HHsearch alignment for GI: 255764486 and conserved domain: TIGR02139

>TIGR02139 permease_CysT sulfate ABC transporter, permease protein CysT; InterPro: IPR011865 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions 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 hydrolyze 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 polarize 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 , , , , , . Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). This entry represents CysT, one of two homologous, tandem permeases in the sulphate ABC transporter system; the other is CysW (IPR011866 from INTERPRO). The sulphate transporter has been described in Escherichia coli as transporting sulphate, thiosulphate, selenate, and selenite. Sulphate transporters may also transport molybdate ion if a specific molybdate transporter is not present.; GO: 0015116 sulfate transmembrane transporter activity, 0008272 sulfate transport, 0009276 1-2nm peptidoglycan-based cell wall, 0016021 integral to membrane.
Probab=99.90  E-value=8.3e-24  Score=169.94  Aligned_cols=244  Identities=22%  Similarity=0.347  Sum_probs=184.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99999858999999999999621224565302343220143222110124545655667749999999999999999999
Q gi|255764486|r  193 FLLRNSLLLSIVISFGIIISLFANTFKFFSIISATDFFFGIVWDPRFPALGSSNVMGQFGLIPLLIGTFYIGFIAMLFSV  272 (493)
Q Consensus       193 ~ll~~~s~iAIl~t~gIv~sl~~es~~ff~~v~~~~flf~~~W~p~~~~~~~~~~~~~~Gi~p~i~GTl~i~~iA~lia~  272 (493)
T Consensus        11 ~tl~YL~livllPl~al~----~k~----~~~gw~~F-----W~~--~--------~~P~vlaay~~sf~~Al~Aa~~N~   67 (265)
T TIGR02139        11 VTLLYLSLIVLLPLAALF----LKA----SQLGWAGF-----WQI--I--------TEPRVLAAYKLSFGTALIAALINA   67 (265)
T ss_pred             HHHHHHHHHHHHHHHHHH----HHH----HCCCHHHH-----HHH--H--------HHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             999999999999999999----998----32798899-----999--8--------538999999999999999999999


Q ss_pred             HHHHHHHHHHHHHC-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHCCCCCCCCH
Q ss_conf             99999999998633-055789999999998754489999999999999------98753221001323421035575301
Q gi|255764486|r  273 PIGLLIAIYMAEYA-PKKLRAVIKPITEMLVGIPTIVYGFFALSLVGP------FLRDISIYMNGLITGNYKSFIEAQSV  345 (493)
Q Consensus       273 Pigl~~Aiyl~eya-~~~~~~~~~~~iellagiPSVVyG~f~~~~l~p------~~~~~~~~~~~~~~~~~~~~~~~~s~  345 (493)
T Consensus        68 vFG~l~AWVLVRY~FPGK--ri~DAlVDLPFALPTAVAGIaL~TlY~~NGWiG~~l~~lGI-------------KvAfTp  132 (265)
T TIGR02139        68 VFGTLLAWVLVRYRFPGK--RIVDALVDLPFALPTAVAGIALATLYAPNGWIGSFLEPLGI-------------KVAFTP  132 (265)
T ss_pred             HHHHHHHHHHHHCCCCHH--HHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHCCC-------------EEEEEC
T ss_conf             999999889861247505--77766623354203479999999996288940125855498-------------788720


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf             79999999988776899999998621299998876608856899999999830336999999999999875999999941
Q gi|255764486|r  346 LTAGLVMGIMLIPYVSSLSEDVISSIPRSLRDGSLGLGATRSETMKYVIFPAAFPGIAGAILMTASRTIGETMIVVLAAG  425 (493)
Q Consensus       346 l~a~l~l~imilP~i~~~~~~al~~vp~~lreaa~aLGat~~~ti~~vvlP~a~~gI~~~~iL~~~RaiGETm~v~m~~G  425 (493)
T Consensus       133 lGi~~Al~FvsLPFVVRTVQPVL~e~~~E~EEAA~~LGAS~w~tF~~vilP~L~PALLTG~ALaFARa~GEYGSViFIAG  212 (265)
T TIGR02139       133 LGIVVALVFVSLPFVVRTVQPVLEEIEKELEEAAASLGASRWQTFWKVILPALLPALLTGFALAFARAVGEYGSVIFIAG  212 (265)
T ss_pred             CCEEEEEEEECCCCEEEEECCCCCCCCHHHHHHHHHHCCCCHHEEEEEECCCCCCHHHHHHHHHHHHHHHHHHCEEEECC
T ss_conf             10143423325882573114300058864899976516882000222331444006999789988754323330002226


Q ss_pred             CCCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             22257867046711279999998502234575458999999999999999999999999999
Q gi|255764486|r  426 VAARLQFNPFESMTTITVKIMNQLTGDLDFSSPQTLVAFALGLTLFCITFFLNIYAMYIMKK  487 (493)
Q Consensus       426 ~~~~~~~~~~~~~~tlt~~I~~~~~g~~~~~~~~~~~~fa~gl~L~~~tl~~N~~a~~i~~r  487 (493)
T Consensus       213 N~P~~t-------EI~PLLI~~kL-Eq-----YDY~gATaIA~vmL~~SF~~Ll~IN~lQ~~  261 (265)
T TIGR02139       213 NLPMKT-------EIAPLLIFIKL-EQ-----YDYAGATAIAVVMLLISFVLLLFINLLQWR  261 (265)
T ss_pred             CCCCHH-------HHHHHHHHHHH-HH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             888067-------88999997775-44-----123789999999999999999999999997