~~~~r~~~   88 (208)
T d1m7ga_           9 SALTRSERTELRNQRGLTIWLTGLSASGKSTLAVELEHQLVRDRRVHAYRLDGDNIRFGLNKDLGFSEADRNENIRRIAE   88 (208)
T ss_dssp             HCCCHHHHHHHHTSSCEEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEECHHHHTTTTTTTCCSSHHHHHHHHHHHHH
T ss_pred             CCcCHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHHHHHhcCceEEEEcchHHHHhhcCCCCCChhHHHHHHHHHHH
Confidence            345666666333 34544 7999999999999954 55553   55555553       222  4665555555555554


Q ss_pred             Hh
Q psy12736        499 LL  500 (567)
Q Consensus       499 ~a  500 (567)
                      .|
T Consensus        89 ~a   90 (208)
T d1m7ga_          89 VA   90 (208)
T ss_dssp             HH
T ss_pred             HH
Confidence            44

>d1oywa2 c.37.1.19 (A:1-206) RecQ helicase 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: Tandem AAA-ATPase domain
domain: RecQ helicase domain
species: Escherichia coli [TaxId: 562]

Probab=85.12  E-value=0.097  Score=46.68  Aligned_cols=26  Identities=27%  Similarity=0.335  Sum_probs=20.2

Q ss_pred             HHHHHhcCCCeEEeccCCCCchhhHHH
Q psy12736        186 LSLMNEIKRPCIVVGDTGTSKTATMMN  212 (567)
Q Consensus       186 l~~ll~~~~pvLl~GptGtGKT~~i~~  212 (567)
                      +...+ .|++++++-|||+|||....-
T Consensus        34 i~~~l-~g~~vlv~apTGsGKT~~~~~   59 (206)
T d1oywa2          34 IDTVL-SGRDCLVVMPTGGGKSLCYQI   59 (206)
T ss_dssp             HHHHH-TTCCEEEECSCHHHHHHHHHH
T ss_pred             HHHHH-cCCCEEEEcCCCCCCcchhhh
Confidence            34444 578999999999999987643

>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=85.02  E-value=0.042  Score=47.96  Aligned_cols=20  Identities=30%  Similarity=0.571  Sum_probs=16.6

Q ss_pred             eEEeccCCCCchhhHHHHHh
Q psy12736        196 CIVVGDTGTSKTATMMNFLR  215 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~  215 (567)
                      ++|+||.|+|||+++..+.-
T Consensus        27 tvi~G~NGsGKStil~Ai~~   46 (222)
T d1qhla_          27 TTLSGGNGAGKSTTMAAFVT   46 (222)
T ss_dssp             HHHHSCCSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            35789999999999988643

>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=84.94  E-value=0.15  Score=47.50  Aligned_cols=27  Identities=15%  Similarity=0.261  Sum_probs=22.2

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|.-+-|+||.|+|||++++-+..-+
T Consensus        28 ~~Gei~~liG~nGaGKSTLl~~i~Gl~   54 (254)
T d1g6ha_          28 NKGDVTLIIGPNGSGKSTLINVITGFL   54 (254)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHHCCC
Confidence            457788899999999999998766544

>d1t6na_ c.37.1.19 (A:) Spliceosome RNA helicase BAT1 (UAP56) {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: Tandem AAA-ATPase domain
domain: Spliceosome RNA helicase BAT1 (UAP56)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.85  E-value=0.19  Score=45.10  Aligned_cols=21  Identities=19%  Similarity=0.289  Sum_probs=18.0

Q ss_pred             hcCCCeEEeccCCCCchhhHH
Q psy12736        191 EIKRPCIVVGDTGTSKTATMM  211 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~  211 (567)
                      ..|+++++..|||||||...-
T Consensus        36 l~g~dvl~~A~TGsGKTla~~   56 (207)
T d1t6na_          36 ILGMDVLCQAKSGMGKTAVFV   56 (207)
T ss_dssp             HTTCCEEEECCTTSCHHHHHH
T ss_pred             HcCCCeEEEeccccccccccc
Confidence            368999999999999998643

>d1veca_ c.37.1.19 (A:) DEAD box RNA helicase rck/p54 {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: Tandem AAA-ATPase domain
domain: DEAD box RNA helicase rck/p54
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.79  E-value=0.2  Score=44.83  Aligned_cols=21  Identities=19%  Similarity=0.230  Sum_probs=18.1

Q ss_pred             HhcCCCeEEeccCCCCchhhH
Q psy12736        190 NEIKRPCIVVGDTGTSKTATM  210 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i  210 (567)
                      +.+|+.++++.|||||||...
T Consensus        37 il~g~dvl~~a~TGsGKTlay   57 (206)
T d1veca_          37 ALSGRDILARAKNGTGKSGAY   57 (206)
T ss_dssp             HHTTCCEEEECCSSSTTHHHH
T ss_pred             HHcCCCEEeeccCcccccccc
Confidence            347999999999999999754

>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=84.70  E-value=0.3  Score=47.20  Aligned_cols=35  Identities=20%  Similarity=0.165  Sum_probs=24.9

Q ss_pred             HHHHHHHhc-CC--CeEEeccCCCCchhhHHHHHhccC
Q psy12736        184 WILSLMNEI-KR--PCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       184 ~ll~~ll~~-~~--pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      .+++.+..+ ++  -|=++||||+|||+++..+.+.+.
T Consensus        42 ~ll~~~~~~~~~~~~IgitG~pGaGKSTLi~~l~~~~~   79 (327)
T d2p67a1          42 QLLDAIMPYCGNTLRLGVTGTPGAGKSTFLEAFGMLLI   79 (327)
T ss_dssp             HHHHHHGGGCSCSEEEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHhhhccCCceEEEeeCCCCCCHHHHHHHHHHHHH
Confidence            455555432 22  366789999999999999887654

>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=84.63  E-value=0.2  Score=43.87  Aligned_cols=22  Identities=36%  Similarity=0.723  Sum_probs=15.8

Q ss_pred             CCeE--EeccCCCCchhhHHHHHhc
Q psy12736        194 RPCI--VVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       194 ~pvL--l~GptGtGKT~~i~~~l~~  216 (567)
                      .|++  ++|++|||||++++ +|.+
T Consensus         2 ~p~IIgitG~~gSGKstva~-~l~~   25 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAA-LLRS   25 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHH-HHHH
T ss_pred             CCEEEEEECCCCCCHHHHHH-HHHH
Confidence            3444  45999999999775 4554

>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=84.63  E-value=0.26  Score=42.97  Aligned_cols=28  Identities=18%  Similarity=0.234  Sum_probs=23.0

Q ss_pred             ceEEeccCCCcHhHHHHHHHHHcCCeEE
Q psy12736        449 HCMVVGVEGGGKRSLVRLASFAAGYQVF  476 (567)
Q Consensus       449 h~LLvG~~GsGr~sl~rlaa~i~~~~~~  476 (567)
                      +++|.|++||||.|++++-|--.|...+
T Consensus         5 ~I~i~GppGsGKsT~a~~La~~~~~~~i   32 (189)
T d1zaka1           5 KVMISGAPASGKGTQCELIKTKYQLAHI   32 (189)
T ss_dssp             CEEEEESTTSSHHHHHHHHHHHHCCEEC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCcEE
Confidence            5789999999999999887766666554

>d1gm5a3 c.37.1.19 (A:286-549) RecG helicase 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: Tandem AAA-ATPase domain
domain: RecG helicase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=84.39  E-value=0.34  Score=45.30  Aligned_cols=42  Identities=14%  Similarity=0.064  Sum_probs=30.2

Q ss_pred             ccCcchhhHHHHHHHHHhcCC--CeEEeccCCCCchhhHHHHHh
Q psy12736        174 VPTTDSTKLTWILSLMNEIKR--PCIVVGDTGTSKTATMMNFLR  215 (567)
Q Consensus       174 VpT~dtvR~~~ll~~ll~~~~--pvLl~GptGtGKT~~i~~~l~  215 (567)
                      -.|.|..+...=+..-+..++  +-||.|.+|||||.+.-..+.
T Consensus        83 eLT~~Q~~ai~ei~~d~~~~~~m~rLL~GdvGSGKT~Va~~a~~  126 (264)
T d1gm5a3          83 KLTNAQKRAHQEIRNDMISEKPMNRLLQGDVGSGKTVVAQLAIL  126 (264)
T ss_dssp             CCCHHHHHHHHHHHHHHHSSSCCCCEEECCSSSSHHHHHHHHHH
T ss_pred             cCCchHHHHHHHHHHHhhccCcceeeeeccccccccHHHHHHHH
Confidence            356676665555555555554  669999999999998877654

>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=84.33  E-value=0.21  Score=44.60  Aligned_cols=32  Identities=9%  Similarity=0.061  Sum_probs=25.2

Q ss_pred             HHHHHHh--cCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        185 ILSLMNE--IKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       185 ll~~ll~--~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      +++.+++  .+.++|+.||+|||||.++..+.+.
T Consensus         5 ~l~~~i~~~~~~~~l~~G~~g~gk~~~a~~l~~~   38 (198)
T d2gnoa2           5 TLKRIIEKSEGISILINGEDLSYPREVSLELPEY   38 (198)
T ss_dssp             HHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            4555665  4668999999999999999887653

>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=84.32  E-value=0.36  Score=42.11  Aligned_cols=27  Identities=26%  Similarity=0.356  Sum_probs=21.7

Q ss_pred             eEEeccCCCcHhHHHHHHHHHcCCeEE
Q psy12736        450 CMVVGVEGGGKRSLVRLASFAAGYQVF  476 (567)
Q Consensus       450 ~LLvG~~GsGr~sl~rlaa~i~~~~~~  476 (567)
                      ++++|++||||.|.+++.|--.|+..+
T Consensus         4 I~i~GppGSGKsT~a~~La~~~g~~~i   30 (194)
T d1teva_           4 VFVLGGPGAGKGTQCARIVEKYGYTHL   30 (194)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHCCEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCceE
Confidence            579999999999999777666666554

>d1qdea_ c.37.1.19 (A:) Initiation factor 4a {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: Tandem AAA-ATPase domain
domain: Initiation factor 4a
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=83.02  E-value=0.27  Score=44.28  Aligned_cols=28  Identities=21%  Similarity=0.235  Sum_probs=20.9

Q ss_pred             hcCCCeEEeccCCCCchhhHHH-HHhccC
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMN-FLRSLS  218 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~-~l~~l~  218 (567)
                      ..|+.|++.+|||||||...-- .+.++.
T Consensus        45 l~g~dvl~~a~TGsGKT~a~~lp~i~~l~   73 (212)
T d1qdea_          45 IEGHDVLAQAQSGTGKTGTFSIAALQRID   73 (212)
T ss_dssp             HTTCCEEEECCTTSSHHHHHHHHHHHHCC
T ss_pred             HcCCCEEeecccccchhhhhHhhhHhhhh
Confidence            3689999999999999986532 344443

>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=82.58  E-value=0.23  Score=46.00  Aligned_cols=25  Identities=12%  Similarity=0.191  Sum_probs=21.4

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      +.-++++|++|+|||+++.++...+
T Consensus        29 g~~~~i~G~~G~GKS~l~l~la~~i   53 (274)
T d1nlfa_          29 GTVGALVSPGGAGKSMLALQLAAQI   53 (274)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHH
Confidence            6788999999999999998876543

>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=82.53  E-value=0.31  Score=42.68  Aligned_cols=21  Identities=24%  Similarity=0.387  Sum_probs=17.7

Q ss_pred             eEEeccCCCcHhHHHHHHHHH
Q psy12736        450 CMVVGVEGGGKRSLVRLASFA  470 (567)
Q Consensus       450 ~LLvG~~GsGr~sl~rlaa~i  470 (567)
                      ++|+|++||||.||.+..+--
T Consensus         4 Ivl~GpsG~GK~tl~~~L~~~   24 (186)
T d1gkya_           4 IVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            789999999999998865433

>d2g9na1 c.37.1.19 (A:21-238) Initiation factor 4a {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: Tandem AAA-ATPase domain
domain: Initiation factor 4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.47  E-value=0.25  Score=44.77  Aligned_cols=28  Identities=29%  Similarity=0.275  Sum_probs=21.0

Q ss_pred             HhcCCCeEEeccCCCCchhhHHH-HHhcc
Q psy12736        190 NEIKRPCIVVGDTGTSKTATMMN-FLRSL  217 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i~~-~l~~l  217 (567)
                      +..|+++++..|||||||...-- .+.++
T Consensus        46 il~g~dvl~~a~TGsGKTlayllp~l~~i   74 (218)
T d2g9na1          46 CIKGYDVIAQAQSGTGKTATFAISILQQI   74 (218)
T ss_dssp             HHHTCCEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             HHcCCCEEEEcccchhhhhhhhhhhhhee
Confidence            33689999999999999986533 33444

>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=82.39  E-value=0.26  Score=46.39  Aligned_cols=18  Identities=22%  Similarity=0.447  Sum_probs=16.0

Q ss_pred             eEEeccCCCCchhhHHHH
Q psy12736        196 CIVVGDTGTSKTATMMNF  213 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~  213 (567)
                      .+|+||.|||||+++..+
T Consensus        27 nvlvG~NgsGKS~iL~Ai   44 (308)
T d1e69a_          27 TAIVGPNGSGKSNIIDAI   44 (308)
T ss_dssp             EEEECCTTTCSTHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHH
Confidence            479999999999998765

>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=82.31  E-value=0.24  Score=47.83  Aligned_cols=36  Identities=17%  Similarity=0.160  Sum_probs=25.5

Q ss_pred             HHHHHHHHHhc-CCC--eEEeccCCCCchhhHHHHHhcc
Q psy12736        182 LTWILSLMNEI-KRP--CIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       182 ~~~ll~~ll~~-~~p--vLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ...+++.+..+ ++.  +=++||||+|||+++..+.+.+
T Consensus        37 ~~~~~~~~~~~~~~~~~igitG~pGaGKSTli~~l~~~~   75 (323)
T d2qm8a1          37 VRDLIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGSLL   75 (323)
T ss_dssp             HHHHHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhccCCceEEeeeCCCCCCHHHHHHHHHHHH
Confidence            34455555433 333  6688999999999999998764

>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=82.11  E-value=0.32  Score=42.68  Aligned_cols=21  Identities=24%  Similarity=0.531  Sum_probs=17.0

Q ss_pred             eEEeccCCCcHhHHHH-HHHHH
Q psy12736        450 CMVVGVEGGGKRSLVR-LASFA  470 (567)
Q Consensus       450 ~LLvG~~GsGr~sl~r-laa~i  470 (567)
                      ++|+|.+||||+|+++ ||.++
T Consensus         5 i~l~GlpgsGKSTla~~L~~~l   26 (213)
T d1bifa1           5 IVMVGLPARGKTYISKKLTRYL   26 (213)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            4799999999999987 44444

>d1hv8a1 c.37.1.19 (A:3-210) Putative DEAD box RNA helicase {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: Tandem AAA-ATPase domain
domain: Putative DEAD box RNA helicase
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=82.07  E-value=0.37  Score=43.03  Aligned_cols=31  Identities=23%  Similarity=0.224  Sum_probs=23.8

Q ss_pred             HHHHHHHhcCCCeEEeccCCCCchhhHHHHH
Q psy12736        184 WILSLMNEIKRPCIVVGDTGTSKTATMMNFL  214 (567)
Q Consensus       184 ~ll~~ll~~~~pvLl~GptGtGKT~~i~~~l  214 (567)
                      ..+..++..++.++++.|||||||...--.+
T Consensus        33 ~~ip~~l~g~~d~iv~a~TGsGKT~~~~l~~   63 (208)
T d1hv8a1          33 KVIPLFLNDEYNIVAQARTGSGKTASFAIPL   63 (208)
T ss_dssp             HHHHHHHHTCSEEEEECCSSSSHHHHHHHHH
T ss_pred             HHHHHHHcCCCCeeeechhcccccceeeccc
Confidence            3455666666799999999999999775544

>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=81.87  E-value=0.27  Score=43.77  Aligned_cols=26  Identities=19%  Similarity=0.281  Sum_probs=21.3

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      |+=+.+-|+.|||||+.++.+...+.
T Consensus         2 gkfIviEG~dGsGKsT~~~~L~~~L~   27 (210)
T d4tmka_           2 SKYIVIEGLEGAGKTTARNVVVETLE   27 (210)
T ss_dssp             CCEEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHH
Confidence            45577889999999999998876654

>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=81.87  E-value=0.67  Score=42.91  Aligned_cols=35  Identities=26%  Similarity=0.333  Sum_probs=25.9

Q ss_pred             CCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEe
Q psy12736        446 SRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQL  480 (567)
Q Consensus       446 p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~  480 (567)
                      ++.-+.++|++||||+||.++.+-+....-=+|.+
T Consensus        43 ~Ge~vaivG~sGsGKSTLl~ll~gl~~p~~G~I~i   77 (255)
T d2hyda1          43 KGETVAFVGMSGGGKSTLINLIPRFYDVTSGQILI   77 (255)
T ss_dssp             TTCEEEEECSTTSSHHHHHTTTTTSSCCSEEEEEE
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHhcCCcccccccc
Confidence            44466899999999999999987666554334443

>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=81.66  E-value=1  Score=41.46  Aligned_cols=35  Identities=20%  Similarity=0.143  Sum_probs=25.5

Q ss_pred             CCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEe
Q psy12736        446 SRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQL  480 (567)
Q Consensus       446 p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~  480 (567)
                      ++..+.++|++||||+||.++.+-+..-.-=+|.+
T Consensus        39 ~Ge~vaivG~sGsGKSTLl~li~gl~~p~~G~I~i   73 (251)
T d1jj7a_          39 PGEVTALVGPNGSGKSTVAALLQNLYQPTGGQLLL   73 (251)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSSCCSEEEEEE
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcccCCCcCEEEE
Confidence            34466899999999999999987665544334433

>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=81.60  E-value=0.35  Score=41.19  Aligned_cols=20  Identities=35%  Similarity=0.413  Sum_probs=16.8

Q ss_pred             eEEeccCCCcHhHHHHHHHH
Q psy12736        450 CMVVGVEGGGKRSLVRLASF  469 (567)
Q Consensus       450 ~LLvG~~GsGr~sl~rlaa~  469 (567)
                      +++.|++||||+|+++..+-
T Consensus         4 I~i~G~~GsGKsT~~~~L~~   23 (190)
T d1khta_           4 VVVTGVPGVGSTTSSQLAMD   23 (190)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            57899999999999885544

>d2j0sa1 c.37.1.19 (A:22-243) Probable ATP-dependent RNA helicase DDX48 {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: Tandem AAA-ATPase domain
domain: Probable ATP-dependent RNA helicase DDX48
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.56  E-value=0.31  Score=44.28  Aligned_cols=31  Identities=32%  Similarity=0.371  Sum_probs=21.9

Q ss_pred             HHHHHhcCCCeEEeccCCCCchhhHHH-HHhcc
Q psy12736        186 LSLMNEIKRPCIVVGDTGTSKTATMMN-FLRSL  217 (567)
Q Consensus       186 l~~ll~~~~pvLl~GptGtGKT~~i~~-~l~~l  217 (567)
                      +-.++ .|+++++..|||||||..--- .+..+
T Consensus        48 Ip~il-~g~dvi~~a~TGSGKTlayllPil~~l   79 (222)
T d2j0sa1          48 IKQII-KGRDVIAQSQSGTGKTATFSISVLQCL   79 (222)
T ss_dssp             HHHHH-TTCCEEEECCTTSSHHHHHHHHHHHTC
T ss_pred             HHHHH-CCCCeEEEcCcchhhhhhhcccccccc
Confidence            44434 599999999999999985432 34444

>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=81.50  E-value=0.28  Score=43.29  Aligned_cols=23  Identities=13%  Similarity=0.221  Sum_probs=19.4

Q ss_pred             eEEeccCCCCchhhHHHHHhccC
Q psy12736        196 CIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       196 vLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      +.+.|+.|||||++++.+.+.+.
T Consensus         3 I~ieG~dGsGKST~~~~L~~~l~   25 (208)
T d1gsia_           3 IAIEGVDGAGKRTLVEKLSGAFR   25 (208)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            45779999999999998877664

>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=81.40  E-value=0.36  Score=41.87  Aligned_cols=20  Identities=25%  Similarity=0.315  Sum_probs=16.8

Q ss_pred             eEEeccCCCcHhHHHHHHHH
Q psy12736        450 CMVVGVEGGGKRSLVRLASF  469 (567)
Q Consensus       450 ~LLvG~~GsGr~sl~rlaa~  469 (567)
                      ++|+|++||||.|+.+..+-
T Consensus         5 ivl~GpsG~GK~tl~~~L~~   24 (182)
T d1znwa1           5 VVLSGPSAVGKSTVVRCLRE   24 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            47999999999999876643

>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=81.37  E-value=0.71  Score=42.67  Aligned_cols=35  Identities=20%  Similarity=0.229  Sum_probs=25.9

Q ss_pred             CCCceEEeccCCCcHhHHHHHHHHHcCCeEEEEEe
Q psy12736        446 SRGHCMVVGVEGGGKRSLVRLASFAAGYQVFTIQL  480 (567)
Q Consensus       446 p~Gh~LLvG~~GsGr~sl~rlaa~i~~~~~~~i~~  480 (567)
                      ++..+.++|++||||+||.++.+-+..-.-=+|.+
T Consensus        40 ~Ge~iaivG~sGsGKSTLl~ll~gl~~p~~G~I~i   74 (253)
T d3b60a1          40 AGKTVALVGRSGSGKSTIASLITRFYDIDEGHILM   74 (253)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHTTTTCCSEEEEEE
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcccCCCccEEEE
Confidence            34567899999999999999987665544334443

>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=81.06  E-value=1.3  Score=39.73  Aligned_cols=33  Identities=27%  Similarity=0.388  Sum_probs=23.8

Q ss_pred             HHHHHh--cCCCce-EEeccCCCcHhHHHH-HHHHHc
Q psy12736        439 IHRALR--LSRGHC-MVVGVEGGGKRSLVR-LASFAA  471 (567)
Q Consensus       439 i~RvL~--~p~Gh~-LLvG~~GsGr~sl~r-laa~i~  471 (567)
                      +..+|.  .|.|++ ++.|++||||++++- +|+..+
T Consensus        25 LD~ll~GGlp~G~~~li~G~pGsGKT~~~lq~~~~~~   61 (254)
T d1pzna2          25 LDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQ   61 (254)
T ss_dssp             HHHHHTSSEESSEEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             HHHhhcCCccCCEEEEEEcCCCCCHHHHHHHHHHHhh
Confidence            344454  678876 899999999999864 555443

>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=80.92  E-value=0.38  Score=42.27  Aligned_cols=20  Identities=25%  Similarity=0.425  Sum_probs=17.0

Q ss_pred             eEEeccCCCcHhHHHHHHHH
Q psy12736        450 CMVVGVEGGGKRSLVRLASF  469 (567)
Q Consensus       450 ~LLvG~~GsGr~sl~rlaa~  469 (567)
                      ++|+|++||||+|+++..+-
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~   22 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQ   22 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999886543

>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=80.85  E-value=0.24  Score=44.63  Aligned_cols=27  Identities=7%  Similarity=0.026  Sum_probs=21.8

Q ss_pred             CCeEEeccCCCCchhhHHHHHhccCCC
Q psy12736        194 RPCIVVGDTGTSKTATMMNFLRSLSPD  220 (567)
Q Consensus       194 ~pvLl~GptGtGKT~~i~~~l~~l~~~  220 (567)
                      +=+.+-|+.|||||++++.+-+.+...
T Consensus         3 k~I~ieG~dGsGKST~~~~L~~~l~~~   29 (241)
T d1p5zb_           3 KKISIEGNIAAGKSTFVNILKQLCEDW   29 (241)
T ss_dssp             EEEEEECSTTSSHHHHHTTTGGGCTTE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHhcC
Confidence            346789999999999999877777543

>d1s2ma1 c.37.1.19 (A:46-251) Putative ATP-dependent RNA helicase DHH1 {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: Tandem AAA-ATPase domain
domain: Putative ATP-dependent RNA helicase DHH1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=80.49  E-value=0.32  Score=43.36  Aligned_cols=21  Identities=29%  Similarity=0.325  Sum_probs=17.7

Q ss_pred             HhcCCCeEEeccCCCCchhhH
Q psy12736        190 NEIKRPCIVVGDTGTSKTATM  210 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~~i  210 (567)
                      +..|+++++.+|||||||...
T Consensus        35 il~g~dvi~~a~tGsGKTlay   55 (206)
T d1s2ma1          35 AITGRDILARAKNGTGKTAAF   55 (206)
T ss_dssp             HHHTCCEEEECCTTSCHHHHH
T ss_pred             HHcCCCEEEecCCcchhhhhh
Confidence            335899999999999999754

>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=80.45  E-value=0.45  Score=47.12  Aligned_cols=32  Identities=19%  Similarity=0.242  Sum_probs=25.4

Q ss_pred             HHHHHHhcCCCeEEeccCCCCchhhHHHHHhc
Q psy12736        185 ILSLMNEIKRPCIVVGDTGTSKTATMMNFLRS  216 (567)
Q Consensus       185 ll~~ll~~~~pvLl~GptGtGKT~~i~~~l~~  216 (567)
                      .++.+-+...+|.++|.||+|||++++.++..
T Consensus        48 ~l~~~~~~~l~Iai~G~~n~GKSSLiNaL~G~   79 (400)
T d1tq4a_          48 ALKEIDSSVLNVAVTGETGSGKSSFINTLRGI   79 (400)
T ss_dssp             HHHHHHHCCEEEEEEECTTSSHHHHHHHHHTC
T ss_pred             HHHhcccCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            34444456678999999999999999998753

>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=80.44  E-value=0.3  Score=45.34  Aligned_cols=27  Identities=11%  Similarity=0.049  Sum_probs=22.6

Q ss_pred             hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        191 EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       191 ~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      ..|.=+++.|+||+|||+++.++..+.
T Consensus        33 ~~G~l~vi~G~~G~GKT~~~~~la~~~   59 (277)
T d1cr2a_          33 RGGEVIMVTSGSGMGKSTFVRQQALQW   59 (277)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEEeCCCCCHHHHHHHHHHhh
Confidence            357778999999999999999887653

>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=80.43  E-value=0.4  Score=41.02  Aligned_cols=29  Identities=24%  Similarity=0.314  Sum_probs=21.2

Q ss_pred             eEEeccCCCcHhHHHHHHHHHc---CCeEEEE
Q psy12736        450 CMVVGVEGGGKRSLVRLASFAA---GYQVFTI  478 (567)
Q Consensus       450 ~LLvG~~GsGr~sl~rlaa~i~---~~~~~~i  478 (567)
                      +++.|.+||||+|++++.|...   ++.+..+
T Consensus         4 ivi~G~~GsGKTT~~~~La~~L~~~~~~~~~~   35 (194)
T d1nksa_           4 GIVTGIPGVGKSTVLAKVKEILDNQGINNKII   35 (194)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHTTTCCEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCCCEEEE
Confidence            4678999999999998776654   3444444

>d1wrba1 c.37.1.19 (A:164-401) putative ATP-dependent RNA helicase VlgB {Flatworm (Dugesia japonica) [TaxId: 6161]}

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: putative ATP-dependent RNA helicase VlgB
species: Flatworm (Dugesia japonica) [TaxId: 6161]

Probab=80.33  E-value=0.32  Score=44.57  Aligned_cols=19  Identities=32%  Similarity=0.323  Sum_probs=17.0

Q ss_pred             HhcCCCeEEeccCCCCchh
Q psy12736        190 NEIKRPCIVVGDTGTSKTA  208 (567)
Q Consensus       190 l~~~~pvLl~GptGtGKT~  208 (567)
                      +..|+++++..|||||||.
T Consensus        55 il~g~dvvi~a~TGsGKTl   73 (238)
T d1wrba1          55 ILEHRDIMACAQTGSGKTA   73 (238)
T ss_dssp             HHTTCCEEEECCTTSSHHH
T ss_pred             hhCCCCEEEECCCCCCcce
Confidence            3368999999999999998

>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=80.16  E-value=0.3  Score=46.21  Aligned_cols=34  Identities=21%  Similarity=0.288  Sum_probs=28.7

Q ss_pred             HHHHHHH--hcCCCeEEeccCCCCchhhHHHHHhcc
Q psy12736        184 WILSLMN--EIKRPCIVVGDTGTSKTATMMNFLRSL  217 (567)
Q Consensus       184 ~ll~~ll--~~~~pvLl~GptGtGKT~~i~~~l~~l  217 (567)
                      -+++.++  -.|+.+++.|++|||||+++..+.++.
T Consensus        32 r~ID~l~PigrGQr~~I~g~~g~GKT~l~~~i~~~~   67 (289)
T d1xpua3          32 RVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSI   67 (289)
T ss_dssp             HHHHHHSCCBTTCEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             eeeeecccccCCCeeeEeCCCCCCHHHHHHHHHHHH
Confidence            3677775  479999999999999999999988754

>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=80.01  E-value=0.34  Score=43.45  Aligned_cols=26  Identities=12%  Similarity=0.181  Sum_probs=20.1

Q ss_pred             CCCeEEeccCCCCchhhHHHHHhccC
Q psy12736        193 KRPCIVVGDTGTSKTATMMNFLRSLS  218 (567)
Q Consensus       193 ~~pvLl~GptGtGKT~~i~~~l~~l~  218 (567)
                      |+=+.+.|+.|+|||+.++.+-+.+.
T Consensus         3 G~lI~ieG~dGsGKsT~~~~L~~~L~   28 (209)
T d1nn5a_           3 GALIVLEGVDRAGKSTQSRKLVEALC   28 (209)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             eeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            44455669999999999998776654

>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=80.01  E-value=0.46  Score=42.44  Aligned_cols=24  Identities=29%  Similarity=0.423  Sum_probs=18.4

Q ss_pred             CCce-EEeccCCCcHhHHHHHHHHH
Q psy12736        447 RGHC-MVVGVEGGGKRSLVRLASFA  470 (567)
Q Consensus       447 ~Gh~-LLvG~~GsGr~sl~rlaa~i  470 (567)
                      +|.+ +|+|++|+||.||.+...--
T Consensus         1 ~G~livi~GPSG~GK~tl~~~L~~~   25 (205)
T d1s96a_           1 QGTLYIVSAPSGAGKSSLIQALLKT   25 (205)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhh
Confidence            3555 78999999999998655443