HHsearch alignment for GI: 254780386 and conserved domain: TIGR01843

>TIGR01843 type_I_hlyD type I secretion membrane fusion protein, HlyD family; InterPro: IPR010129 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). Type I secretion is an ABC transporter that exports proteins, without cleavage of any signal sequence, from the cytosol to extracellular medium across both inner and outer membranes. The secretion signal is found in the C terminus of the transported protein. This entry represents the adaptor protein between the ATP-binding cassette (ABC) protein of the inner membrane and the outer membrane protein, and is called the membrane fusion protein. This entry selects a group of sequences closely related to HlyD; it is defined narrowly and excludes, for example, colicin V secretion protein CvaA and multidrug efflux proteins.; GO: 0015031 protein transport, 0009276 1-2nm peptidoglycan-based cell wall, 0016021 integral to membrane.
Probab=100.00  E-value=0  Score=547.44  Aligned_cols=426  Identities=19%  Similarity=0.277  Sum_probs=379.5

Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHHEEEEEEEEEEEEEEEECCCEEEEECCCCCEEEEEECCCCCEEECCCEEEEECHHHHH
Q ss_conf             61689999999999999998764067125899979999538738984688868999985789893369789999648998
Q gi|254780386|r   14 PASLKRMTLLSIIGIIGLITWSILLPIEISVSSSGEILNEDNVVEIKSPFSGIIKKFQVENGSQILQGTPLLTFEDIETT   93 (440)
Q Consensus        14 p~~~~~~~~~~~~~~~~~~~w~~~~~~~~~v~~~G~i~~~~~~~~I~s~~~G~V~~i~VkeGd~VkkGq~L~~ld~~~~~   93 (440)
T Consensus         1 ~~~~r~~~~~~~~~v~~~~~WA~~~~ld~va~A~G~V~~~g~~k~vQhlegGi~~~I~V~EG~~V~~Gq~L~~Ld~t~~~   80 (434)
T TIGR01843         1 SRFARLITWLIALLVVIFLLWAAFAPLDSVATAQGKVVPSGNVKVVQHLEGGIVREILVREGDRVKAGQVLVELDATSVE   80 (434)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHCEEEEEEEEEEECCCEEEEECCCCCEEEEEEECCCCEECCCCCCEEECHHHHH
T ss_conf             93279889999999999999888761025899866999707477996686534413552258642037701354135789


Q ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCCCCCCH-HHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCC
Q ss_conf             889998743433233210012333322211-45554223568888-7765546788654333655420011222112210
Q gi|254780386|r   94 DLIDLKKVSIKNLRCHIDTEKSALDFLNNK-YDVLEKAFESREEQ-LLDFLGKYHSTCSKVFNYGISSVYRSLKMKLTRM  171 (440)
Q Consensus        94 ~~l~~~~~~l~~l~~~l~~~~~~l~~~~~~-~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  171 (440)
T Consensus        81 A~~~~~~~~~~~l~~~~~R~~Ae~~~~~~~~~~~~~~~~~~~~~p~~r~~~~~~~~~~~~~f~~~~~~l~~~~~~~~~~~  160 (434)
T TIGR01843        81 ADAAELESQVLALEAEVARLRAEINSEEASVIEFPDILLSAIDDPFERRAVAELVKGQQSLFESRKSALRAQLESILAQI  160 (434)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHCCCCHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             99999999999999999999999832325754467577620114120371289999999999999998889999999999


Q ss_pred             HHHHHHCCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             02232101122322222210233332221012222221110000111002466653101223322222222222100012
Q gi|254780386|r  172 RSIYLNRLDLENKSSLLRALLSSHQKDLTMMKNLFEKNAVSQNDLNQQERIVYKSTLELRENIHEQKNMLRHINELYDEA  251 (440)
Q Consensus       172 ~~~~~~~~~l~~~~~~l~~~~~~~~~el~~~~~l~~~~~~~~~~l~~~~~~~~~~~~el~~~~~~~~~~~~~l~~~~~~~  251 (440)
T Consensus       161 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~~g~~~~~~~L~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  240 (434)
T TIGR01843       161 KQLEAELEGLQAQLQALRQQLELISEELEALRKLKEKGLVSRLELLELERERAELQGELARLEAELEVLKAQIDELQLKL  240 (434)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             99999999999999878999999999999863066334321678999999999999999987999999999999999999


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCEEECCCCCCCCCCCCCCCCCCCCCEEEE
Q ss_conf             23332112332221222222221222332212222212345554116873121201222124445542103355650477
Q gi|254780386|r  252 NLEFANYLKEISRDLEQNQRTFADEMSKLTILEKTREQKTILSPIAGTIVYNQSFSSSNYAQQSQPLMKIVPHSKLTYIR  331 (440)
Q Consensus       252 ~~~~~~~~~e~~~~l~e~~~~l~~~~~~l~~l~~~l~~~~I~AP~~G~V~~l~~~~~G~~v~~G~~l~~Ivp~~~~l~v~  331 (440)
T Consensus       241 ~~~~~~~~~e~~~~l~~A~~~l~~~~~~l~~a~~~~~~~~irsPvdG~v~~l~~~T~GgVv~pG~~lm~IVP~~~~l~iE  320 (434)
T TIGR01843       241 QQLEQTFREEVLEELTEAQARLAELREELSKARDRLQRLIIRSPVDGTVQSLKVHTVGGVVQPGETLMEIVPEDDPLEIE  320 (434)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEEECCCCEEEEEEEEEEECCEECCCCCEEEEECCCCCEEEE
T ss_conf             88999999999999999999999999999999987532114425451999999984054432786178983399965899


Q ss_pred             EEECHHHHHHCCCCCCEEEEEEECCCCCCCEEEEEEEEEECCCCCCCCCC-CCCEEEEEEEEECHHHCC---CCCCEECC
Q ss_conf             53262231101589831799981288754439999999713344467776-551189999993501125---67851523
Q gi|254780386|r  332 AKVTPKQIQHVKKGYTATVRFPHYADIREKKFKAIIEKIDPIISQQDNNL-QTQEYYEVILKITDLAFS---DNNIELRN  407 (440)
Q Consensus       332 ~~v~~~di~~i~~Gq~v~i~~~a~~~~~~~~~~G~V~~Is~~~~~~~~~~-~~~~~y~v~i~~~~~~~~---~~~~~L~~  407 (440)
T Consensus       321 a~~~~~Dig~v~~Gq~a~ik~~AF~~~ryG~~~G~V~~iS~D~~~DE~~~~~~~~yY~~ri~~~~~~~~k~~~~~~~l~P  400 (434)
T TIGR01843       321 AKLSNKDIGFVHVGQPAEIKFSAFPYTRYGLLNGKVKSISPDTVEDERQGRQQGLYYRVRISIDENTLGKAGGKGLELSP  400 (434)
T ss_pred             EEECCCCCCEEECCCEEEEEEECCCCCCCCCEEEEEEEECCCCHHHHHCCCCCCCEEEEEEEECCCEECCCCCCCCEEEC
T ss_conf             99735465345558716999963686033518999998627511444247876766679999732001365776601406


Q ss_pred             CCEEEEEEEECEEEHHHHHHHHHHHHHHHHHC
Q ss_conf             77569999922054799999999989988731
Q gi|254780386|r  408 GFPAEVLFTAKNTTLAQEIIHPITDNWPKIFE  439 (440)
Q Consensus       408 Gm~~~~~I~~~~~~~~~~~~~p~~~~~~~~f~  439 (440)
T Consensus       401 GM~v~a~i~TG~Rt~~~YLl~P~~~~~~~AlR  432 (434)
T TIGR01843       401 GMPVEADIKTGERTVIEYLLKPITDSVQEALR  432 (434)
T ss_pred             CCEEEEEEEECCCHHHHHHHHHHHHHHHHHCC
T ss_conf             85379999817323378877789998876437