Psyllid ID: psy8504

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150
Protein Sequence
MALIKYWDPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLRRSR
Secondary Structure (PSIPRED)
ccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
cccEEcccHcccHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHcHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
malikywdpvksqagvgILGCCLISFSilaglgfcsilgipfnasttqIVPFLALGLSVDDMFLITKTFAKytsknqfdsectGIVLRKTGLSIILSSVCKSVAFFsaslipipalRVFNLQLAILILFNMFVLLLVYPAivsldlrrsr
Flexible Loop (DISEMBL)
malikywdpvksQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFakytsknqfdseCTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAivsldlrrsr
Low Complexity Region (SEG)
MALIKYWDPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLRRSR
Disordered region (IsUnstruct)
**LIKYWDPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVSLD*****
Disordered Region (DISOPRED)
**LIKY*DPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTS*****SECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLRRS*
Disordered Region (DISEMBL)
MALIKYWDPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLRRSR
Disordered Region (DISPRO)
MALIKYWDPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLRR**
Transmembrane Helix (TMHMM)
ooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHoooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiii
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHooooooooHHHHHHHHHHHHHHHHHHHHHHHHiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHooooHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHoooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHHHHHoooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHoooHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHiiiii
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHHHoooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHoooooooooooHHHHHHHHHHHHHHHHHHHHHHiiiiii
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MALIKYWDPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLRRSR
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	150	2.2.26 [Sep-21-2011]
Q90693	1442	Protein patched homolog 1	no	N/A	0.933	0.097	0.510	5e-38
Q13635	1447	Protein patched homolog 1	yes	N/A	0.933	0.096	0.510	7e-38
Q61115	1434	Protein patched homolog 1	yes	N/A	0.933	0.097	0.510	1e-37
O35595	1182	Protein patched homolog 2	no	N/A	0.94	0.119	0.514	5e-35
P18502	1286	Protein patched OS=Drosop	yes	N/A	0.94	0.109	0.479	7e-35
Q9Y6C5	1203	Protein patched homolog 2	no	N/A	0.94	0.117	0.471	6e-33
Q98864	1220	Protein patched homolog 1	no	N/A	0.94	0.115	0.535	1e-31
Q09614	1408	Protein patched homolog 1	no	N/A	0.933	0.099	0.418	5e-27
Q6T3U3	1331	Niemann-Pick C1-like prot	no	N/A	0.94	0.105	0.295	8e-13
Q9UHC9	1359	Niemann-Pick C1-like prot	no	N/A	0.94	0.103	0.281	1e-11

>sp|Q90693|PTC1_CHICK Protein patched homolog 1 OS=Gallus gallus GN=PTCH1 PE=1 SV=1

 Score =  156 bits (394), Expect = 5e-38,   Method: Composition-based stats.
 Identities = 74/145 (51%), Positives = 108/145 (74%), Gaps = 5/145 (3%)

Query: 7   WDPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLIT 66
           WD  KSQ  VG+ G  L++ S+ AGLG CS++GI FNA+TTQ++PFLALG+ VDD+FL+ 
Sbjct: 460 WDCAKSQGAVGLAGVLLVALSVAAGLGLCSLIGISFNAATTQVLPFLALGVGVDDVFLLA 519

Query: 67  KTFAKYTSKNQ---FDSECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQL 123
             F++ T +N+   F+   TG  L++TG S+ L+S+    AFF A+LIPIPALR F+LQ 
Sbjct: 520 HAFSE-TGQNKRIPFEDR-TGECLKRTGASVALTSISNVTAFFMAALIPIPALRAFSLQA 577

Query: 124 AILILFNMFVLLLVYPAIVSLDLRR 148
           A++++FN  ++LL++PAI+S+DL R
Sbjct: 578 AVVVVFNFAMVLLIFPAILSMDLYR 602

Acts as a receptor for sonic hedgehog (SHH), indian hedgehog (IHH) and desert hedgehog (DHH). Associates with the smoothened protein (SMO) to transduce the hedgehog's proteins signal.
Gallus gallus (taxid: 9031)

>sp|Q13635|PTC1_HUMAN Protein patched homolog 1 OS=Homo sapiens GN=PTCH1 PE=1 SV=2

 Score =  155 bits (393), Expect = 7e-38,   Method: Composition-based stats.
 Identities = 74/145 (51%), Positives = 108/145 (74%), Gaps = 5/145 (3%)

Query: 7   WDPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLIT 66
           WD  KSQ  VG+ G  L++ S+ AGLG CS++GI FNA+TTQ++PFLALG+ VDD+FL+ 
Sbjct: 460 WDCSKSQGAVGLAGVLLVALSVAAGLGLCSLIGISFNAATTQVLPFLALGVGVDDVFLLA 519

Query: 67  KTFAKYTSKNQ---FDSECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQL 123
             F++ T +N+   F+   TG  L++TG S+ L+S+    AFF A+LIPIPALR F+LQ 
Sbjct: 520 HAFSE-TGQNKRIPFEDR-TGECLKRTGASVALTSISNVTAFFMAALIPIPALRAFSLQA 577

Query: 124 AILILFNMFVLLLVYPAIVSLDLRR 148
           A++++FN  ++LL++PAI+S+DL R
Sbjct: 578 AVVVVFNFAMVLLIFPAILSMDLYR 602

Acts as a receptor for sonic hedgehog (SHH), indian hedgehog (IHH) and desert hedgehog (DHH). Associates with the smoothened protein (SMO) to transduce the hedgehog's proteins signal. Seems to have a tumor suppressor function, as inactivation of this protein is probably a necessary, if not sufficient step for tumorigenesis.

Homo sapiens (taxid: 9606)

>sp|Q61115|PTC1_MOUSE Protein patched homolog 1 OS=Mus musculus GN=Ptch1 PE=2 SV=1

 Score =  155 bits (391), Expect = 1e-37,   Method: Composition-based stats.
 Identities = 74/145 (51%), Positives = 108/145 (74%), Gaps = 5/145 (3%)

Query: 7   WDPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLIT 66
           WD  KSQ  VG+ G  L++ S+ AGLG CS++GI FNA+TTQ++PFLALG+ VDD+FL+ 
Sbjct: 446 WDCSKSQGAVGLAGVLLVALSVAAGLGLCSLIGISFNAATTQVLPFLALGVGVDDVFLLA 505

Query: 67  KTFAKYTSKNQ---FDSECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQL 123
             F++ T +N+   F+   TG  L++TG S+ L+S+    AFF A+LIPIPALR F+LQ 
Sbjct: 506 HAFSE-TGQNKRIPFEDR-TGECLKRTGASVALTSISNVTAFFMAALIPIPALRAFSLQA 563

Query: 124 AILILFNMFVLLLVYPAIVSLDLRR 148
           A++++FN  ++LL++PAI+S+DL R
Sbjct: 564 AVVVVFNFAMVLLIFPAILSMDLYR 588

Acts as a receptor for sonic hedgehog (SHH), indian hedgehog (IHH) and desert hedgehog (DHH). Associates with the smoothened protein (SMO) to transduce the hedgehog's proteins signal. Seems to have a tumor suppressor function, as inactivation of this protein is probably a necessary, if not sufficient step for tumorigenesis.

Mus musculus (taxid: 10090)

>sp|O35595|PTC2_MOUSE Protein patched homolog 2 OS=Mus musculus GN=Ptch2 PE=2 SV=2

 Score =  146 bits (368), Expect = 5e-35,   Method: Composition-based stats.
 Identities = 73/142 (51%), Positives = 99/142 (69%), Gaps = 1/142 (0%)

Query: 7   WDPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLIT 66
           WD  +SQ  VG+ G  L++ ++ +GLG C++LGI FNA+TTQ++PFLALG+ VDD+FL+ 
Sbjct: 416 WDCAQSQGAVGLAGVLLVALAVASGLGLCALLGITFNAATTQVLPFLALGIGVDDIFLLA 475

Query: 67  KTFAKYTSKNQFDSECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAIL 126
             F K         E  G  LR TG S+ L+SV   VAFF A+L+PIPALR F+LQ AI+
Sbjct: 476 HAFTKAPPDTPL-PERMGECLRSTGTSVALTSVNNMVAFFMAALVPIPALRAFSLQAAIV 534

Query: 127 ILFNMFVLLLVYPAIVSLDLRR 148
           +  N   ++LV+PAI+SLDLRR
Sbjct: 535 VGCNFAAVMLVFPAILSLDLRR 556

May have a role in epidermal development. May act as a receptor for Sonic hedgehog (SHH).

Mus musculus (taxid: 10090)

>sp|P18502|PTC_DROME Protein patched OS=Drosophila melanogaster GN=ptc PE=2 SV=2

 Score =  145 bits (367), Expect = 7e-35,   Method: Composition-based stats.
 Identities = 70/146 (47%), Positives = 105/146 (71%), Gaps = 5/146 (3%)

Query: 3   LIKYWDPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDM 62
           L+++ DPV+ Q+ VG+ G  L+ FS  AGLG  ++LGI FNA++TQ+VPFLALGL VD +
Sbjct: 447 LLRWRDPVRGQSSVGVAGVLLMCFSTAAGLGLSALLGIVFNAASTQVVPFLALGLGVDHI 506

Query: 63  FLITKTFAKYTSKNQFDSECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQ 122
           F++T  +A+   + Q     T ++L+K G SI+ S+   + +FF+A+ IP+PAL+VF LQ
Sbjct: 507 FMLTAAYAESNRREQ-----TKLILKKVGPSILFSACSTAGSFFAAAFIPVPALKVFCLQ 561

Query: 123 LAILILFNMFVLLLVYPAIVSLDLRR 148
            AI++  N+   LLV+PA++SLDLRR
Sbjct: 562 AAIVMCSNLAAALLVFPAMISLDLRR 587

Segmentation polarity protein. Acts as a receptor for the hedgehog protein (HH). Associates with the smoothened protein (SMO) to transduce the hedgehog signal leading to the activation of wingless, decapentaplegic and patched itself. Participates in cell interactions that establish pattern within the segment and the imaginal disks during development. In the absence of HH, represses the constitutive signaling activity of smo through fused (FU).

Drosophila melanogaster (taxid: 7227)

>sp|Q9Y6C5|PTC2_HUMAN Protein patched homolog 2 OS=Homo sapiens GN=PTCH2 PE=2 SV=2

 Score =  139 bits (350), Expect = 6e-33,   Method: Composition-based stats.
 Identities = 67/142 (47%), Positives = 98/142 (69%), Gaps = 1/142 (0%)

Query: 7   WDPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLIT 66
           WD  +SQ  VG+ G  L++ ++ +GLG C++LGI FNA+TTQ++PFLALG+ VDD+FL+ 
Sbjct: 416 WDCAQSQGSVGLAGVLLVALAVASGLGLCALLGITFNAATTQVLPFLALGIGVDDVFLLA 475

Query: 67  KTFAKYTSKNQFDSECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAIL 126
             F +         E  G  L++TG S++L+S+    AF  A+L+PIPALR F+LQ AI+
Sbjct: 476 HAFTEALPGTPL-QERMGECLQRTGTSVVLTSINNMAAFLMAALVPIPALRAFSLQAAIV 534

Query: 127 ILFNMFVLLLVYPAIVSLDLRR 148
           +      ++LV+PAI+SLDLRR
Sbjct: 535 VGCTFVAVMLVFPAILSLDLRR 556

May have a role in epidermal development. May act as a receptor for Sonic hedgehog (SHH).

Homo sapiens (taxid: 9606)

>sp|Q98864|PTC1_DANRE Protein patched homolog 1 OS=Danio rerio GN=ptch1 PE=2 SV=1

 Score =  135 bits (339), Expect = 1e-31,   Method: Composition-based stats.
 Identities = 76/142 (53%), Positives = 104/142 (73%), Gaps = 1/142 (0%)

Query: 7   WDPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLIT 66
           WD  KSQ  VG+ G  L++ S+ AGLG CS+LG+ FNA+TTQ++P LALG+ VDDMFL+ 
Sbjct: 443 WDCAKSQGAVGLAGVLLVALSVAAGLGLCSLLGLSFNAATTQVLPSLALGIGVDDMFLLG 502

Query: 67  KTFAKYTSKNQFDSECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAIL 126
            +F +  S   F  E TG  LR+TG S+ L+SV   +AFF A+L+PIPALR F+LQ A++
Sbjct: 503 HSFTETRSNIPF-KERTGDCLRRTGTSVALTSVNNMIAFFMAALVPIPALRAFSLQAAVV 561

Query: 127 ILFNMFVLLLVYPAIVSLDLRR 148
           ++FN  + LL++PAI+SLDL R
Sbjct: 562 VVFNFAMALLIFPAILSLDLHR 583

Acts as a receptor for sonic hedgehog (SHH), indian hedgehog (IHH) and desert hedgehog (DHH). Associates with the smoothened protein (SMO) to transduce the hedgehog's proteins signal.

Danio rerio (taxid: 7955)

>sp|Q09614|PTC1_CAEEL Protein patched homolog 1 OS=Caenorhabditis elegans GN=ptc-1 PE=1 SV=2

 Score =  119 bits (299), Expect = 5e-27,   Method: Compositional matrix adjust.
 Identities = 59/141 (41%), Positives = 94/141 (66%), Gaps = 1/141 (0%)

Query: 10  VKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTF 69
            +S  G+ + G  +++F+ +AGLG  +  GI FNA+TTQIVPFL LG+ VD+MF++   +
Sbjct: 683 TESSMGLALAGVLVVTFASVAGLGLATWFGIEFNAATTQIVPFLTLGIGVDNMFMLLHNY 742

Query: 70  AKYTSKNQFDSECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILF 129
                     +E   I++R+TG+SI+ +S+   ++F + +L+PIPALR F  Q +IL+ F
Sbjct: 743 RDVVKLAGGHAEMA-ILMRETGMSILCTSINNILSFLTGTLLPIPALRSFCAQSSILLTF 801

Query: 130 NMFVLLLVYPAIVSLDLRRSR 150
           N   +L +YPAI+S+DLRR +
Sbjct: 802 NFIAILTIYPAIISIDLRRKK 822

Required but not essential for cytokinesis of mitotically proliferating germ cells.

Caenorhabditis elegans (taxid: 6239)

>sp|Q6T3U3|NPCL1_RAT Niemann-Pick C1-like protein 1 OS=Rattus norvegicus GN=Npc1l1 PE=1 SV=1

 Score = 72.8 bits (177), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 42/142 (29%), Positives = 78/142 (54%), Gaps = 1/142 (0%)

Query: 10  VKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTF 69
           V+S+A +G+ G  ++  ++LA +GF S LG+P +    Q+VPFL L +  D++F+    +
Sbjct: 662 VESKATLGLGGVIVVLGAVLAAMGFYSYLGVPSSLVIIQVVPFLVLAVGADNIFIFVLEY 721

Query: 70  AKYTSKNQFDSECT-GIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILIL 128
            +         E   G  L     S++L S+ +++ FF  +L P+PA+R F L   + I+
Sbjct: 722 QRLPRMPGEQREAHIGRTLGSVAPSMLLCSLSEAICFFLGALTPMPAVRTFALTSGLAII 781

Query: 129 FNMFVLLLVYPAIVSLDLRRSR 150
            +  + +  + A++SLD +R  
Sbjct: 782 LDFLLQMTAFVALLSLDSKRQE 803

Play a major role in cholesterol homeostasis. Is critical for the uptake of cholesterol across the plasma membrane of the intestinal enterocyte. Is the direct molecular target of ezetimibe, a drug that inhibits cholesterol absorbtion (By similarity). Lack of activity leads to multiple lipid transport defects. The protein may have a function in the transport of multiple lipids and their homeostasis.

Rattus norvegicus (taxid: 10116)

>sp|Q9UHC9|NPCL1_HUMAN Niemann-Pick C1-like protein 1 OS=Homo sapiens GN=NPC1L1 PE=1 SV=2

 Score = 68.9 bits (167), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 40/142 (28%), Positives = 78/142 (54%), Gaps = 1/142 (0%)

Query: 10  VKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTF 69
           V S+A +G+ G  ++  +++A +GF S LGI  +    Q+VPFL L +  D++F+    +
Sbjct: 662 VDSKATLGLGGVAVVLGAVMAAMGFFSYLGIRSSLVILQVVPFLVLSVGADNIFIFVLEY 721

Query: 70  AKYTSKNQFDSECT-GIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILIL 128
            +   +     E   G  L +   S++L S+ +++ FF  +L P+PA+R F L   + ++
Sbjct: 722 QRLPRRPGEPREVHIGRALGRVAPSMLLCSLSEAICFFLGALTPMPAVRTFALTSGLAVI 781

Query: 129 FNMFVLLLVYPAIVSLDLRRSR 150
            +  + +  + A++SLD +R  
Sbjct: 782 LDFLLQMSAFVALLSLDSKRQE 803

Play a major role in cholesterol homeostasis. Is critical for the uptake of cholesterol across the plasma membrane of the intestinal enterocyte. Is the direct molecular target of ezetimibe, a drug that inhibits cholesterol absorbtion. Lack of activity leads to multiple lipid transport defects. The protein may have a function in the transport of multiple lipids and their homeostasis, and may play a critical role in regulating lipid metabolism.

Homo sapiens (taxid: 9606)

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	150
380011471	1327	PREDICTED: LOW QUALITY PROTEIN: protein	1.0	0.113	0.6	3e-46
383849191	1327	PREDICTED: LOW QUALITY PROTEIN: protein	1.0	0.113	0.593	6e-46
307191579	1191	Protein patched [Harpegnathos saltator]	1.0	0.125	0.6	1e-45
340727459	1292	PREDICTED: protein patched-like [Bombus	1.0	0.116	0.593	1e-45
307181007	1207	Protein patched [Camponotus floridanus]	1.0	0.124	0.586	2e-45
308512755	723	hedgehog receptor [Biston betularia]	0.98	0.203	0.608	3e-45
242015824	1320	patched 1, putative [Pediculus humanus c	0.993	0.112	0.58	4e-45
4883640	1318	putative hedgehog receptor [Junonia coen	0.98	0.111	0.594	1e-44
357606468	1474	putative hedgehog receptor [Danaus plexi	0.98	0.099	0.594	1e-44
309253981	744	patched [Bicyclus anynana]	0.98	0.197	0.594	1e-44

>gi|380011471|ref|XP_003689826.1| PREDICTED: LOW QUALITY PROTEIN: protein patched-like [Apis florea]

 Score =  189 bits (480), Expect = 3e-46,   Method: Composition-based stats.
 Identities = 90/150 (60%), Positives = 119/150 (79%)

Query: 1   MALIKYWDPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVD 60
           + L+++ DPV+SQAGVGI G  LI  ++ AGLGFC++LGIPFNA+TTQIVPFLALGL V 
Sbjct: 468 IVLLRWKDPVRSQAGVGIAGVMLICATVAAGLGFCALLGIPFNAATTQIVPFLALGLGVH 527

Query: 61  DMFLITKTFAKYTSKNQFDSECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFN 120
           DMFL+T T+A+ +       E TG+VL++TGLS++L+ +    AFF+A++IPIPALRVF 
Sbjct: 528 DMFLLTHTYAELSVNEVPSGEQTGVVLKRTGLSVLLAGISNVSAFFAAAIIPIPALRVFC 587

Query: 121 LQLAILILFNMFVLLLVYPAIVSLDLRRSR 150
           LQ  IL+LFN+  +LLV+PA+VSLDLRR R
Sbjct: 588 LQAGILLLFNLAAMLLVFPAMVSLDLRRRR 617

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383849191|ref|XP_003700229.1| PREDICTED: LOW QUALITY PROTEIN: protein patched-like [Megachile rotundata]

 Score =  188 bits (478), Expect = 6e-46,   Method: Composition-based stats.
 Identities = 89/150 (59%), Positives = 119/150 (79%)

Query: 1   MALIKYWDPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVD 60
           + L+++ DPV+SQAGVGI G  L+  ++ AGLGFC++LGIPFNA+TTQIVPFLALGL V 
Sbjct: 469 IVLLRWKDPVRSQAGVGIAGVMLMCATVAAGLGFCALLGIPFNAATTQIVPFLALGLGVH 528

Query: 61  DMFLITKTFAKYTSKNQFDSECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFN 120
           DMFL+T T+A+ +       E TG+VL++TGLS++L+ +    AFF+A++IPIPALRVF 
Sbjct: 529 DMFLLTHTYAELSVNEVPSGEQTGVVLKRTGLSVLLAGLSNVSAFFAAAIIPIPALRVFC 588

Query: 121 LQLAILILFNMFVLLLVYPAIVSLDLRRSR 150
           LQ  IL+LFN+  +LLV+PA+VSLDLRR R
Sbjct: 589 LQAGILLLFNLAAMLLVFPAMVSLDLRRRR 618

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307191579|gb|EFN75077.1| Protein patched [Harpegnathos saltator]

 Score =  187 bits (476), Expect = 1e-45,   Method: Composition-based stats.
 Identities = 90/150 (60%), Positives = 119/150 (79%)

Query: 1   MALIKYWDPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVD 60
           +AL+++ DPV+SQAGV I G  L+  ++ AGLGFC++LGIPFNA+TTQIVPFLALGL V 
Sbjct: 334 VALLRWKDPVRSQAGVAIAGVMLVCATVAAGLGFCALLGIPFNAATTQIVPFLALGLGVH 393

Query: 61  DMFLITKTFAKYTSKNQFDSECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFN 120
           DMFL+T T+A+ +       E TG+VL++TGLS++L+ +    AFF+A+LIPIPALRVF 
Sbjct: 394 DMFLLTHTYAELSVNEVPSGEQTGVVLKRTGLSVLLTGLSNVSAFFAAALIPIPALRVFC 453

Query: 121 LQLAILILFNMFVLLLVYPAIVSLDLRRSR 150
           LQ  IL+LFN+  +LLV+PA+VSLDLRR R
Sbjct: 454 LQAGILLLFNLAAMLLVFPAMVSLDLRRRR 483

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340727459|ref|XP_003402061.1| PREDICTED: protein patched-like [Bombus terrestris]

 Score =  187 bits (476), Expect = 1e-45,   Method: Composition-based stats.
 Identities = 89/150 (59%), Positives = 118/150 (78%)

Query: 1   MALIKYWDPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVD 60
           + L+++ DPV+SQAGVGI G  LI  ++ AGLGFC++LGIPFNA+TTQIVPFLALGL V 
Sbjct: 470 IVLLRWKDPVRSQAGVGIAGVMLICATVAAGLGFCALLGIPFNAATTQIVPFLALGLGVH 529

Query: 61  DMFLITKTFAKYTSKNQFDSECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFN 120
           DMFL+T T+A+ +       E TG+VL++TGLS++L+ +    AFF+A++IPIPALRVF 
Sbjct: 530 DMFLLTHTYAELSVNEVPSGEQTGVVLKRTGLSVLLAGISNVSAFFAAAIIPIPALRVFC 589

Query: 121 LQLAILILFNMFVLLLVYPAIVSLDLRRSR 150
            Q  IL+LFN+  +LLV+PA+VSLDLRR R
Sbjct: 590 FQAGILLLFNLAAMLLVFPAMVSLDLRRRR 619

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307181007|gb|EFN68781.1| Protein patched [Camponotus floridanus]

 Score =  186 bits (473), Expect = 2e-45,   Method: Composition-based stats.
 Identities = 88/150 (58%), Positives = 119/150 (79%)

Query: 1   MALIKYWDPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVD 60
           +AL+++ DPV+SQ+GVGI G  LI  ++ AGLGFC++LGIPFNA+TTQIVPFLALGL V 
Sbjct: 350 IALLRWKDPVRSQSGVGIAGVMLICATVAAGLGFCALLGIPFNATTTQIVPFLALGLGVH 409

Query: 61  DMFLITKTFAKYTSKNQFDSECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFN 120
           DMFL+T T+A+ +       E TG+VL++TGLS++L+ +    AFF+A++IPIPALR F 
Sbjct: 410 DMFLLTHTYAELSVNEVPSGEQTGVVLKRTGLSVLLTGLSNVSAFFAAAIIPIPALRTFC 469

Query: 121 LQLAILILFNMFVLLLVYPAIVSLDLRRSR 150
           LQ  IL+LFN+  +LL++PA+VSLDLRR R
Sbjct: 470 LQTGILLLFNLAAMLLIFPAMVSLDLRRRR 499

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|308512755|gb|ADO33031.1| hedgehog receptor [Biston betularia]

 Score =  186 bits (472), Expect = 3e-45,   Method: Composition-based stats.
 Identities = 90/148 (60%), Positives = 122/148 (82%), Gaps = 1/148 (0%)

Query: 1   MALIKYWDPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVD 60
           + L+++ DPV+SQAGVGI G  L+S ++ AGLGFC++LGIPFNAS+TQIVPFLALGL V 
Sbjct: 225 VTLMQWRDPVRSQAGVGIAGVLLLSITVAAGLGFCALLGIPFNASSTQIVPFLALGLGVQ 284

Query: 61  DMFLITKTFAKYTSKNQFDSECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFN 120
           DMFL+T T+ +  S +    E TG+VL+K+GLS++L+S+C  +AF +A+L+PIPALRVF 
Sbjct: 285 DMFLLTHTYVE-QSGDVPREERTGLVLKKSGLSVLLASLCNVMAFLAAALLPIPALRVFC 343

Query: 121 LQLAILILFNMFVLLLVYPAIVSLDLRR 148
           LQ AIL+LFN+  +LLV+PA++SLDLRR
Sbjct: 344 LQAAILLLFNLGSMLLVFPAMISLDLRR 371

Source: Biston betularia

Species: Biston betularia

Genus: Biston

Family: Geometridae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|242015824|ref|XP_002428547.1| patched 1, putative [Pediculus humanus corporis] gi|212513181|gb|EEB15809.1| patched 1, putative [Pediculus humanus corporis]

 Score =  186 bits (471), Expect = 4e-45,   Method: Composition-based stats.
 Identities = 87/150 (58%), Positives = 121/150 (80%), Gaps = 1/150 (0%)

Query: 1   MALIKYWDPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVD 60
           + L++  DPV+SQ  +G+ G  L+S ++ AGLGFCS+LGI FNA+TTQI+PFLALGL VD
Sbjct: 447 LTLLRREDPVRSQTAIGVAGVLLVSVTVAAGLGFCSLLGIAFNAATTQIIPFLALGLGVD 506

Query: 61  DMFLITKTFAKYTSKNQFDSECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFN 120
           +MF +T T+A+  ++   D E TG+VL+KTGLS++++S+C    FF+A+LIPIPALRVF+
Sbjct: 507 NMFHLTHTYAESDNEGNID-EQTGLVLKKTGLSVLMTSLCIMCTFFAAALIPIPALRVFS 565

Query: 121 LQLAILILFNMFVLLLVYPAIVSLDLRRSR 150
           LQ A+L+LFN+  +LLV+PAIVSLDLRR +
Sbjct: 566 LQAAVLVLFNIGAMLLVFPAIVSLDLRRRK 595

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|4883640|gb|AAD31595.1|AF117898_1 putative hedgehog receptor [Junonia coenia]

 Score =  184 bits (467), Expect = 1e-44,   Method: Composition-based stats.
 Identities = 88/148 (59%), Positives = 121/148 (81%), Gaps = 1/148 (0%)

Query: 1   MALIKYWDPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVD 60
           + LI++ DP++SQAGVGI G  L+S ++ AGLGFC++LGIPFNAS+TQIVPFLALGL V 
Sbjct: 447 VTLIQWRDPIRSQAGVGIAGVLLLSITVAAGLGFCALLGIPFNASSTQIVPFLALGLGVQ 506

Query: 61  DMFLITKTFAKYTSKNQFDSECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFN 120
           DMFL+T T+ +  + +    E TG+VL+K+GLS++L+S+C  +AF +A+L+PIPA RVF 
Sbjct: 507 DMFLLTHTYVE-QAGDVPREERTGLVLKKSGLSVLLASLCNVMAFLAAALLPIPAFRVFC 565

Query: 121 LQLAILILFNMFVLLLVYPAIVSLDLRR 148
           LQ AIL+LFN+  +LLV+PA++SLDLRR
Sbjct: 566 LQAAILLLFNLGSILLVFPAMISLDLRR 593

Source: Junonia coenia

Species: Junonia coenia

Genus: Junonia

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|357606468|gb|EHJ65079.1| putative hedgehog receptor [Danaus plexippus]

 Score =  184 bits (467), Expect = 1e-44,   Method: Composition-based stats.
 Identities = 88/148 (59%), Positives = 121/148 (81%), Gaps = 1/148 (0%)

Query: 1   MALIKYWDPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVD 60
           + LI++ DP++SQAGVGI G  L+S ++ AGLGFC++LGIPFNAS+TQIVPFLALGL V 
Sbjct: 496 VTLIQWRDPIRSQAGVGIAGVMLLSITVAAGLGFCALLGIPFNASSTQIVPFLALGLGVQ 555

Query: 61  DMFLITKTFAKYTSKNQFDSECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFN 120
           DMFL+T T+ +  + +    E TG+VL+K+GLS++L+S+C  +AF +A+L+PIPA RVF 
Sbjct: 556 DMFLLTHTYVE-QAGDVPREERTGLVLKKSGLSVLLASLCNVMAFLAAALLPIPAFRVFC 614

Query: 121 LQLAILILFNMFVLLLVYPAIVSLDLRR 148
           LQ AIL+LFN+  +LLV+PA++SLDLRR
Sbjct: 615 LQAAILLLFNLGSMLLVFPAMISLDLRR 642

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|309253981|gb|ADO60879.1| patched [Bicyclus anynana]

 Score =  184 bits (466), Expect = 1e-44,   Method: Composition-based stats.
 Identities = 88/148 (59%), Positives = 121/148 (81%), Gaps = 1/148 (0%)

Query: 1   MALIKYWDPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVD 60
           + LI++ DP++SQAGVGI G  L+S ++ AGLGFC++LGIPFNAS+TQIVPFLALGL V 
Sbjct: 225 VTLIQWRDPIRSQAGVGIAGVLLLSITVAAGLGFCALLGIPFNASSTQIVPFLALGLGVQ 284

Query: 61  DMFLITKTFAKYTSKNQFDSECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFN 120
           DMFL+T T+ +  + +    E TG+VL+K+GLS++L+S+C  +AF +A+L+PIPA RVF 
Sbjct: 285 DMFLLTHTYVE-QAGDVPREERTGLVLKKSGLSVLLASLCNVMAFLAAALLPIPAFRVFC 343

Query: 121 LQLAILILFNMFVLLLVYPAIVSLDLRR 148
           LQ AIL+LFN+  +LLV+PA++SLDLRR
Sbjct: 344 LQAAILLLFNLGSMLLVFPAMISLDLRR 371

Source: Bicyclus anynana

Species: Bicyclus anynana

Genus: Bicyclus

Family: Nymphalidae

Order: Lepidoptera

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	150
ZFIN|ZDB-GENE-980526-44	1442	ptch2 "patched 2" [Danio rerio	0.94	0.097	0.535	3.9e-36
UNIPROTKB|H9L1J3	199	H9L1J3 "Uncharacterized protei	0.94	0.708	0.528	9.2e-36
RGD|621425	608	Ptch1 "patched 1" [Rattus norv	0.946	0.233	0.503	1.4e-34
ZFIN|ZDB-GENE-980526-196	1475	ptch1 "patched 1" [Danio rerio	0.933	0.094	0.517	2.6e-34
UNIPROTKB|F1NYG9	1303	PTCH1 "Protein patched homolog	0.933	0.107	0.510	3.5e-34
UNIPROTKB|Q90693	1442	PTCH1 "Protein patched homolog	0.933	0.097	0.510	4.1e-34
MGI|MGI:105373	1434	Ptch1 "patched homolog 1" [Mus	0.933	0.097	0.510	6.7e-34
UNIPROTKB|Q6UY90	1434	Ptch1 "Protein Ptch1" [Rattus	0.933	0.097	0.510	6.7e-34
UNIPROTKB|Q13635	1447	PTCH1 "Protein patched homolog	0.933	0.096	0.510	6.8e-34
UNIPROTKB|F1PNE0	1449	PTCH1 "Uncharacterized protein	0.933	0.096	0.510	6.8e-34

ZFIN|ZDB-GENE-980526-44 ptch2 "patched 2" [Danio rerio (taxid:7955)]

 Score = 403 (146.9 bits), Expect = 3.9e-36, P = 3.9e-36
 Identities = 76/142 (53%), Positives = 106/142 (74%)

Query:     7 WDPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLIT 66
             WD  KSQ  VG+ G  L++ S+ AGLG CS+LG+ FNA+TTQ++PFLALG+ VDDMFL+ 
Sbjct:   443 WDCAKSQGAVGLAGVLLVALSVAAGLGLCSLLGLSFNAATTQVLPFLALGIGVDDMFLLA 502

Query:    67 KTFAKYTSKNQFDSECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAIL 126
              +F +  S   F  E TG  LR+TG S+ L+S+   +AFF A+L+PIPALR F+LQ A++
Sbjct:   503 HSFTETRSNIPF-KERTGDCLRRTGTSVALTSINNMIAFFMAALVPIPALRAFSLQAAVV 561

Query:   127 ILFNMFVLLLVYPAIVSLDLRR 148
             ++FN  ++LL++PAI+SLDL R
Sbjct:   562 VVFNFAMVLLIFPAILSLDLHR 583

GO:0008158 "hedgehog receptor activity" evidence=IEA

GO:0016021 "integral to membrane" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0048635 "negative regulation of muscle organ development" evidence=IGI

GO:0010002 "cardioblast differentiation" evidence=IGI

GO:0001649 "osteoblast differentiation" evidence=IMP

GO:0031290 "retinal ganglion cell axon guidance" evidence=IMP

GO:0009954 "proximal/distal pattern formation" evidence=IMP

GO:0043010 "camera-type eye development" evidence=IMP

GO:0007224 "smoothened signaling pathway" evidence=IMP

UNIPROTKB|H9L1J3 H9L1J3 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 386 (140.9 bits), Expect = 9.2e-36, P = 9.2e-36
 Identities = 75/142 (52%), Positives = 105/142 (73%)

Query:     7 WDPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLIT 66
             W   KSQ  VG+ G  L++ S+ +GLG CS+LGI FNA+TTQ++PFLALG+ VDDMFL+ 
Sbjct:    14 WACSKSQGAVGLAGVLLVALSVASGLGLCSLLGISFNAATTQVLPFLALGIGVDDMFLLA 73

Query:    67 KTFAKYTSKNQFDSECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAIL 126
               F + TS++    E TG  LR+TG S+ L+SV   +AFF A+L+PIPALR F+LQ A++
Sbjct:    74 HAFTE-TSQHIPFKERTGECLRRTGTSVALTSVSNMIAFFMAALVPIPALRAFSLQAAVV 132

Query:   127 ILFNMFVLLLVYPAIVSLDLRR 148
             ++FN  ++L ++PAI+SLDL R
Sbjct:   133 VVFNFAMVLFIFPAILSLDLYR 154

GO:0016021 "integral to membrane" evidence=IEA

RGD|621425 Ptch1 "patched 1" [Rattus norvegicus (taxid:10116)]

 Score = 379 (138.5 bits), Expect = 1.4e-34, P = 1.4e-34
 Identities = 72/143 (50%), Positives = 104/143 (72%)

Query:     7 WDPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLIT 66
             WD  KSQ  VG+ G  L++ S+ AGLG CS++GI FNA+TTQ++PFLALG+ VDD+FL+ 
Sbjct:   446 WDCSKSQGAVGLAGVLLVALSVAAGLGLCSLIGISFNAATTQVLPFLALGVGVDDVFLLA 505

Query:    67 KTFAKYTSKNQFDSEC-TGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAI 125
               F++     +   E  TG  L++TG S+ L+S+    AFF A+LIPIPALR F+LQ A+
Sbjct:   506 HAFSETGQNKRIPIEDRTGECLKRTGASVALTSISNVTAFFMAALIPIPALRAFSLQAAV 565

Query:   126 LILFNMFVLLLVYPAIVSLDLRR 148
             +++FN  ++LL++PAI+S+DL R
Sbjct:   566 VVVFNFAMVLLIFPAILSMDLYR 588

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=ISO

GO:0001658 "branching involved in ureteric bud morphogenesis" evidence=ISO

GO:0001841 "neural tube formation" evidence=ISO

GO:0001843 "neural tube closure" evidence=ISO

GO:0003007 "heart morphogenesis" evidence=ISO

GO:0003674 "molecular_function" evidence=ND

GO:0005113 "patched binding" evidence=ISO

GO:0005119 "smoothened binding" evidence=ISO

GO:0005886 "plasma membrane" evidence=ISO

GO:0005901 "caveola" evidence=ISO

GO:0007165 "signal transduction" evidence=ISO

GO:0007224 "smoothened signaling pathway" evidence=ISO

GO:0007346 "regulation of mitotic cell cycle" evidence=ISO

GO:0007389 "pattern specification process" evidence=ISO

GO:0007420 "brain development" evidence=ISO

GO:0008201 "heparin binding" evidence=ISO

GO:0008285 "negative regulation of cell proliferation" evidence=ISO

GO:0008544 "epidermis development" evidence=ISO

GO:0008589 "regulation of smoothened signaling pathway" evidence=ISO

GO:0009612 "response to mechanical stimulus" evidence=IEP

GO:0009887 "organ morphogenesis" evidence=ISO

GO:0009953 "dorsal/ventral pattern formation" evidence=ISO

GO:0010157 "response to chlorate" evidence=ISO

GO:0010875 "positive regulation of cholesterol efflux" evidence=ISO

GO:0014069 "postsynaptic density" evidence=IDA

GO:0014070 "response to organic cyclic compound" evidence=IEP

GO:0015485 "cholesterol binding" evidence=ISO

GO:0016485 "protein processing" evidence=ISO

GO:0021522 "spinal cord motor neuron differentiation" evidence=ISO

GO:0021532 "neural tube patterning" evidence=ISO

GO:0021904 "dorsal/ventral neural tube patterning" evidence=ISO

GO:0021997 "neural plate axis specification" evidence=ISO

GO:0030326 "embryonic limb morphogenesis" evidence=ISO

GO:0030332 "cyclin binding" evidence=ISO

GO:0030496 "midbody" evidence=ISO

GO:0030879 "mammary gland development" evidence=ISO

GO:0032355 "response to estradiol stimulus" evidence=IEP

GO:0032403 "protein complex binding" evidence=ISO

GO:0032526 "response to retinoic acid" evidence=IEP

GO:0032880 "regulation of protein localization" evidence=ISO

GO:0035108 "limb morphogenesis" evidence=ISO

GO:0035137 "hindlimb morphogenesis" evidence=ISO

GO:0040008 "regulation of growth" evidence=ISO

GO:0040015 "negative regulation of multicellular organism growth" evidence=ISO

GO:0042127 "regulation of cell proliferation" evidence=ISO

GO:0042493 "response to drug" evidence=IEP

GO:0042593 "glucose homeostasis" evidence=ISO

GO:0043231 "intracellular membrane-bounded organelle" evidence=ISO

GO:0043433 "negative regulation of sequence-specific DNA binding transcription factor activity" evidence=ISO

GO:0043616 "keratinocyte proliferation" evidence=ISO

GO:0044294 "dendritic growth cone" evidence=IDA

GO:0044295 "axonal growth cone" evidence=IDA

GO:0045668 "negative regulation of osteoblast differentiation" evidence=ISO

GO:0045879 "negative regulation of smoothened signaling pathway" evidence=ISO

GO:0048471 "perinuclear region of cytoplasm" evidence=ISO

GO:0050680 "negative regulation of epithelial cell proliferation" evidence=ISO

GO:0051782 "negative regulation of cell division" evidence=ISO

GO:0060037 "pharyngeal system development" evidence=ISO

GO:0060603 "mammary gland duct morphogenesis" evidence=ISO

GO:0060644 "mammary gland epithelial cell differentiation" evidence=ISO

GO:0060831 "smoothened signaling pathway involved in dorsal/ventral neural tube patterning" evidence=ISO

GO:0061005 "cell differentiation involved in kidney development" evidence=ISO

GO:0061053 "somite development" evidence=ISO

GO:0071397 "cellular response to cholesterol" evidence=ISO

GO:0072001 "renal system development" evidence=ISO

GO:0072203 "cell proliferation involved in metanephros development" evidence=ISO

GO:0072372 "primary cilium" evidence=ISO

GO:0072661 "protein targeting to plasma membrane" evidence=ISO

GO:0097108 "hedgehog family protein binding" evidence=ISO

GO:0005794 "Golgi apparatus" evidence=ISO

ZFIN|ZDB-GENE-980526-196 ptch1 "patched 1" [Danio rerio (taxid:7955)]

 Score = 386 (140.9 bits), Expect = 2.6e-34, P = 2.6e-34
 Identities = 75/145 (51%), Positives = 108/145 (74%)

Query:     7 WDPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLIT 66
             WD  KSQ  VG+ G  L++ S+ AGLG CS+LGI FNA+TTQ++PFLALG+ VDD+FL+ 
Sbjct:   449 WDCAKSQGAVGLAGVLLVTLSVAAGLGLCSLLGISFNAATTQVLPFLALGVGVDDVFLLA 508

Query:    67 KTFAKYTSKNQ---FDSECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQL 123
               F++ T +N+   F+   TG  L++TG S+ L+S+    AFF A+LIPIPALR F+LQ 
Sbjct:   509 HAFSE-TGQNKRIPFEDR-TGECLKRTGASVALTSISNVTAFFMAALIPIPALRAFSLQA 566

Query:   124 AILILFNMFVLLLVYPAIVSLDLRR 148
             A++++FN  ++LL++PAI+S+DL R
Sbjct:   567 AVVVVFNFAMVLLIFPAILSMDLYR 591

GO:0016020 "membrane" evidence=IEA

GO:0008158 "hedgehog receptor activity" evidence=IEA

GO:0016021 "integral to membrane" evidence=IEA

GO:0048635 "negative regulation of muscle organ development" evidence=IGI

GO:0010002 "cardioblast differentiation" evidence=IGI

GO:0060042 "retina morphogenesis in camera-type eye" evidence=IMP

GO:0001957 "intramembranous ossification" evidence=IMP

GO:0001649 "osteoblast differentiation" evidence=IMP

GO:0060041 "retina development in camera-type eye" evidence=IMP

GO:0045879 "negative regulation of smoothened signaling pathway" evidence=IMP

UNIPROTKB|F1NYG9 PTCH1 "Protein patched homolog 1" [Gallus gallus (taxid:9031)]

 Score = 384 (140.2 bits), Expect = 3.5e-34, P = 3.5e-34
 Identities = 74/145 (51%), Positives = 108/145 (74%)

Query:     7 WDPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLIT 66
             WD  KSQ  VG+ G  L++ S+ AGLG CS++GI FNA+TTQ++PFLALG+ VDD+FL+ 
Sbjct:   329 WDCAKSQGAVGLAGVLLVALSVAAGLGLCSLIGISFNAATTQVLPFLALGVGVDDVFLLA 388

Query:    67 KTFAKYTSKNQ---FDSECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQL 123
               F++ T +N+   F+   TG  L++TG S+ L+S+    AFF A+LIPIPALR F+LQ 
Sbjct:   389 HAFSE-TGQNKRIPFEDR-TGECLKRTGASVALTSISNVTAFFMAALIPIPALRAFSLQA 446

Query:   124 AILILFNMFVLLLVYPAIVSLDLRR 148
             A++++FN  ++LL++PAI+S+DL R
Sbjct:   447 AVVVVFNFAMVLLIFPAILSMDLYR 471

GO:0008158 "hedgehog receptor activity" evidence=IEA

GO:0016021 "integral to membrane" evidence=IEA

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=IEA

GO:0001658 "branching involved in ureteric bud morphogenesis" evidence=IEA

GO:0001843 "neural tube closure" evidence=IEA

GO:0003007 "heart morphogenesis" evidence=IEA

GO:0005113 "patched binding" evidence=IEA

GO:0005119 "smoothened binding" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=IEA

GO:0005901 "caveola" evidence=IEA

GO:0007224 "smoothened signaling pathway" evidence=IEA

GO:0007346 "regulation of mitotic cell cycle" evidence=IEA

GO:0007420 "brain development" evidence=IEA

GO:0008201 "heparin binding" evidence=IEA

GO:0008544 "epidermis development" evidence=IEA

GO:0008589 "regulation of smoothened signaling pathway" evidence=IEA

GO:0010157 "response to chlorate" evidence=IEA

GO:0010875 "positive regulation of cholesterol efflux" evidence=IEA

GO:0015485 "cholesterol binding" evidence=IEA

GO:0016485 "protein processing" evidence=IEA

GO:0021904 "dorsal/ventral neural tube patterning" evidence=IEA

GO:0021997 "neural plate axis specification" evidence=IEA

GO:0030326 "embryonic limb morphogenesis" evidence=IEA

GO:0030332 "cyclin binding" evidence=IEA

GO:0030496 "midbody" evidence=IEA

GO:0032403 "protein complex binding" evidence=IEA

GO:0032880 "regulation of protein localization" evidence=IEA

GO:0035137 "hindlimb morphogenesis" evidence=IEA

GO:0040015 "negative regulation of multicellular organism growth" evidence=IEA

GO:0042593 "glucose homeostasis" evidence=IEA

GO:0043433 "negative regulation of sequence-specific DNA binding transcription factor activity" evidence=IEA

GO:0043616 "keratinocyte proliferation" evidence=IEA

GO:0045668 "negative regulation of osteoblast differentiation" evidence=IEA

GO:0048471 "perinuclear region of cytoplasm" evidence=IEA

GO:0050680 "negative regulation of epithelial cell proliferation" evidence=IEA

GO:0051782 "negative regulation of cell division" evidence=IEA

GO:0060037 "pharyngeal system development" evidence=IEA

GO:0060603 "mammary gland duct morphogenesis" evidence=IEA

GO:0060644 "mammary gland epithelial cell differentiation" evidence=IEA

GO:0061005 "cell differentiation involved in kidney development" evidence=IEA

GO:0061053 "somite development" evidence=IEA

GO:0071397 "cellular response to cholesterol" evidence=IEA

GO:0072203 "cell proliferation involved in metanephros development" evidence=IEA

GO:0072661 "protein targeting to plasma membrane" evidence=IEA

GO:0097108 "hedgehog family protein binding" evidence=IEA

UNIPROTKB|Q90693 PTCH1 "Protein patched homolog 1" [Gallus gallus (taxid:9031)]

 Score = 384 (140.2 bits), Expect = 4.1e-34, P = 4.1e-34
 Identities = 74/145 (51%), Positives = 108/145 (74%)

Query:     7 WDPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLIT 66
             WD  KSQ  VG+ G  L++ S+ AGLG CS++GI FNA+TTQ++PFLALG+ VDD+FL+ 
Sbjct:   460 WDCAKSQGAVGLAGVLLVALSVAAGLGLCSLIGISFNAATTQVLPFLALGVGVDDVFLLA 519

Query:    67 KTFAKYTSKNQ---FDSECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQL 123
               F++ T +N+   F+   TG  L++TG S+ L+S+    AFF A+LIPIPALR F+LQ 
Sbjct:   520 HAFSE-TGQNKRIPFEDR-TGECLKRTGASVALTSISNVTAFFMAALIPIPALRAFSLQA 577

Query:   124 AILILFNMFVLLLVYPAIVSLDLRR 148
             A++++FN  ++LL++PAI+S+DL R
Sbjct:   578 AVVVVFNFAMVLLIFPAILSMDLYR 602

GO:0008158 "hedgehog receptor activity" evidence=IEA

GO:0007224 "smoothened signaling pathway" evidence=NAS

GO:0005887 "integral to plasma membrane" evidence=NAS

MGI|MGI:105373 Ptch1 "patched homolog 1" [Mus musculus (taxid:10090)]

 Score = 382 (139.5 bits), Expect = 6.7e-34, P = 6.7e-34
 Identities = 74/145 (51%), Positives = 108/145 (74%)

Query:     7 WDPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLIT 66
             WD  KSQ  VG+ G  L++ S+ AGLG CS++GI FNA+TTQ++PFLALG+ VDD+FL+ 
Sbjct:   446 WDCSKSQGAVGLAGVLLVALSVAAGLGLCSLIGISFNAATTQVLPFLALGVGVDDVFLLA 505

Query:    67 KTFAKYTSKNQ---FDSECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQL 123
               F++ T +N+   F+   TG  L++TG S+ L+S+    AFF A+LIPIPALR F+LQ 
Sbjct:   506 HAFSE-TGQNKRIPFEDR-TGECLKRTGASVALTSISNVTAFFMAALIPIPALRAFSLQA 563

Query:   124 AILILFNMFVLLLVYPAIVSLDLRR 148
             A++++FN  ++LL++PAI+S+DL R
Sbjct:   564 AVVVVFNFAMVLLIFPAILSMDLYR 588

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=ISO

GO:0001658 "branching involved in ureteric bud morphogenesis" evidence=IMP

GO:0001841 "neural tube formation" evidence=IDA

GO:0001843 "neural tube closure" evidence=IMP

GO:0003007 "heart morphogenesis" evidence=IMP

GO:0005113 "patched binding" evidence=IDA

GO:0005119 "smoothened binding" evidence=ISO

GO:0005515 "protein binding" evidence=IPI

GO:0005576 "extracellular region" evidence=TAS

GO:0005886 "plasma membrane" evidence=ISO;IDA

GO:0005887 "integral to plasma membrane" evidence=TAS

GO:0005901 "caveola" evidence=ISO

GO:0007165 "signal transduction" evidence=IDA;TAS

GO:0007224 "smoothened signaling pathway" evidence=IGI;IDA

GO:0007346 "regulation of mitotic cell cycle" evidence=IMP

GO:0007389 "pattern specification process" evidence=IMP

GO:0007420 "brain development" evidence=IMP

GO:0008158 "hedgehog receptor activity" evidence=TAS

GO:0008201 "heparin binding" evidence=IDA

GO:0008270 "zinc ion binding" evidence=NAS

GO:0008285 "negative regulation of cell proliferation" evidence=IMP

GO:0008544 "epidermis development" evidence=IMP

GO:0008589 "regulation of smoothened signaling pathway" evidence=IGI;IMP

GO:0009887 "organ morphogenesis" evidence=IMP

GO:0009953 "dorsal/ventral pattern formation" evidence=IGI

GO:0010157 "response to chlorate" evidence=IDA

GO:0010875 "positive regulation of cholesterol efflux" evidence=ISO

GO:0014069 "postsynaptic density" evidence=ISO

GO:0015485 "cholesterol binding" evidence=ISO;TAS

GO:0016020 "membrane" evidence=IEA

GO:0016021 "integral to membrane" evidence=IEA

GO:0016485 "protein processing" evidence=IMP

GO:0021522 "spinal cord motor neuron differentiation" evidence=IGI

GO:0021532 "neural tube patterning" evidence=ISO

GO:0021904 "dorsal/ventral neural tube patterning" evidence=IMP

GO:0021997 "neural plate axis specification" evidence=IMP

GO:0030326 "embryonic limb morphogenesis" evidence=IGI;IMP

GO:0030332 "cyclin binding" evidence=ISO;IPI

GO:0030496 "midbody" evidence=IDA

GO:0030879 "mammary gland development" evidence=IMP

GO:0032403 "protein complex binding" evidence=IDA

GO:0032880 "regulation of protein localization" evidence=IDA;IMP

GO:0035108 "limb morphogenesis" evidence=ISO

GO:0035137 "hindlimb morphogenesis" evidence=IMP

GO:0040008 "regulation of growth" evidence=IMP

GO:0040015 "negative regulation of multicellular organism growth" evidence=IMP

GO:0042127 "regulation of cell proliferation" evidence=IMP

GO:0042593 "glucose homeostasis" evidence=IMP

GO:0043231 "intracellular membrane-bounded organelle" evidence=ISO

GO:0043433 "negative regulation of sequence-specific DNA binding transcription factor activity" evidence=ISO

GO:0043616 "keratinocyte proliferation" evidence=IMP

GO:0044294 "dendritic growth cone" evidence=ISO

GO:0044295 "axonal growth cone" evidence=ISO

GO:0045668 "negative regulation of osteoblast differentiation" evidence=ISO

GO:0045879 "negative regulation of smoothened signaling pathway" evidence=IGI;NAS;IMP

GO:0048471 "perinuclear region of cytoplasm" evidence=ISO

GO:0050680 "negative regulation of epithelial cell proliferation" evidence=IMP

GO:0051782 "negative regulation of cell division" evidence=IMP

GO:0060037 "pharyngeal system development" evidence=ISO

GO:0060603 "mammary gland duct morphogenesis" evidence=IMP

GO:0060644 "mammary gland epithelial cell differentiation" evidence=IMP

GO:0060831 "smoothened signaling pathway involved in dorsal/ventral neural tube patterning" evidence=IMP

GO:0061005 "cell differentiation involved in kidney development" evidence=IGI

GO:0061053 "somite development" evidence=ISO;IMP

GO:0071397 "cellular response to cholesterol" evidence=ISO

GO:0072203 "cell proliferation involved in metanephros development" evidence=IMP

GO:0072372 "primary cilium" evidence=IDA

GO:0072661 "protein targeting to plasma membrane" evidence=ISO

GO:0097108 "hedgehog family protein binding" evidence=ISO

UNIPROTKB|Q6UY90 Ptch1 "Protein Ptch1" [Rattus norvegicus (taxid:10116)]

 Score = 382 (139.5 bits), Expect = 6.7e-34, P = 6.7e-34
 Identities = 74/145 (51%), Positives = 108/145 (74%)

Query:     7 WDPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLIT 66
             WD  KSQ  VG+ G  L++ S+ AGLG CS++GI FNA+TTQ++PFLALG+ VDD+FL+ 
Sbjct:   446 WDCSKSQGAVGLAGVLLVALSVAAGLGLCSLIGISFNAATTQVLPFLALGVGVDDVFLLA 505

Query:    67 KTFAKYTSKNQ---FDSECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQL 123
               F++ T +N+   F+   TG  L++TG S+ L+S+    AFF A+LIPIPALR F+LQ 
Sbjct:   506 HAFSE-TGQNKRIPFEDR-TGECLKRTGASVALTSISNVTAFFMAALIPIPALRAFSLQA 563

Query:   124 AILILFNMFVLLLVYPAIVSLDLRR 148
             A++++FN  ++LL++PAI+S+DL R
Sbjct:   564 AVVVVFNFAMVLLIFPAILSMDLYR 588

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=IEA

GO:0001658 "branching involved in ureteric bud morphogenesis" evidence=IEA

GO:0001843 "neural tube closure" evidence=IEA

GO:0003007 "heart morphogenesis" evidence=IEA

GO:0005113 "patched binding" evidence=IEA

GO:0005119 "smoothened binding" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=IEA

GO:0005901 "caveola" evidence=IEA

GO:0007224 "smoothened signaling pathway" evidence=ISS

GO:0007346 "regulation of mitotic cell cycle" evidence=IEA

GO:0007420 "brain development" evidence=IEA

GO:0008158 "hedgehog receptor activity" evidence=IEA

GO:0008201 "heparin binding" evidence=IEA

GO:0008544 "epidermis development" evidence=IEA

GO:0008589 "regulation of smoothened signaling pathway" evidence=ISS

GO:0009887 "organ morphogenesis" evidence=ISS

GO:0009953 "dorsal/ventral pattern formation" evidence=ISS

GO:0010157 "response to chlorate" evidence=IEA

GO:0010875 "positive regulation of cholesterol efflux" evidence=IEA

GO:0015485 "cholesterol binding" evidence=IEA

GO:0016021 "integral to membrane" evidence=IEA

GO:0016485 "protein processing" evidence=ISS

GO:0021904 "dorsal/ventral neural tube patterning" evidence=IEA

GO:0021997 "neural plate axis specification" evidence=IEA

GO:0030326 "embryonic limb morphogenesis" evidence=ISS

GO:0030332 "cyclin binding" evidence=IEA

GO:0030496 "midbody" evidence=IEA

GO:0032403 "protein complex binding" evidence=IEA

GO:0032880 "regulation of protein localization" evidence=IEA

GO:0035137 "hindlimb morphogenesis" evidence=IEA

GO:0040015 "negative regulation of multicellular organism growth" evidence=ISS

GO:0042593 "glucose homeostasis" evidence=IEA

GO:0043433 "negative regulation of sequence-specific DNA binding transcription factor activity" evidence=IEA

GO:0043616 "keratinocyte proliferation" evidence=IEA

GO:0045668 "negative regulation of osteoblast differentiation" evidence=IEA

GO:0048471 "perinuclear region of cytoplasm" evidence=IEA

GO:0050680 "negative regulation of epithelial cell proliferation" evidence=IEA

GO:0051782 "negative regulation of cell division" evidence=IEA

GO:0060037 "pharyngeal system development" evidence=IEA

GO:0060603 "mammary gland duct morphogenesis" evidence=IEA

GO:0060644 "mammary gland epithelial cell differentiation" evidence=IEA

GO:0061005 "cell differentiation involved in kidney development" evidence=IEA

GO:0061053 "somite development" evidence=IEA

GO:0071397 "cellular response to cholesterol" evidence=IEA

GO:0072203 "cell proliferation involved in metanephros development" evidence=IEA

GO:0072661 "protein targeting to plasma membrane" evidence=IEA

GO:0097108 "hedgehog family protein binding" evidence=IEA

UNIPROTKB|Q13635 PTCH1 "Protein patched homolog 1" [Homo sapiens (taxid:9606)]

 Score = 382 (139.5 bits), Expect = 6.8e-34, P = 6.8e-34
 Identities = 74/145 (51%), Positives = 108/145 (74%)

Query:     7 WDPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLIT 66
             WD  KSQ  VG+ G  L++ S+ AGLG CS++GI FNA+TTQ++PFLALG+ VDD+FL+ 
Sbjct:   460 WDCSKSQGAVGLAGVLLVALSVAAGLGLCSLIGISFNAATTQVLPFLALGVGVDDVFLLA 519

Query:    67 KTFAKYTSKNQ---FDSECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQL 123
               F++ T +N+   F+   TG  L++TG S+ L+S+    AFF A+LIPIPALR F+LQ 
Sbjct:   520 HAFSE-TGQNKRIPFEDR-TGECLKRTGASVALTSISNVTAFFMAALIPIPALRAFSLQA 577

Query:   124 AILILFNMFVLLLVYPAIVSLDLRR 148
             A++++FN  ++LL++PAI+S+DL R
Sbjct:   578 AVVVVFNFAMVLLIFPAILSMDLYR 602

GO:0008158 "hedgehog receptor activity" evidence=IEA

GO:0016021 "integral to membrane" evidence=IEA

GO:0007346 "regulation of mitotic cell cycle" evidence=IEA

GO:0008201 "heparin binding" evidence=IEA

GO:0008544 "epidermis development" evidence=IEA

GO:0010157 "response to chlorate" evidence=IEA

GO:0021904 "dorsal/ventral neural tube patterning" evidence=IEA

GO:0030496 "midbody" evidence=IEA

GO:0032403 "protein complex binding" evidence=IEA

GO:0032880 "regulation of protein localization" evidence=IEA

GO:0035137 "hindlimb morphogenesis" evidence=IEA

GO:0042593 "glucose homeostasis" evidence=IEA

GO:0043616 "keratinocyte proliferation" evidence=IEA

GO:0050680 "negative regulation of epithelial cell proliferation" evidence=IEA

GO:0051782 "negative regulation of cell division" evidence=IEA

GO:0060603 "mammary gland duct morphogenesis" evidence=IEA

GO:0060644 "mammary gland epithelial cell differentiation" evidence=IEA

GO:0061005 "cell differentiation involved in kidney development" evidence=IEA

GO:0072203 "cell proliferation involved in metanephros development" evidence=IEA

GO:0001658 "branching involved in ureteric bud morphogenesis" evidence=IEA

GO:0001843 "neural tube closure" evidence=IEA

GO:0003007 "heart morphogenesis" evidence=IEA

GO:0007224 "smoothened signaling pathway" evidence=IEP;ISS

GO:0009887 "organ morphogenesis" evidence=ISS

GO:0009953 "dorsal/ventral pattern formation" evidence=ISS

GO:0016485 "protein processing" evidence=ISS

GO:0030326 "embryonic limb morphogenesis" evidence=ISS

GO:0040015 "negative regulation of multicellular organism growth" evidence=ISS

GO:0008589 "regulation of smoothened signaling pathway" evidence=ISS

GO:0072001 "renal system development" evidence=IEP

GO:0005515 "protein binding" evidence=IPI

GO:0005113 "patched binding" evidence=IPI

GO:0097108 "hedgehog family protein binding" evidence=IPI

GO:0005119 "smoothened binding" evidence=IPI

GO:0030332 "cyclin binding" evidence=IPI

GO:0005886 "plasma membrane" evidence=IDA

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=IMP

GO:0045668 "negative regulation of osteoblast differentiation" evidence=IMP

GO:0043433 "negative regulation of sequence-specific DNA binding transcription factor activity" evidence=IMP

GO:0045879 "negative regulation of smoothened signaling pathway" evidence=ISS;TAS

GO:0071397 "cellular response to cholesterol" evidence=ISS;IMP

GO:0010875 "positive regulation of cholesterol efflux" evidence=IDA

GO:0015485 "cholesterol binding" evidence=IDA

GO:0043231 "intracellular membrane-bounded organelle" evidence=IDA

GO:0048471 "perinuclear region of cytoplasm" evidence=IDA

GO:0072661 "protein targeting to plasma membrane" evidence=IDA

GO:0005901 "caveola" evidence=IDA

GO:0005794 "Golgi apparatus" evidence=IDA

GO:0021997 "neural plate axis specification" evidence=ISS

GO:0007420 "brain development" evidence=ISS

GO:0060037 "pharyngeal system development" evidence=IMP

GO:0021532 "neural tube patterning" evidence=IMP

GO:0061053 "somite development" evidence=IMP

GO:0035108 "limb morphogenesis" evidence=IMP

UNIPROTKB|F1PNE0 PTCH1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 382 (139.5 bits), Expect = 6.8e-34, P = 6.8e-34
 Identities = 74/145 (51%), Positives = 108/145 (74%)

Query:     7 WDPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLIT 66
             WD  KSQ  VG+ G  L++ S+ AGLG CS++GI FNA+TTQ++PFLALG+ VDD+FL+ 
Sbjct:   458 WDCSKSQGAVGLAGVLLVALSVAAGLGLCSLIGISFNAATTQVLPFLALGVGVDDVFLLA 517

Query:    67 KTFAKYTSKNQ---FDSECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQL 123
               F++ T +N+   F+   TG  L++TG S+ L+S+    AFF A+LIPIPALR F+LQ 
Sbjct:   518 HAFSE-TGQNKRIPFEDR-TGECLKRTGASVALTSISNVTAFFMAALIPIPALRAFSLQA 575

Query:   124 AILILFNMFVLLLVYPAIVSLDLRR 148
             A++++FN  ++LL++PAI+S+DL R
Sbjct:   576 AVVVVFNFAMVLLIFPAILSMDLYR 600

GO:0016021 "integral to membrane" evidence=IEA

GO:0008158 "hedgehog receptor 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

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q61115	PTC1_MOUSE	No assigned EC number	0.5103	0.9333	0.0976	yes	N/A
Q13635	PTC1_HUMAN	No assigned EC number	0.5103	0.9333	0.0967	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	150
TIGR00918	1145	TIGR00918, 2A060602, The Eukaryotic (Putative) Ste	4e-51
pfam12349	153	pfam12349, Sterol-sensing, Sterol-sensing domain o	5e-30
TIGR00917	1204	TIGR00917, 2A060601, Niemann-Pick C type protein f	1e-15
pfam02460	801	pfam02460, Patched, Patched family	5e-12
COG1033	727	COG1033, COG1033, Predicted exporters of the RND s	6e-07
TIGR00921	719	TIGR00921, 2A067, The (Largely Archaeal Putative)	9e-07
TIGR00921	719	TIGR00921, 2A067, The (Largely Archaeal Putative)	2e-06
COG1033	727	COG1033, COG1033, Predicted exporters of the RND s	5e-06
COG2409	937	COG2409, COG2409, Predicted drug exporters of the	2e-05
TIGR00833	910	TIGR00833, actII, Transport protein	4e-05

>gnl|CDD|233185 TIGR00918, 2A060602, The Eukaryotic (Putative) Sterol Transporter (EST) Family

 Score =  173 bits (441), Expect = 4e-51
 Identities = 78/142 (54%), Positives = 107/142 (75%), Gaps = 1/142 (0%)

Query: 7   WDPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLIT 66
           WD  KSQ  VG+ G  L++ S+ AGLG C++LGI FNA+TTQ++PFLALG+ VDD+FL+ 
Sbjct: 420 WDCAKSQGSVGLAGVLLVALSVAAGLGLCALLGISFNAATTQVLPFLALGVGVDDVFLLA 479

Query: 67  KTFAKYTSKNQFDSECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAIL 126
             F++ T +N    E TG  L++TG S++L+S+    AFF A+LIPIPALR F+LQ AI+
Sbjct: 480 HAFSE-TGQNIPFEERTGECLKRTGASVVLTSISNVTAFFMAALIPIPALRAFSLQAAIV 538

Query: 127 ILFNMFVLLLVYPAIVSLDLRR 148
           ++FN   +LLV+PAI+SLDLRR
Sbjct: 539 VVFNFAAVLLVFPAILSLDLRR 560

Length = 1145

>gnl|CDD|192997 pfam12349, Sterol-sensing, Sterol-sensing domain of SREBP cleavage-activation

 Score =  106 bits (266), Expect = 5e-30
 Identities = 46/139 (33%), Positives = 81/139 (58%), Gaps = 1/139 (0%)

Query: 10  VKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTF 69
           VKS+ G+ + G   +  S+ +  G C+ LG+PF     +++PFL L + VD+MFL+    
Sbjct: 2   VKSKFGLALAGVVQVLMSVASSFGLCAYLGLPFTLIPGEVIPFLVLAVGVDNMFLLVHAV 61

Query: 70  AKYTSKNQFDSECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILF 129
            + T ++    E     L + G SI L+S+ + +AF   +L P+PA++ F L  A+ +LF
Sbjct: 62  -QRTPRSLDVEERIAEALGEVGPSITLTSLTELLAFLIGALTPMPAVQEFCLFAAVAVLF 120

Query: 130 NMFVLLLVYPAIVSLDLRR 148
           +  + +  + A++SLD+RR
Sbjct: 121 DFLLQITFFVAVLSLDIRR 139

Sterol regulatory element-binding proteins (SREBPs) are membrane-bound transcription factors that promote lipid synthesis in animal cells. They are embedded in the membranes of the endoplasmic reticulum (ER) in a helical hairpin orientation and are released from the ER by a two-step proteolytic process. Proteolysis begins when the SREBPs are cleaved at Site-1, which is located at a leucine residue in the middle of the hydrophobic loop in the lumen of the ER. Upon proteolytic processing SREBP can activate the expression of genes involved in cholesterol biosynthesis and uptake. SCAP stimulates cleavage of SREBPs via fusion of the their two C-termini. This domain is the transmembrane region that traverses the membrane eight times and is the sterol-sensing domain of the cleavage protein. WD40 domains are found towards the C-terminus. Length = 153

>gnl|CDD|233184 TIGR00917, 2A060601, Niemann-Pick C type protein family

 Score = 72.2 bits (177), Expect = 1e-15
 Identities = 39/149 (26%), Positives = 79/149 (53%), Gaps = 10/149 (6%)

Query: 10  VKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTF 69
           + S+  +GI G  ++  S++  +G  S +G+       +++PFL L + VD++F++ +T+
Sbjct: 601 IDSKVLLGISGVLIVLASVVGSVGVFSYIGLKATLIIMEVIPFLVLAVGVDNIFILVQTY 660

Query: 70  AK-----YTSKNQFDSECT-----GIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVF 119
            +            + E T     G  L + G SI L+S+ +S+AFF  +L  +PA+R F
Sbjct: 661 QRLERFYREVGVDNEQELTLEQQLGRALGEVGPSITLASLSESLAFFLGALSKMPAVRAF 720

Query: 120 NLQLAILILFNMFVLLLVYPAIVSLDLRR 148
           +L   + +  +  + +  + A++ LD +R
Sbjct: 721 SLFAGLAVFIDFLLQITAFVALLVLDFKR 749

The model describes Niemann-Pick C type protein in eukaryotes. The defective protein has been associated with Niemann-Pick disease which is described in humans as autosomal recessive lipidosis. It is characterized by the lysosomal accumulation of unestrified cholesterol. It is an integral membrane protein, which indicates that this protein is most likely involved in cholesterol transport or acts as some component of cholesterol homeostasis [Transport and binding proteins, Other]. Length = 1204

>gnl|CDD|217050 pfam02460, Patched, Patched family

 Score = 62.0 bits (151), Expect = 5e-12
 Identities = 40/141 (28%), Positives = 71/141 (50%), Gaps = 10/141 (7%)

Query: 8   DPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLIT- 66
           D V+S+  + ILGC     + ++  G     G PFN+    + PFL L + VDDMFL+  
Sbjct: 244 DWVRSKPILAILGCLTPLMATVSAFGLLFWFGFPFNSIVC-VTPFLVLAIGVDDMFLMVH 302

Query: 67  ---KTFAKYTSKNQFDSECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQL 123
              +T    + K +      G  L + G SI ++S+   ++F   +  P PA+++F L  
Sbjct: 303 AWQRTTKTLSVKKRM-----GETLSEAGPSITITSLTNVLSFGIGTYTPTPAIQLFCLYT 357

Query: 124 AILILFNMFVLLLVYPAIVSL 144
           A+ I F+    +  + A++++
Sbjct: 358 AVAIFFDFIYQITFFAAVMAI 378

The transmembrane protein Patched is a receptor for the morphogene Sonic Hedgehog. This protein associates with the smoothened protein to transduce hedgehog signals. Length = 801

>gnl|CDD|223964 COG1033, COG1033, Predicted exporters of the RND superfamily [General function prediction only]

 Score = 47.3 bits (113), Expect = 6e-07
 Identities = 33/119 (27%), Positives = 58/119 (48%), Gaps = 1/119 (0%)

Query: 26  FSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGI 85
            S+L  LG   +LGIP    TT  VP L +G+ +D        + +   K +   E    
Sbjct: 232 VSVLWTLGAMGLLGIPLTI-TTSAVPPLLIGIGIDYGVHFHNRYEEERRKGRTVEEAVVE 290

Query: 86  VLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVSL 144
            ++ TG +++++++  +  F S     IPA++ F + L+I I+      L V PA++ L
Sbjct: 291 AIKHTGPAVLIAALTTAAGFLSLLTSSIPAIKEFGILLSIGIILAFLSSLTVLPALLIL 349

Length = 727

>gnl|CDD|233187 TIGR00921, 2A067, The (Largely Archaeal Putative) Hydrophobe/Amphiphile Efflux-3 (HAE3) Family

 Score = 46.7 bits (111), Expect = 9e-07
 Identities = 32/128 (25%), Positives = 58/128 (45%), Gaps = 1/128 (0%)

Query: 17  GILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKN 76
            +L   +I F +   LG    LGIP  A+T   VP L +G+ +D        + +     
Sbjct: 220 PLLPLVIILFGVAWVLGIMGWLGIPLYATTLLAVPML-IGVGIDYGIQTLNRYEEERDIG 278

Query: 77  QFDSECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLL 136
           +   E     +R+TG +++++ +  S  F + +L   P +  F L L   ++    + LL
Sbjct: 279 RAKGEAIVTAVRRTGRAVLIALLTTSAGFAALALSEFPMVSEFGLGLVAGLITAYLLTLL 338

Query: 137 VYPAIVSL 144
           V PA++  
Sbjct: 339 VLPALLQS 346

Characterized members of the RND superfamily all probably catalyze substrate efflux via an H+ antiport mechanism. These proteins are found ubiquitously in bacteria, archaea and eukaryotes. They fall into seven phylogenetic families, this family (2.A.6.7) consists of uncharacterised putative transporters, largely in the Archaea [Transport and binding proteins, Unknown substrate]. Length = 719

>gnl|CDD|233187 TIGR00921, 2A067, The (Largely Archaeal Putative) Hydrophobe/Amphiphile Efflux-3 (HAE3) Family

 Score = 45.6 bits (108), Expect = 2e-06
 Identities = 34/144 (23%), Positives = 61/144 (42%), Gaps = 11/144 (7%)

Query: 3   LIKYWDPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDM 62
           L  + +P+K+     +     I   IL  +G   + GIP           + LGL +D  
Sbjct: 585 LAVFRNPIKA-----VFPLIAIGSGILWAIGLMGLRGIPSFL-AMATTISIILGLGMDYS 638

Query: 63  FLITKTFAKYTSKNQFDSECTGIV--LRKTGLSIILSSVCKSVAFFSASLIPIPALRVFN 120
             + +   +Y  + +       I   + +TG  I+ S +  +  F S  L   P +R F 
Sbjct: 639 IHLAE---RYFEERKEHGPKEAITHTMERTGPGILFSGLTTAGGFLSLLLSHFPIMRNFG 695

Query: 121 LQLAILILFNMFVLLLVYPAIVSL 144
           L   I +L ++   L+V+PA++ L
Sbjct: 696 LVQGIGVLSSLTAALVVFPALLVL 719

Characterized members of the RND superfamily all probably catalyze substrate efflux via an H+ antiport mechanism. These proteins are found ubiquitously in bacteria, archaea and eukaryotes. They fall into seven phylogenetic families, this family (2.A.6.7) consists of uncharacterised putative transporters, largely in the Archaea [Transport and binding proteins, Unknown substrate]. Length = 719

>gnl|CDD|223964 COG1033, COG1033, Predicted exporters of the RND superfamily [General function prediction only]

 Score = 44.6 bits (106), Expect = 5e-06
 Identities = 35/128 (27%), Positives = 59/128 (46%), Gaps = 3/128 (2%)

Query: 24  ISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECT 83
           I+  +    G   +LGIP     T  +  + LG+ VD    IT+ + +   K        
Sbjct: 602 IAIVVGWNFGLMGLLGIPLTP-ATATLGAIILGIGVDYSIHITERYREERKKGGPKEAIE 660

Query: 84  GIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPA-IV 142
              + +TG +I+ S++  ++ F +    P P +  F L   I IL ++   L++ PA +V
Sbjct: 661 -TTVERTGKAILASALTTAIGFLALIFSPFPIISNFGLLTVIGILLSLLASLVLLPALLV 719

Query: 143 SLDLRRSR 150
            LD RR R
Sbjct: 720 LLDGRRKR 727

Length = 727

>gnl|CDD|225272 COG2409, COG2409, Predicted drug exporters of the RND superfamily [General function prediction only]

 Score = 42.8 bits (101), Expect = 2e-05
 Identities = 27/128 (21%), Positives = 54/128 (42%), Gaps = 6/128 (4%)

Query: 26  FSILAGLGFCSILGIPFNAS----TTQIVPFLALGLSVD-DMFLITKTFAKYTSKNQFDS 80
            S+L   G  ++L   F          ++  L +G   D  +FL+++ + +   + Q   
Sbjct: 220 LSLLVAQGIVALLAYAFGLGVSTFALSLLVALGIGAGTDYALFLVSR-YREELREGQDRE 278

Query: 81  ECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPA 140
              G   R  G ++  S +  ++A    S   +P L+   +  AI +   +   L + PA
Sbjct: 279 AAVGTAYRTAGKTVAFSGLTVAIALLGLSFARLPFLKTLGIAAAIGVAVAVLAALTLLPA 338

Query: 141 IVSLDLRR 148
           +++L  RR
Sbjct: 339 LLALLGRR 346

Length = 937

>gnl|CDD|129913 TIGR00833, actII, Transport protein

 Score = 41.9 bits (98), Expect = 4e-05
 Identities = 36/129 (27%), Positives = 66/129 (51%), Gaps = 4/129 (3%)

Query: 24  ISFSILAGLGFCSILGIP----FNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFD 79
           + FS++   G  S+LGIP     NA TT ++  L +G   D    +T  + +   K +  
Sbjct: 207 VGFSVVVAQGIVSLLGIPGLIGVNAQTTVLLTALVIGAGTDYAVFLTGRYHEERRKGESL 266

Query: 80  SECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYP 139
            E     LR TG +I+ S++  +VAF + SL  +P+ +   +  A+ +L  +   + + P
Sbjct: 267 EEAAAEALRGTGKAILGSALTVAVAFLALSLARLPSFKTLGVSCAVGVLVALLNAVTLTP 326

Query: 140 AIVSLDLRR 148
           A+++L+ R 
Sbjct: 327 ALLTLEGRE 335

The Resistance-Nodulation-Cell Division (RND) Superfamily- MmpL sub family (TC 2.A.6.5)Characterized members of the RND superfamily all probably catalyze substrate efflux via an H+ antiport mechanism. These proteins are found ubiquitously in bacteria, archaea and eukaryotes. This sub-family includes the S. coelicolor ActII3 protein, which may play a role in drug resistance, and the M. tuberculosis MmpL7 protein, which catalyzes export of an outer membrane lipid, phthiocerol dimycocerosate [Transport and binding proteins, Unknown substrate]. Length = 910

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	150
PF12349	153	Sterol-sensing: Sterol-sensing domain of SREBP cle	100.0
PF02460	798	Patched: Patched family; InterPro: IPR003392 The t	100.0
TIGR00918	1145	2A060602 The Eukaryotic (Putative) Sterol Transpor	100.0
KOG1934|consensus	868		99.98
TIGR00917	1204	2A060601 Niemann-Pick C type protein family. The m	99.97
TIGR00920	886	2A060605 3-hydroxy-3-methylglutaryl-coenzyme A red	99.97
KOG1935|consensus	1143		99.95
COG1033	727	Predicted exporters of the RND superfamily [Genera	99.9
TIGR00921	719	2A067 The (Largely Archaeal Putative) Hydrophobe/A	99.88
PF03176	333	MMPL: MMPL family; InterPro: IPR004869 Proteins of	99.86
COG1033	727	Predicted exporters of the RND superfamily [Genera	99.86
KOG1933|consensus	1201		99.81
TIGR00921	719	2A067 The (Largely Archaeal Putative) Hydrophobe/A	99.8
TIGR00833	910	actII Transport protein. Characterized members of	99.77
TIGR03480	862	HpnN hopanoid biosynthesis associated RND transpor	99.76
TIGR03480	862	HpnN hopanoid biosynthesis associated RND transpor	99.69
TIGR00916	192	2A0604s01 protein-export membrane protein, SecD/Se	99.68
PRK13022	289	secF preprotein translocase subunit SecF; Reviewed	99.67
TIGR00833	910	actII Transport protein. Characterized members of	99.64
PRK13024	755	bifunctional preprotein translocase subunit SecD/S	99.53
TIGR00918	1145	2A060602 The Eukaryotic (Putative) Sterol Transpor	99.49
PRK10614	1025	multidrug efflux system subunit MdtC; Provisional	99.46
PRK05812	498	secD preprotein translocase subunit SecD; Reviewed	99.44
PRK09579	1017	multidrug efflux protein; Reviewed	99.44
PRK13023	758	bifunctional preprotein translocase subunit SecD/S	99.42
TIGR00966	246	3a0501s07 protein-export membrane protein SecF. Th	99.4
TIGR01129	397	secD protein-export membrane protein SecD. SecD fr	99.39
PRK08578	292	preprotein translocase subunit SecF; Reviewed	99.37
PRK10555	1037	aminoglycoside/multidrug efflux system; Provisiona	99.37
PRK14726	855	bifunctional preprotein translocase subunit SecD/S	99.37
PRK10503	1040	multidrug efflux system subunit MdtB; Provisional	99.36
PRK13024	755	bifunctional preprotein translocase subunit SecD/S	99.33
TIGR00915	1044	2A0602 The (Largely Gram-negative Bacterial) Hydro	99.32
PRK15127	1049	multidrug efflux system protein AcrB; Provisional	99.32
PRK09577	1032	multidrug efflux protein; Reviewed	99.31
PF02460	798	Patched: Patched family; InterPro: IPR003392 The t	99.27
PF02355	189	SecD_SecF: Protein export membrane protein; InterP	99.26
PRK12933	604	secD preprotein translocase subunit SecD; Reviewed	99.25
PRK12911	1403	bifunctional preprotein translocase subunit SecD/S	99.24
PRK13021	297	secF preprotein translocase subunit SecF; Reviewed	99.22
TIGR00914	1051	2A0601 heavy metal efflux pump (cobalt-zinc-cadmiu	99.21
PRK14726	855	bifunctional preprotein translocase subunit SecD/S	99.18
COG2409	937	Predicted drug exporters of the RND superfamily [G	99.14
TIGR00915	1044	2A0602 The (Largely Gram-negative Bacterial) Hydro	99.09
TIGR00914	1051	2A0601 heavy metal efflux pump (cobalt-zinc-cadmiu	99.08
PRK15127	1049	multidrug efflux system protein AcrB; Provisional	99.05
PF00873	1021	ACR_tran: AcrB/AcrD/AcrF family; InterPro: IPR0010	99.05
PRK10555	1037	aminoglycoside/multidrug efflux system; Provisiona	99.0
PRK10503	1040	multidrug efflux system subunit MdtB; Provisional	98.96
PRK09579	1017	multidrug efflux protein; Reviewed	98.94
COG0341	305	SecF Preprotein translocase subunit SecF [Intracel	98.9
TIGR00917	1204	2A060601 Niemann-Pick C type protein family. The m	98.88
COG0841	1009	AcrB Cation/multidrug efflux pump [Defense mechani	98.86
PRK09577	1032	multidrug efflux protein; Reviewed	98.85
KOG3664|consensus	999		98.8
PRK10614	1025	multidrug efflux system subunit MdtC; Provisional	98.76
PRK08343	417	secD preprotein translocase subunit SecD; Reviewed	98.71
PRK13023	758	bifunctional preprotein translocase subunit SecD/S	98.7
COG4258	788	Predicted exporter [General function prediction on	98.68
COG0342	506	SecD Preprotein translocase subunit SecD [Intracel	98.66
KOG1934|consensus	868		98.66
PF00873	1021	ACR_tran: AcrB/AcrD/AcrF family; InterPro: IPR0010	98.65
PRK12911	1403	bifunctional preprotein translocase subunit SecD/S	98.55
COG4258	788	Predicted exporter [General function prediction on	98.35
COG0841	1009	AcrB Cation/multidrug efflux pump [Defense mechani	97.92
COG2409	937	Predicted drug exporters of the RND superfamily [G	97.85
KOG1935|consensus	1143		97.78
COG3696	1027	Putative silver efflux pump [Inorganic ion transpo	96.91
COG3696	1027	Putative silver efflux pump [Inorganic ion transpo	96.5

>PF12349 Sterol-sensing: Sterol-sensing domain of SREBP cleavage-activation

Probab=100.00  E-value=2.8e-36  Score=220.33  Aligned_cols=141  Identities=38%  Similarity=0.679  Sum_probs=136.4

Q ss_pred             ccccchhHHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHHHHHHHH
Q psy8504           9 PVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLR   88 (150)
Q Consensus         9 ~v~sk~~l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~i~~~l~   88 (150)
                      |||||+|+++.+++++..|+.+++|++.++|.++++...+++||+++++|+||++++.++|++.+++. +.++|++++++
T Consensus         1 ~v~S~~~L~~~~i~~v~~s~~~a~~i~~~~g~~~~~~~~e~~PFlvl~iG~dn~f~l~~~~~~~~~~~-~~~~ri~~al~   79 (153)
T PF12349_consen    1 MVGSRFWLGLAGIVSVAFSVLFALGICSLFGVPFSLIPSEVLPFLVLGIGVDNMFVLARAVRRTPSSL-PVPERIAEALS   79 (153)
T ss_pred             CCcchHHHHHHHHHHHHHHHHHHHHHHHHHcCccchhhHHHHHHHHHHHhhhHHHHHHHHHHHhcccc-cHHHHHHHHHH
Confidence            68999999999999999999999999999999999987779999999999999999999999988777 77999999999


Q ss_pred             HHhHHHHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccC
Q psy8504          89 KTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLRRSR  150 (150)
Q Consensus        89 ~~g~~i~~tslt~~~~f~~~~~s~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~rR~e  150 (150)
                      +.|++++.|++++..+|..++++++|++|+||+++++++++||++++|+|||+|++|.||.|
T Consensus        80 ~~G~si~~t~l~~~~af~~~~~~~~~~l~~Fc~faa~~l~~d~~l~~tff~avLsld~~r~~  141 (153)
T PF12349_consen   80 RVGPSILLTSLTEIVAFLIGAFSPVPALREFCLFAALALLFDFLLQLTFFPAVLSLDLRRLL  141 (153)
T ss_pred             HHhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999964

>PF02460 Patched: Patched family; InterPro: IPR003392 The transmembrane protein, patched, is a receptor for the morphogene Sonic Hedgehog

Probab=100.00  E-value=4.2e-34  Score=253.34  Aligned_cols=141  Identities=33%  Similarity=0.593  Sum_probs=136.7

Q ss_pred             cccccchhHHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHHHHHHH
Q psy8504           8 DPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVL   87 (150)
Q Consensus         8 ~~v~sk~~l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~i~~~l   87 (150)
                      ++++||+++|+.|++++++|+.+++|++.++|++++++ ..+.||+++|||+||+|+++++|+++.++. +.+||+++++
T Consensus       243 ~~~~sk~~l~~~gv~~~~la~~~~~Gl~~~~G~~~~~i-~~v~PFLvlgIGvDd~Fi~~~~~~~~~~~~-~~~er~~~~l  320 (798)
T PF02460_consen  243 DWVRSKPLLALAGVLSPLLAILASFGLLSLFGVPFNPI-VLVIPFLVLGIGVDDMFIMIHAWRRTSPDL-SVEERMAETL  320 (798)
T ss_pred             cccccchHHHHHHHHHHHHHHHHHHHHHHHcCccchhh-HHHHHHHHHHHHHhceEEeHHHHhhhchhc-cHHHHHHHHH
Confidence            56999999999999999999999999999999999997 579999999999999999999999988876 8999999999


Q ss_pred             HHHhHHHHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccC
Q psy8504          88 RKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLRRSR  150 (150)
Q Consensus        88 ~~~g~~i~~tslt~~~~f~~~~~s~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~rR~e  150 (150)
                      +++||++++||+|++++|++++++++|++|.||++++++++++|++++|+|||++++|.|||+
T Consensus       321 ~~~g~SitiTslT~~~aF~ig~~t~~pav~~Fc~~~a~av~f~~i~~it~f~a~l~l~~~re~  383 (798)
T PF02460_consen  321 AEAGPSITITSLTNALAFAIGAITPIPAVRSFCIYAALAVLFDFIYQITFFPAILVLDGRREA  383 (798)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999985

In Drosophila melanogaster, this protein associates with the smoothened protein to transduce hedgehog signals, leading to the activation of wingless, decapentaplegic and patched itself. It participates in cell interactions that establish pattern within the segment and imaginal disks during development. The mouse homologue may play a role in epidermal development. The human Niemann-Pick C1 protein, defects in which cause Niemann-Pick type II disease, is also a member of this family. This protein is involved in the intracellular trafficking of cholesterol, and may play a role in vesicular trafficking in glia, a process that may be crucial for maintaining the structural functional integrity of nerve terminals.; GO: 0008158 hedgehog receptor activity, 0016020 membrane

>TIGR00918 2A060602 The Eukaryotic (Putative) Sterol Transporter (EST) Family

Probab=100.00  E-value=2.4e-34  Score=259.75  Aligned_cols=147  Identities=52%  Similarity=0.881  Sum_probs=141.3

Q ss_pred             ccccccccccchhHHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHH
Q psy8504           3 LIKYWDPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSEC   82 (150)
Q Consensus         3 ~~~~~~~v~sk~~l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~   82 (150)
                      ++.++|+++||+++|++|++++++|+.+++|++.++|+++|.++..++|||++|+|+||+|+++++|+++.++. +.+||
T Consensus       416 ~l~~~d~v~sk~~Lgl~GVliv~lSv~~s~Gl~~~~Gi~fn~i~~~ViPFLvLgIGVDn~Fllv~~~~~t~~~~-~v~~r  494 (1145)
T TIGR00918       416 TMLRWDCAKSQGSVGLAGVLLVALSVAAGLGLCALLGISFNAATTQVLPFLALGVGVDDVFLLAHAFSETGQNI-PFEER  494 (1145)
T ss_pred             HhccchHhhhhhHHHHHHHHHHHHHHHHHHHHHHHhCCchhHHHHhhhhHHHhhhhhcchhHHHHHHhhcCccC-CHHHH
Confidence            46778999999999999999999999999999999999999987789999999999999999999999877655 89999


Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccC
Q psy8504          83 TGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLRRSR  150 (150)
Q Consensus        83 i~~~l~~~g~~i~~tslt~~~~f~~~~~s~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~rR~e  150 (150)
                      ++++++++|+++++|++|++++|++++++++|++|.||++++++++++|++|+|+|||+|++|.||+|
T Consensus       495 ~~~~l~~~g~SI~~tslt~~~aF~~ga~t~~Pavr~F~~~~a~av~~~~l~qit~F~AlLaLD~rR~~  562 (1145)
T TIGR00918       495 TGECLKRTGASVVLTSISNVTAFFMAALIPIPALRAFSLQAAIVVVFNFAAVLLVFPAILSLDLRRRE  562 (1145)
T ss_pred             HHHHHHHhcceeeHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999985

>KOG1934|consensus

Probab=99.98  E-value=5e-33  Score=245.80  Aligned_cols=146  Identities=29%  Similarity=0.470  Sum_probs=140.8

Q ss_pred             ccccccccccchhHHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHH
Q psy8504           3 LIKYWDPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSEC   82 (150)
Q Consensus         3 ~~~~~~~v~sk~~l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~   82 (150)
                      +..+.|+++||+++|++|++++.+|.+.++|++.|+|++++++. .+.|||++|||+||+|+++++|+++.++. +.+||
T Consensus       272 t~~~~~~v~SKp~lai~g~l~p~mA~~ta~G~l~~~G~~f~sI~-~v~PFLvl~IGVDD~Flml~aW~rt~~~~-~~~~R  349 (868)
T KOG1934|consen  272 TSFMIDWVRSKPILAILGVLSPVMAIITAFGLLFWCGFPFNSIV-CVMPFLVLGIGVDDAFLMLAAWRRTSKKL-SVEER  349 (868)
T ss_pred             hhcchhhhhhhHHHHHHHHHhHHHHHHHHHHHHHHcCCCCccee-eecchheeeecccHHHHHHHHHHhcCccC-CHHHH
Confidence            34677999999999999999999999999999999999999975 69999999999999999999999998888 89999


Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccC
Q psy8504          83 TGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLRRSR  150 (150)
Q Consensus        83 i~~~l~~~g~~i~~tslt~~~~f~~~~~s~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~rR~e  150 (150)
                      ++++++++||++++||+|++++|+.|.+++.|++|.||.+++++++++|++|+|||.|++++.+|||+
T Consensus       350 m~~~laeag~SItITSlTn~lsFgiG~~T~~p~v~~FC~~~a~Ai~f~fiYqlTFf~a~m~i~~~~E~  417 (868)
T KOG1934|consen  350 MAETLAEAGPSITITSLTNVLSFGIGAITPTPAVQIFCLYTAVAILFDFIYQLTFFAAVMVITGRREA  417 (868)
T ss_pred             HHHHHHHhcCeeeHHHHHHHHHHHhccCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHhh
Confidence            99999999999999999999999999999999999999999999999999999999999999999985

>TIGR00917 2A060601 Niemann-Pick C type protein family

Probab=99.97  E-value=1.7e-31  Score=243.89  Aligned_cols=143  Identities=26%  Similarity=0.509  Sum_probs=134.8

Q ss_pred             cccccchhHHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcC-CC---------
Q psy8504           8 DPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSK-NQ---------   77 (150)
Q Consensus         8 ~~v~sk~~l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~-~~---------   77 (150)
                      +++|||+++|+.|++++++|+.+++|+++|+|+++++++..++||+++|+|+||+|++++.|++..++ ++         
T Consensus       599 ~~v~Sk~~l~l~gv~~v~~sv~~s~Gl~~~~Gi~~t~i~~~v~PFLvL~IGVD~ifilv~~~~r~~~~~~~~~~~~~~~~  678 (1204)
T TIGR00917       599 LFIDSKVLLGISGVLIVLASVVGSVGVFSYIGLKATLIIMEVIPFLVLAVGVDNIFILVQTYQRLERFYREVGVDNEQEL  678 (1204)
T ss_pred             hhhhhhhHHHHHHHHHHHHHHHHHHHHHHHhCCcchHHHHHHHHHHHHHHHhhHHHHHHHHHHHhhhccccccccccccC
Confidence            57999999999999999999999999999999999987678999999999999999999999875432 22         


Q ss_pred             CHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccC
Q psy8504          78 FDSECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLRRSR  150 (150)
Q Consensus        78 ~~~~~i~~~l~~~g~~i~~tslt~~~~f~~~~~s~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~rR~e  150 (150)
                      +.+||++++++++|+++++|++|++++|++++++++|++|+||++++++++++|++++|+|||+|++|.||+|
T Consensus       679 ~~~~ri~~~l~~~G~sI~ltslt~~~aF~~g~~s~~Pavr~F~~~aa~av~~~fll~it~f~alL~ld~rR~~  751 (1204)
T TIGR00917       679 TLEQQLGRALGEVGPSITLASLSESLAFFLGALSKMPAVRAFSLFAGLAVFIDFLLQITAFVALLVLDFKRTE  751 (1204)
T ss_pred             CHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6899999999999999999999999999999999999999999999999999999999999999999999975

The model describes Niemann-Pick C type protein in eukaryotes. The defective protein has been associated with Niemann-Pick disease which is described in humans as autosomal recessive lipidosis. It is characterized by the lysosomal accumulation of unestrified cholesterol. It is an integral membrane protein, which indicates that this protein is most likely involved in cholesterol transport or acts as some component of cholesterol homeostasis.

>TIGR00920 2A060605 3-hydroxy-3-methylglutaryl-coenzyme A reductase

Probab=99.97  E-value=5.2e-31  Score=229.75  Aligned_cols=144  Identities=20%  Similarity=0.240  Sum_probs=133.2

Q ss_pred             cccccccccchhHHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHHH
Q psy8504           4 IKYWDPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECT   83 (150)
Q Consensus         4 ~~~~~~v~sk~~l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~i   83 (150)
                      +.+.+.++||++||++|++++++|++++.|++.++|.+++.+ ..++||+++++|+||+|.+ ..|+......++.++|+
T Consensus        80 l~~l~~v~SK~~LGlaGV~~V~~Svv~S~Gl~s~lG~~~t~I-~eViPFLvLaIGVDnifiL-a~~~~~t~~~~~v~eRI  157 (886)
T TIGR00920        80 FCNLRQLGSKYILGIAGLFTIFSSFVFSTAVIHFLGSELTGL-NEALPFFLLLIDLSKASAL-AKFALSSNSQDEVRDNI  157 (886)
T ss_pred             hCCccccCcchhhhhHHHHHHHHHHHHHHHHHHHhCCcHHHH-HHHHhHHHhhhchhhHHHH-HhhhhccCCCCCHHHHH
Confidence            345677999999999999999999999999999999999998 7999999999999999999 44552333455999999


Q ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccc
Q psy8504          84 GIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLRRS  149 (150)
Q Consensus        84 ~~~l~~~g~~i~~tslt~~~~f~~~~~s~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~rR~  149 (150)
                      ++++++.||++++++++++++|++++++++|++|.||.|++++++++|++|+|||||+|+++.+|+
T Consensus       158 a~~l~~vGpSItltslte~l~F~vGtls~mPAV~~Fc~ya~vAVl~nyllQmTfF~A~LsL~~~le  223 (886)
T TIGR00920       158 ARGMAILGPTITLDTVVETLVIGVGTMSGVRRLEVLCCFGCMSVLANYFVFMTFFPACLSLVLELS  223 (886)
T ss_pred             HHHHHHhccceeHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999998875

>KOG1935|consensus

Probab=99.95  E-value=3.9e-28  Score=209.56  Aligned_cols=144  Identities=51%  Similarity=0.879  Sum_probs=138.2

Q ss_pred             cccc-ccccccchhHHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHH
Q psy8504           3 LIKY-WDPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSE   81 (150)
Q Consensus         3 ~~~~-~~~v~sk~~l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~   81 (150)
                      |..| ||+++|+..+|++|++.+.+|..+++|++.++|+.||.-|.+++||+.+|+|+||+|.+.++|++..+.    +|
T Consensus       429 t~lr~~~~~~sq~~vglaGVllv~~ssaaGLGl~t~lGI~FNAAtTQVvPFLaLGlGVDd~FlL~hay~e~~~~----~~  504 (1143)
T KOG1935|consen  429 TQLRWWDAVQSQGSVGLAGVLLVTFSSAAGLGLATLLGIEFNAATTQVVPFLALGLGVDDMFLLLHAYREVVKL----HE  504 (1143)
T ss_pred             HHHHhhhhhccccchhhhhhhhhhhHhhcchhHHHHhceeeccccceeehhhhhccChhHHHHHHHHHHHHhhh----HH
Confidence            4567 799999999999999999999999999999999999999999999999999999999999999986643    89


Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccC
Q psy8504          82 CTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLRRSR  150 (150)
Q Consensus        82 ~i~~~l~~~g~~i~~tslt~~~~f~~~~~s~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~rR~e  150 (150)
                      ++++.++++|+++.+||+.++.+|+.+++-|+|++|.||..+++.+.++|+..++.|||++++|.||++
T Consensus       505 ~~~~~lk~tG~Svl~tsinni~aF~~aallPIPALrsFclQaaIvl~fnfia~llifPAiisiDLrRr~  573 (1143)
T KOG1935|consen  505 EMGELLKETGMSVLLTSINNILAFLMAALLPIPALRSFCLQAAIVLTFNFIAVLLIFPAIISIDLRRRK  573 (1143)
T ss_pred             HHHHHHHHhCcchhHHHhhhHHHHHHHhhcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhh
Confidence            999999999999999999999999999999999999999999999999999999999999999999975

>COG1033 Predicted exporters of the RND superfamily [General function prediction only]

Probab=99.90  E-value=1.2e-23  Score=183.44  Aligned_cols=135  Identities=24%  Similarity=0.405  Sum_probs=126.9

Q ss_pred             chhHHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHHHHHHHHHHhH
Q psy8504          13 QAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRKTGL   92 (150)
Q Consensus        13 k~~l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~i~~~l~~~g~   92 (150)
                      ++.-++.+++++++|+.|++|+|+|+|+|++..+ ...|.+++|+|+||++|+.|+|.++++++++++|++.+++++.|+
T Consensus       219 ~~~~~llpL~~~l~sv~~tlG~m~llG~plt~~s-~~~~~llIgiGidy~vh~~nr~~ee~~~~~~~~eAv~~ai~~~g~  297 (727)
T COG1033         219 SVRRALLPLIIVLVSVLWTLGAMGLLGIPLTITT-SAVPPLLIGIGIDYGVHFHNRYEEERRKGRTVEEAVVEAIKHTGP  297 (727)
T ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHhCCCchhHH-HHHHHHHhhhhhhHHHHHHHHHHHHHhcCCCHHHHHHHHHHhhcc
Confidence            4445799999999999999999999999999975 688889999999999999999999998888999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccc
Q psy8504          93 SIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLRR  148 (150)
Q Consensus        93 ~i~~tslt~~~~f~~~~~s~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~rR  148 (150)
                      |++.+.+||++||.+..++.+|++++||+.+.+|++.+|+..+++.|+.+.+..++
T Consensus       298 avl~a~lTT~~GF~Sl~~s~i~~i~~~Gi~~siGi~la~l~sl~~lp~ll~~~~~~  353 (727)
T COG1033         298 AVLIAALTTAAGFLSLLTSSIPAIKEFGILLSIGIILAFLSSLTVLPALLILIPKG  353 (727)
T ss_pred             HHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchHh
Confidence            99999999999999999999999999999999999999999999999988876554

>TIGR00921 2A067 The (Largely Archaeal Putative) Hydrophobe/Amphiphile Efflux-3 (HAE3) Family

Probab=99.88  E-value=7.6e-22  Score=173.05  Aligned_cols=134  Identities=22%  Similarity=0.327  Sum_probs=124.4

Q ss_pred             cccchhHHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHHHHHHHHH
Q psy8504          10 VKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRK   89 (150)
Q Consensus        10 v~sk~~l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~i~~~l~~   89 (150)
                      .|| +..++.+++++.+++.+++|+++++|.+++..+ ...|.+++|+|+||++|++++|+++.+++.+.+|++.+++++
T Consensus       214 ~rs-~~~~~~~l~~~~~~~~~~~g~~~~~g~~l~~~~-~~~~~l~lgi~vd~~ihl~~r~~~~~~~g~~~~~ai~~a~~~  291 (719)
T TIGR00921       214 FKR-WWRPLLPLVIILFGVAWVLGIMGWLGIPLYATT-LLAVPMLIGVGIDYGIQTLNRYEEERDIGRAKGEAIVTAVRR  291 (719)
T ss_pred             Hhh-HHHHHHHHHHHHHHHHHHHHHHHHhCCCccHHH-HHHHHHHHhhhhhhHHHHHHHHHHHHHcCCCHHHHHHHHHHh
Confidence            344 345788899999999999999999999999975 588888999999999999999999887777999999999999


Q ss_pred             HhHHHHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy8504          90 TGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVSLD  145 (150)
Q Consensus        90 ~g~~i~~tslt~~~~f~~~~~s~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~  145 (150)
                      .|++++.+++|+++||+++.+++.|++|+||+++++|++++++.+++++|+++.+.
T Consensus       292 ~g~~i~~t~~t~~~gf~~l~~s~~~~~~~~g~~~~~gv~~~~l~~l~~lPall~~~  347 (719)
T TIGR00921       292 TGRAVLIALLTTSAGFAALALSEFPMVSEFGLGLVAGLITAYLLTLLVLPALLQSI  347 (719)
T ss_pred             ccHHHHHHHHHHHHHHHHHHhccChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999999864

Characterized members of the RND superfamily all probably catalyze substrate efflux via an H+ antiport mechanism. These proteins are found ubiquitously in bacteria, archaea and eukaryotes. They fall into seven phylogenetic families, this family (2.A.6.7) consists of uncharacterised putative transporters, largely in the Archaea.

>PF03176 MMPL: MMPL family; InterPro: IPR004869 Proteins of this entry are putative integral membrane proteins from bacteria

Probab=99.86  E-value=2.1e-21  Score=156.63  Aligned_cols=135  Identities=30%  Similarity=0.422  Sum_probs=122.5

Q ss_pred             hhHHHHHHHHHHHHHHHHHHH----HHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHHHHHHHHH
Q psy8504          14 AGVGILGCCLISFSILAGLGF----CSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRK   89 (150)
Q Consensus        14 ~~l~l~~~~~~~~s~~~~~G~----~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~i~~~l~~   89 (150)
                      +..++.+++++.+++.+++|+    +...|.+++..+..+...+.+|+|+||.+|++++|+++.+++.+.+|++.+++++
T Consensus       167 ~~~~l~~l~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~l~~~l~lgvgidy~i~l~~r~ree~~~g~~~~~ai~~a~~~  246 (333)
T PF03176_consen  167 VRAALLPLLPVLLSIVWTLGLVALLMGLLGIPLSWITPALVFVLLLGVGIDYSIHLINRYREELRRGMSRKEAIRRAVRS  246 (333)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccceeehHhhhhhHHHhhhhhHHHHHHHHHHHHHhccchHHHHHHHHhc
Confidence            455888999999999999999    4467788887654455568899999999999999999988777999999999999


Q ss_pred             HhHHHHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccc
Q psy8504          90 TGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLRR  148 (150)
Q Consensus        90 ~g~~i~~tslt~~~~f~~~~~s~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~rR  148 (150)
                      +|++++.+++|+++||+++.++++|++|+||+.+++|++++++..++++|+++.+-+||
T Consensus       247 ~g~~i~~s~ltt~~gf~~L~~s~~~~~~~~G~~~~~gi~~~~l~~l~llPall~~~~~~  305 (333)
T PF03176_consen  247 TGRAILLSALTTAIGFGSLLFSPFPPLRQFGLLAAIGILIALLLSLTLLPALLSLLGRW  305 (333)
T ss_pred             cCchhHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcc
Confidence            99999999999999999999999999999999999999999999999999999987776

Several of the members are mycobacterial proteins. Many of the proteins contain two copies of this aligned region. The function of these proteins is not known, although it has been suggested that they may be involved in lipid transport [].; GO: 0016020 membrane

>COG1033 Predicted exporters of the RND superfamily [General function prediction only]

Probab=99.86  E-value=3.3e-21  Score=168.24  Aligned_cols=135  Identities=24%  Similarity=0.400  Sum_probs=126.9

Q ss_pred             chhHHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHHHHHHHHHHhH
Q psy8504          13 QAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRKTGL   92 (150)
Q Consensus        13 k~~l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~i~~~l~~~g~   92 (150)
                      ++.-++++++++..++.|++|+|+++|+++++.+ ..+--+++|+|+||++|++++|+++++++. ++|++.++++++|+
T Consensus       591 s~~~~i~~iipi~~~v~~~~~~M~l~gI~~~~~t-a~v~ai~lGiGvDYsIh~~ery~eer~~~~-~~eAi~~t~~~~G~  668 (727)
T COG1033         591 SPLKAIIPLIPIAIVVGWNFGLMGLLGIPLTPAT-ATLGAIILGIGVDYSIHITERYREERKKGG-PKEAIETTVERTGK  668 (727)
T ss_pred             chHHhHHHHHHHHHHHHHHHHHHHHhCCchhHHH-HHHHHHhhhccchhhhHHHHHHHHHHhcCC-chHHHHHHHHhhch
Confidence            4455899999999999999999999999999976 577778999999999999999999998886 99999999999999


Q ss_pred             HHHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccc
Q psy8504          93 SIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLRRS  149 (150)
Q Consensus        93 ~i~~tslt~~~~f~~~~~s~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~rR~  149 (150)
                      +++.+++|++.||+++.+|+.|.+++||+.++++++++.+.+++++||++.+..+|.
T Consensus       669 ail~s~ltt~~GF~aLi~S~f~i~snfGll~~~~il~sl~asl~~lPall~~~~~~~  725 (727)
T COG1033         669 AILASALTTAIGFLALIFSPFPIISNFGLLTVIGILLSLLASLVLLPALLVLLDGRR  725 (727)
T ss_pred             HHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhccc
Confidence            999999999999999999999999999999999999999999999999999877665

>KOG1933|consensus

Probab=99.81  E-value=1.2e-21  Score=176.43  Aligned_cols=145  Identities=28%  Similarity=0.543  Sum_probs=138.3

Q ss_pred             cccccccchhHHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCC-CCHHHHHH
Q psy8504           6 YWDPVKSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKN-QFDSECTG   84 (150)
Q Consensus         6 ~~~~v~sk~~l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~-~~~~~~i~   84 (150)
                      |...++||..+++.|+..+..++..++|+.+++|++-+.+...++||+++++|+|+.++++++|++..++. .+.++++.
T Consensus       574 r~vlidSkv~lgi~Gv~ivl~sv~~S~g~FS~~gi~~t~i~i~VipflVlavgvdnifilv~~~qr~~~~~~~~~~~~I~  653 (1201)
T KOG1933|consen  574 RRVLIDSKVLLGISGVLIVLLSVVCSVGFFSYLGITSTLIIIEVIPFLVLAVGVDNIFILVHTYQRDGRSKSEPLEQRIG  653 (1201)
T ss_pred             ceeeeeceeeccccceEEEeechhhhhhHHHhhcchhhheeeeeeeeEEEEEeeccEEEEEeeecccccccCCCcccccc
Confidence            45678999999999999999999999999999999999988899999999999999999999999877653 58899999


Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccC
Q psy8504          85 IVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLRRSR  150 (150)
Q Consensus        85 ~~l~~~g~~i~~tslt~~~~f~~~~~s~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~rR~e  150 (150)
                      .++.++||+++.+++.+..+|+.++++++|++|.|++++++++++++++|++.+.+.+++|.||+|
T Consensus       654 ~~l~~~~Psil~~slse~~~ff~g~~~~mPav~~fal~a~lavLld~llq~t~fv~l~~~D~kR~~  719 (1201)
T KOG1933|consen  654 SVLGEVGPSILLSSLSENFCFFLGAFVDMPAVRVFALYAGLAVLLDFLLQITAFVALIVLDAKRRL  719 (1201)
T ss_pred             hhhhccCcHHHHhHHHhhhHHhhhhcccCcceeeeHHHHHHHHHHHHHHHHhhhhhcccccchhhh
Confidence            999999999999999999999999999999999999999999999999999999999999999985

>TIGR00921 2A067 The (Largely Archaeal Putative) Hydrophobe/Amphiphile Efflux-3 (HAE3) Family

Probab=99.80  E-value=6.2e-19  Score=154.70  Aligned_cols=129  Identities=23%  Similarity=0.337  Sum_probs=120.5

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHHHHHHHHHHhHH
Q psy8504          14 AGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRKTGLS   93 (150)
Q Consensus        14 ~~l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~i~~~l~~~g~~   93 (150)
                      +..++.+++++.+++.+++|+|+++|++++..+ .+...+++|+|+||++|++++|+++.++ .+.+|++.++++++|++
T Consensus       591 ~~~~l~~~i~~~~~~~~~~g~~~~~gi~l~~~~-~~~~~i~lGigvDy~i~~~~r~~~~~~~-~~~~~ai~~a~~~~g~a  668 (719)
T TIGR00921       591 PIKAVFPLIAIGSGILWAIGLMGLRGIPSFLAM-ATTISIILGLGMDYSIHLAERYFEERKE-HGPKEAITHTMERTGPG  668 (719)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHcccchHHH-HHHHHHHHHHHHHHHHHHHHHHHHhhhc-CCHHHHHHHHHHHHhHH
Confidence            455888899999999999999999999999965 5777789999999999999999998876 48999999999999999


Q ss_pred             HHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy8504          94 IILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVSL  144 (150)
Q Consensus        94 i~~tslt~~~~f~~~~~s~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l  144 (150)
                      ++.+++|+++||+++.+++.|.+|+||..++++++++++..++++|+++.+
T Consensus       669 i~~s~lt~~~gf~~l~~s~~~~~~~~g~~~~~~i~~~~~~~l~llPall~~  719 (719)
T TIGR00921       669 ILFSGLTTAGGFLSLLLSHFPIMRNFGLVQGIGVLSSLTAALVVFPALLVL  719 (719)
T ss_pred             HHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            999999999999999999999999999999999999999999999999864

Characterized members of the RND superfamily all probably catalyze substrate efflux via an H+ antiport mechanism. These proteins are found ubiquitously in bacteria, archaea and eukaryotes. They fall into seven phylogenetic families, this family (2.A.6.7) consists of uncharacterised putative transporters, largely in the Archaea.

>TIGR00833 actII Transport protein

Probab=99.77  E-value=5.6e-18  Score=152.56  Aligned_cols=133  Identities=26%  Similarity=0.415  Sum_probs=119.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhCCCcc----cchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHHHHHHHHHHh
Q psy8504          16 VGILGCCLISFSILAGLGFCSILGIPFN----ASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRKTG   91 (150)
Q Consensus        16 l~l~~~~~~~~s~~~~~G~~~~~G~~~~----~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~i~~~l~~~g   91 (150)
                      ..+.+++.+.+++.+++|++.++|.+.+    ..+...++.+++|+|+||.+|++++|+++.+++.+++|++.++++++|
T Consensus       199 ~~llpl~~i~lsi~~~~g~~~~lg~~~~~~l~~~~~~~l~~l~lGl~vDy~I~lv~r~~ee~~~g~~~~~Av~~a~~~~g  278 (910)
T TIGR00833       199 TMLVPLVSVGFSVVVAQGIVSLLGIPGLIGVNAQTTVLLTALVIGAGTDYAVFLTGRYHEERRKGESLEEAAAEALRGTG  278 (910)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhcccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHH
Confidence            3667788888999999999999998643    333334456789999999999999999998877799999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccc
Q psy8504          92 LSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLRR  148 (150)
Q Consensus        92 ~~i~~tslt~~~~f~~~~~s~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~rR  148 (150)
                      ++++.+++|++++|+.+.+++.|.+|+||+.++++++++++..++++|+++.+.+||
T Consensus       279 ~~I~~s~lT~~~gf~~l~~~~~~~~~~~Gi~~a~gvl~a~l~~ltllPall~l~g~~  335 (910)
T TIGR00833       279 KAILGSALTVAVAFLALSLARLPSFKTLGVSCAVGVLVALLNAVTLTPALLTLEGRE  335 (910)
T ss_pred             HHHHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            999999999999999999999999999999999999999999999999999987665

Characterized members of the RND superfamily all probably catalyze substrate efflux via an H+ antiport mechanism. These proteins are found ubiquitously in bacteria, archaea and eukaryotes. This sub-family includes the S. coelicolor ActII3 protein, which may play a role in drug resistance, and the M. tuberculosis MmpL7 protein, which catalyzes export of an outer membrane lipid, phthiocerol dimycocerosate.

>TIGR03480 HpnN hopanoid biosynthesis associated RND transporter like protein HpnN

Probab=99.76  E-value=9.7e-18  Score=150.26  Aligned_cols=129  Identities=16%  Similarity=0.243  Sum_probs=120.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHHHHHHHHHHhHHHH
Q psy8504          16 VGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRKTGLSII   95 (150)
Q Consensus        16 l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~i~~~l~~~g~~i~   95 (150)
                      ..+..++++.+++.+++|++.++|.++|.++ .+.+.+++|+|+||++|++++|+++.+++.+.++++.+++++.+++++
T Consensus       295 ~~l~~l~~i~~s~~~~~~~~~l~~~~ln~~s-~~~~~lliGi~vD~~I~~~~r~~e~~~~g~~~~~A~~~a~~~~~~~i~  373 (862)
T TIGR03480       295 LVFAVLVTLIVGLILTAAFATLAVGHLNLIS-VAFAVLFIGLGVDFAIQFSLRYREERFRGGNHREALSVAARRMGAALL  373 (862)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhhHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHH
Confidence            3566778888999999999999999999975 578889999999999999999999887777899999999999999999


Q ss_pred             HHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy8504          96 LSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVSLD  145 (150)
Q Consensus        96 ~tslt~~~~f~~~~~s~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~  145 (150)
                      .+++||++||++...+++|.+++||++++.|++++++..++++|+++.+.
T Consensus       374 ~s~lTt~~gf~~l~~~~~~~~~~lg~~~~~gv~~s~l~~l~llP~l~~~~  423 (862)
T TIGR03480       374 LAALATAAGFFAFLPTDYKGVSELGIIAGTGMFIALFVTLTVLPALLRLL  423 (862)
T ss_pred             HHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            99999999999999999999999999999999999999999999999874

The genomes containing members of this family share the machinery for the biosynthesis of hopanoid lipids. Furthermore, the genes of this family are usually located proximal to other components of this biological process. The proteins appear to be related to the RND family of export proteins, particularly the hydrophobe/amphiphile efflux-3 (HAE3) family represented by TIGR00921.

>TIGR03480 HpnN hopanoid biosynthesis associated RND transporter like protein HpnN

Probab=99.69  E-value=1.4e-16  Score=142.80  Aligned_cols=121  Identities=21%  Similarity=0.256  Sum_probs=106.4

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHHHHHHHHHHhHH
Q psy8504          14 AGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRKTGLS   93 (150)
Q Consensus        14 ~~l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~i~~~l~~~g~~   93 (150)
                      +..++..++++.+++.+++|+|.++|+++|..+. +...+++|+|+||++|++++|+++++++ +..      .+++|++
T Consensus       736 ~~~~l~~l~P~~l~~~~~~g~m~~~gi~l~~~~~-~~~~l~lGigVDy~I~~~~r~~~~~~~~-~~~------~~~~g~a  807 (862)
T TIGR03480       736 VRDVLLVLAPLLLAGLLTVAAMVLLGIPFNFANI-IALPLLLGLGVDFGIYMVHRWRNGVDSG-NLL------QSSTARA  807 (862)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhccCcHHHH-HHHHHHHhhhhhhHHHHHHHHHHhccch-hHH------HhhhHHH
Confidence            3457888999999999999999999999999764 5556789999999999999998875322 111      1467999


Q ss_pred             HHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy8504          94 IILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIV  142 (150)
Q Consensus        94 i~~tslt~~~~f~~~~~s~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L  142 (150)
                      ++++++|+++||++..+++.|.+++||+.+++|++++++..++++|+++
T Consensus       808 i~~saltt~~gf~~l~~s~~~~~~~~G~~~~~gi~~~l~~~l~~lPall  856 (862)
T TIGR03480       808 VFFSALTTATAFGSLAVSSHPGTASMGILLSLGLGLTLLCTLIFLPALL  856 (862)
T ss_pred             HHHHHHHHHHHHHHHHHhcCccHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            9999999999999999999999999999999999999999999999987

The genomes containing members of this family share the machinery for the biosynthesis of hopanoid lipids. Furthermore, the genes of this family are usually located proximal to other components of this biological process. The proteins appear to be related to the RND family of export proteins, particularly the hydrophobe/amphiphile efflux-3 (HAE3) family represented by TIGR00921.

>TIGR00916 2A0604s01 protein-export membrane protein, SecD/SecF family

Probab=99.68  E-value=1.1e-15  Score=115.43  Aligned_cols=119  Identities=19%  Similarity=0.207  Sum_probs=107.4

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhc--CCCCHHHHHHHHHHHHhH
Q psy8504          15 GVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTS--KNQFDSECTGIVLRKTGL   92 (150)
Q Consensus        15 ~l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~--~~~~~~~~i~~~l~~~g~   92 (150)
                      ..++..++.+..++.+++|+|+++|+++|..+ ...+.+++|+++||.+|+.++++++.+  ++.+.++++.++.++.++
T Consensus        71 ~~~l~~~~~i~~~i~~t~g~m~l~G~~ln~~s-~~glil~iGi~Vd~aIvv~e~~~~~~~~~~g~~~~~Av~~a~~~~~~  149 (192)
T TIGR00916        71 RGAIAAIAALVHDVILILGVLSLFGATLTLPG-IAGLLTIIGYSVDDTVVIFDRIREELRKYKGRTFREAINLGINQTLS  149 (192)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHCCcccHHH-HHHHHHHHHHhhcCeEEehHHHHHHHhhcCCCCHHHHHHHHHHHHHH
Confidence            34566677778889999999999999999975 578888999999999999999998765  566999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHH
Q psy8504          93 SIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVL  134 (150)
Q Consensus        93 ~i~~tslt~~~~f~~~~~s~~p~i~~F~i~a~l~v~~~~~~~  134 (150)
                      ++..|++|++++|....+.+.|.+|.|++....+++.+++.+
T Consensus       150 ~il~ttlTtii~f~pl~~~~~~~~~~~~~~~~~gl~~s~~~a  191 (192)
T TIGR00916       150 RIIDTNVTTLLAVLALYVFGGGAIKGFALTLGIGVIAGTYSS  191 (192)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHh
Confidence            999999999999999999999999999999999999988754

The SecA,SecB,SecD,SecE,SecF,SecG and SecY proteins form the protein translocation appartus in prokaryotes. This family is specific for the SecD and SecF proteins.

>PRK13022 secF preprotein translocase subunit SecF; Reviewed

Probab=99.67  E-value=3.2e-15  Score=119.31  Aligned_cols=136  Identities=16%  Similarity=0.201  Sum_probs=123.7

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcC--CCCHHHHHHHHHHHHh
Q psy8504          14 AGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSK--NQFDSECTGIVLRKTG   91 (150)
Q Consensus        14 ~~l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~--~~~~~~~i~~~l~~~g   91 (150)
                      +..++..++++..+++.++|++.++|+++|... ...+..++|+++||.+++.++++++.++  +.+.+|++.++..+..
T Consensus       150 ~~~~l~~ilal~~~v~~~lg~~~l~g~~l~~~s-iaall~liG~sVnd~Ivv~drire~~~~~~~~~~~~av~~a~~~~~  228 (289)
T PRK13022        150 WRFALGAIIALLHDVIITLGIFSLFQIEFDLTV-IAALLTIIGYSLNDTVVVFDRIRENFRKIRRKTFAEIINLSINQTL  228 (289)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHCCcccHHH-HHHHHHHHHHheeceEEEeeHHHHHHhhccCCCHHHHHHHHHHHHH
Confidence            456888899999999999999999999999964 5777788999999999999999987644  4589999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccC
Q psy8504          92 LSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLRRSR  150 (150)
Q Consensus        92 ~~i~~tslt~~~~f~~~~~s~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~rR~e  150 (150)
                      .+++.|++||.+++....+.+.+.++.|++....|++.++..++++.|+++.+-.+|++
T Consensus       229 ~~~l~TslTTl~~~l~L~~~g~~~i~~fa~~l~~Gli~~~~~sl~i~p~l~~~~~~~~~  287 (289)
T PRK13022        229 SRTIITSLTTLLVVLALYLFGGGTLHDFALALLIGIIVGTYSSIFVASPLLLWLGVRRE  287 (289)
T ss_pred             HHHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence            99999999999999999999999999999999999999999999999999998766653

>TIGR00833 actII Transport protein

Probab=99.64  E-value=3.2e-15  Score=134.86  Aligned_cols=132  Identities=19%  Similarity=0.154  Sum_probs=113.8

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHhCCC-----cccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHHHHHHHHH
Q psy8504          15 GVGILGCCLISFSILAGLGFCSILGIP-----FNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRK   89 (150)
Q Consensus        15 ~l~l~~~~~~~~s~~~~~G~~~~~G~~-----~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~i~~~l~~   89 (150)
                      ...+..++.+.+++.+++|++.|++.+     ++.......+.+++|+|+||.+|+++||+++.+++  .+|++.+++++
T Consensus       769 ~~pl~~l~~v~ls~~~s~G~~~~~~~~~~g~~l~~~~~~~~~~il~glgvDY~I~l~sR~ree~~~g--~~~av~~a~~~  846 (910)
T TIGR00833       769 VAPIVLIGSVALSYLWALGLSVLAFQHILGAELHWSVLAGVFVLLVALGVDYNMLLVSRIKEESPAG--NRTGIIRALGS  846 (910)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCcchhHHHHHHHHHHHhhhchHHHHHHHHHHHHhcC--ccHHHHHHHHH
Confidence            347778889999999999999876544     33322235567889999999999999999998554  47889999999


Q ss_pred             HhHHHHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHhhhccc
Q psy8504          90 TGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFN-MFVLLLVYPAIVSLDLRR  148 (150)
Q Consensus        90 ~g~~i~~tslt~~~~f~~~~~s~~p~i~~F~i~a~l~v~~~-~~~~~t~~pa~L~l~~rR  148 (150)
                      +|++++.+++|++++|+++.++++|.+++||...++|++++ ++..+++.||++.+.+||
T Consensus       847 tg~~I~~a~~~~~~~f~~l~~s~~~~l~~~G~~~a~gvl~~a~~v~~~l~Pall~l~g~~  906 (910)
T TIGR00833       847 TGGVITAAGLVFAGTMAALASAQLTAIAQFGFTVGVGILLDTFIVRSVTVPALTLLLGRW  906 (910)
T ss_pred             hHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            99999999999999999999999999999999999999995 666788999999998886

Characterized members of the RND superfamily all probably catalyze substrate efflux via an H+ antiport mechanism. These proteins are found ubiquitously in bacteria, archaea and eukaryotes. This sub-family includes the S. coelicolor ActII3 protein, which may play a role in drug resistance, and the M. tuberculosis MmpL7 protein, which catalyzes export of an outer membrane lipid, phthiocerol dimycocerosate.

>PRK13024 bifunctional preprotein translocase subunit SecD/SecF; Reviewed

Probab=99.53  E-value=2.5e-13  Score=120.34  Aligned_cols=132  Identities=19%  Similarity=0.203  Sum_probs=121.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHHHHHHHHHHhHHHH
Q psy8504          16 VGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRKTGLSII   95 (150)
Q Consensus        16 l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~i~~~l~~~g~~i~   95 (150)
                      .++...+.+...+..++|++.++|.++|... ...+.+++|+++||.+++.++++++.+++.+.++++.++.++...+++
T Consensus       290 ~~lia~ial~~~v~~~l~~l~l~g~~l~l~s-iaglil~iGi~Vd~~Ivi~eri~e~l~~g~~~~~Ai~~a~~~~~~~il  368 (755)
T PRK13024        290 PGLIANIALLLYIFLTLGALSSLGAVLTLPG-IAGLVLGIGMAVDANVLIFERIKEELRKGKSLKKAFKKGFKNAFSTIL  368 (755)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCCCccHHH-HHHHHHHHHHHHhCcEEehHHHHHHHHcCCCHHHHHHHHHHHHHHHHH
Confidence            5788888899999999999999999999974 467778899999999999999999887777999999999999999999


Q ss_pred             HHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccc
Q psy8504          96 LSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLRR  148 (150)
Q Consensus        96 ~tslt~~~~f~~~~~s~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~rR  148 (150)
                      .|++||++++..+.+.+.+++|.|++...+|++++++.++++.|+++.+..+|
T Consensus       369 ~t~lTTii~~lpL~~~g~g~~~~faitl~~Gli~s~~~sl~v~p~l~~~~~~~  421 (755)
T PRK13024        369 DSNITTLIAAAILFFFGTGPVKGFATTLIIGILASLFTAVFLTRLLLELLVKR  421 (755)
T ss_pred             HHHHHHHHHHHHHHHhccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence            99999999999999888888999999999999999999999999999876544

>TIGR00918 2A060602 The Eukaryotic (Putative) Sterol Transporter (EST) Family

Probab=99.49  E-value=5.7e-13  Score=121.75  Aligned_cols=133  Identities=14%  Similarity=0.170  Sum_probs=117.1

Q ss_pred             chhHHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHHHHHHHHHHhH
Q psy8504          13 QAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRKTGL   92 (150)
Q Consensus        13 k~~l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~i~~~l~~~g~   92 (150)
                      .++-++..++++++..+..+|+|++.|+++|++. .+.-.+.+|+|+|++.|+.++|...  .+ +++||++++++++|.
T Consensus       988 ~~~~a~iv~l~v~~i~v~v~G~M~lwgI~LnaVS-~vnLimsIGisVefsaHI~~~F~~~--~~-~r~eR~~~AL~~~G~ 1063 (1145)
T TIGR00918       988 NPWTAGLIVLVLALMTVELFGMMGLLGIKLSAIP-VVILIASVGIGVEFTVHIALGFLTA--IG-DRNRRAVLALEHMFA 1063 (1145)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHcCCccHHH-HHHHHHHHhhhhhhhHHHHHHHHhc--CC-CHHHHHHHHHHHhhH
Confidence            3444666677888899999999999999999863 5666778999999999999999853  23 679999999999999


Q ss_pred             HHHHHHHHHHHHHHHhccCCcH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccc
Q psy8504          93 SIILSSVCKSVAFFSASLIPIP-ALRVFNLQLAILILFNMFVLLLVYPAIVSLDLRRS  149 (150)
Q Consensus        93 ~i~~tslt~~~~f~~~~~s~~p-~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~rR~  149 (150)
                      |++.+++||.+|..++++++.. ..+.|+....+.|++.++..+.++|.+|++-+-+.
T Consensus      1064 pVl~g~lTT~lGvlvLafs~s~~~~~~Ffk~~~l~V~~g~lHgLv~LPVLLS~~Gp~~ 1121 (1145)
T TIGR00918      1064 PVLDGALSTLLGVLMLAGSEFDFIVRYFFAVLAVLTCLGVLNGLVLLPVLLSMFGPEP 1121 (1145)
T ss_pred             HHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcc
Confidence            9999999999999999999987 77999999999999999999999999999876543

>PRK10614 multidrug efflux system subunit MdtC; Provisional

Probab=99.46  E-value=1.9e-12  Score=118.26  Aligned_cols=129  Identities=16%  Similarity=0.262  Sum_probs=115.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHHHHHHHHHHhHHHH
Q psy8504          16 VGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRKTGLSII   95 (150)
Q Consensus        16 l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~i~~~l~~~g~~i~   95 (150)
                      .++...+++.+++..+++++.++|+++|.++ ...+.+.+|+.+||++++.+++++..+++.++.+++.++.++.+.+++
T Consensus       358 ~~li~~~~ip~s~~~~~~~l~~~g~~ln~~s-l~gl~~~iGi~Vd~aIvv~e~i~~~~~~g~~~~~A~~~~~~~~~~~i~  436 (1025)
T PRK10614        358 ATLIPAVAVPVSLIGTFAAMYLCGFSLNNLS-LMALTIATGFVVDDAIVVLENISRHLEAGMKPLQAALQGVREVGFTVL  436 (1025)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhCCChhHHH-HHHHHHHhheeecCcEEEEeHHHHHHHcCCCHHHHHHHHHHHHHHHHH
Confidence            3566667888999999999999999999975 466667889999999999998888777777899999999999999999


Q ss_pred             HHHHHHHHHHHHhccCCc---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy8504          96 LSSVCKSVAFFSASLIPI---PALRVFNLQLAILILFNMFVLLLVYPAIVSLD  145 (150)
Q Consensus        96 ~tslt~~~~f~~~~~s~~---p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~  145 (150)
                      .+++|++++|....+.+-   +.++.|++..+.+++++++.++++.|++.+..
T Consensus       437 ~stltti~~f~Pl~~~~g~~g~~~~~~~~~~~~~l~~S~~~al~~~P~l~~~~  489 (1025)
T PRK10614        437 SMSLSLVAVFLPLLLMGGLPGRLFREFAVTLSVAIGISLLVSLTLTPMMCAWL  489 (1025)
T ss_pred             HHHHHHHHHHHHHHHhCCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            999999999999887765   56999999999999999999999999998764

>PRK05812 secD preprotein translocase subunit SecD; Reviewed

Probab=99.44  E-value=3.4e-12  Score=108.44  Aligned_cols=129  Identities=19%  Similarity=0.223  Sum_probs=117.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHHHHHHHHHHhHHHH
Q psy8504          16 VGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRKTGLSII   95 (150)
Q Consensus        16 l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~i~~~l~~~g~~i~   95 (150)
                      .++.+.+.+.++++.++|++.++|.++|... ...-.+.+|.++||.+++.++++++.+++.+.++++.++.++...+++
T Consensus       357 ~glia~iaL~~~v~~~l~~~~l~g~~l~l~s-iaGlil~iG~~VD~~IVI~ErIreel~~g~~~~~Ai~~~~~~~~~~Il  435 (498)
T PRK05812        357 FGLIANIALVANLVLILAVLSLLGATLTLPG-IAGIVLTIGMAVDANVLIFERIREELREGRSLRSAIEAGFKRAFSTIL  435 (498)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHCCCchHHH-HHHHHHhheeEEeceEEEeHHHHHHHHcCCCHHHHHHHHHHHHHHHHH
Confidence            5888889999999999999999999999964 455667889999999999999998887777999999999999999999


Q ss_pred             HHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy8504          96 LSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVSLD  145 (150)
Q Consensus        96 ~tslt~~~~f~~~~~s~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~  145 (150)
                      .+++|+.+++..+.+....+++.|++...+|++++++.++++.|+++.+-
T Consensus       436 ~s~lTTlia~l~L~~~g~g~i~~fAitl~iGii~s~~~sl~vtp~l~~~~  485 (498)
T PRK05812        436 DSNITTLIAAIILYALGTGPVKGFAVTLGIGILTSMFTAITVTRALVNLL  485 (498)
T ss_pred             HHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999988766678999999999999999999999999999843

>PRK09579 multidrug efflux protein; Reviewed

Probab=99.44  E-value=2.5e-12  Score=117.34  Aligned_cols=130  Identities=18%  Similarity=0.291  Sum_probs=113.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHHHHHHHHHHhHHHH
Q psy8504          16 VGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRKTGLSII   95 (150)
Q Consensus        16 l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~i~~~l~~~g~~i~   95 (150)
                      .++...+++.++++++++.+.++|+++|.++ .....+.+|+.+||++++++++++..+++.++++++.++.++.++|++
T Consensus       357 ~~l~~~~~IP~s~~~~~~~l~~~G~~ln~~s-l~gli~~iGi~VddaIvv~e~i~~~~~~G~~~~~A~~~~~~~~~~pil  435 (1017)
T PRK09579        357 SVLIPVVTIPLSMIGVLFFMQMMGYSINLLT-LLAMVLAIGLVVDDAIVVVENIHRHIEEGKSPFDAALEGAREIAMPVV  435 (1017)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhCCCchHHH-HHHHHHhhheeecCcEEeHHHHHHHHHcCCCHHHHHHHHHHHHHHHHH
Confidence            3455667888999999999999999999975 355667788999999999999988777777999999999999999999


Q ss_pred             HHHHHHHHHHHHhccCC---cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q psy8504          96 LSSVCKSVAFFSASLIP---IPALRVFNLQLAILILFNMFVLLLVYPAIVSLDL  146 (150)
Q Consensus        96 ~tslt~~~~f~~~~~s~---~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~  146 (150)
                      .+++||+++|....+.+   -+..+.|++....+++++++.++++.|++.+.-.
T Consensus       436 ~stlTti~~f~Pl~f~~g~~g~~~~~l~~~v~~~l~~S~l~al~l~P~l~~~~~  489 (1017)
T PRK09579        436 SMTITLAAVYAPIGFLTGLTGALFKEFALTLAGAVIISGIVALTLSPMMCALLL  489 (1017)
T ss_pred             HHHHHHHHHHHHHhhcCCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            99999999999887643   2668999999999999999999999999987643

>PRK13023 bifunctional preprotein translocase subunit SecD/SecF; Reviewed

Probab=99.42  E-value=6.2e-12  Score=111.09  Aligned_cols=131  Identities=18%  Similarity=0.196  Sum_probs=119.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHHHHHHHHHHhHHHH
Q psy8504          16 VGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRKTGLSII   95 (150)
Q Consensus        16 l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~i~~~l~~~g~~i~   95 (150)
                      .|+...+.....+..++|++.++|.++|... ...-.+.+|+++||.+++.++++++.+++.+.++++.++.++...+++
T Consensus       302 ~glia~iaL~~~v~~tl~~l~l~g~~Lnl~s-iaGlIL~IGm~VD~~Ivi~Erireel~~G~~~~~Av~~g~~~~~~~Il  380 (758)
T PRK13023        302 LGVIALVALVVNIIILTAVLSLIGASISLAS-IAGLVLTIGLAVDAHILIYERVREDRRKGYSVVQAMESGFYRALSTIV  380 (758)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCCCccHHH-HHHHHHHHHHhccCcEEEeeHHHHHHHcCCCHHHHHHHHHHHHHHHHH
Confidence            5778888889999999999999999999964 455567899999999999999998877667999999999999999999


Q ss_pred             HHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Q psy8504          96 LSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLR  147 (150)
Q Consensus        96 ~tslt~~~~f~~~~~s~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~r  147 (150)
                      .+++|+.++|..+.+...+++|.|++...+|++.+++..+++-|+++.+-.|
T Consensus       381 ~s~lTTlia~lpL~~~g~g~ik~FAitliiGi~~S~~~al~vt~~l~~~~~~  432 (758)
T PRK13023        381 DANLTTLIAALVLFLLGSGTVHGFALTVAIGIGTTLFTTLTFTRLLIAQWVR  432 (758)
T ss_pred             HHHHHHHHHHHHHHHHhchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            9999999999998888889999999999999999999999999999876533

>TIGR00966 3a0501s07 protein-export membrane protein SecF

Probab=99.40  E-value=1.5e-11  Score=96.14  Aligned_cols=122  Identities=14%  Similarity=0.227  Sum_probs=108.0

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhc--CCCCHHHHHHHHHHHHh
Q psy8504          14 AGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTS--KNQFDSECTGIVLRKTG   91 (150)
Q Consensus        14 ~~l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~--~~~~~~~~i~~~l~~~g   91 (150)
                      +..++..++.+..+++.+++.+.++|+++|... .....+++|+.+||.+++.++++++.+  ++.+.+|++.++.++..
T Consensus       121 ~r~~l~v~~~ip~~l~~~~~~l~~~g~~ln~~s-l~gli~~iGi~Vdd~Ivv~d~i~e~~~~~~~~~~~~a~~~a~~~~~  199 (246)
T TIGR00966       121 WRFALGAIVALVHDVIITVGVYSLFGIEVNLTT-VAALLTIIGYSINDTVVVFDRIRENLRKYTRKTFTEVINLSINQTL  199 (246)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHCCcccHHH-HHHHHHHHHHhccCeEEEehHHHHHHhhccCCCHHHHHHHHHHHHH
Confidence            446788888999999999999999999999964 577778899999999999999987633  24589999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHH
Q psy8504          92 LSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLL  136 (150)
Q Consensus        92 ~~i~~tslt~~~~f~~~~~s~~p~i~~F~i~a~l~v~~~~~~~~t  136 (150)
                      ++++.|++|+.++|....+.+-+.+|.|++....|+++....++.
T Consensus       200 ~~ii~ttltti~~flpl~~~~g~~~~~~a~~~~~Gli~~t~~sl~  244 (246)
T TIGR00966       200 SRTINTSLTTLLAVLALYVFGGGVIKDFSLALLVGVIVGTYSSIF  244 (246)
T ss_pred             HHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999888899999999999999988876654

This bacterial protein is always found with the homologous protein-export membrane protein SecD. In numerous lineages, this protein occurs as a SecDF fusion protein.

>TIGR01129 secD protein-export membrane protein SecD

Probab=99.39  E-value=1.2e-11  Score=102.79  Aligned_cols=125  Identities=16%  Similarity=0.209  Sum_probs=112.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHHHHHHHHHHhHHHH
Q psy8504          16 VGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRKTGLSII   95 (150)
Q Consensus        16 l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~i~~~l~~~g~~i~   95 (150)
                      .++...+.+...+..++|++.++|.++|... ...-.+.+|.++||.+++.++++++.+++.+.++++.++.++...+++
T Consensus       272 ~gl~a~ial~~~v~~~l~~~~l~g~~l~l~s-iaglil~iG~~VD~~Ivi~erire~l~~g~~~~~Ai~~~~~~~~~~I~  350 (397)
T TIGR01129       272 FGLIAAIALVINIVLILAILSAFGATLTLPG-IAGLILTIGMAVDANVLIYERIKEELRLGKSVRQAIEAGFERAFSTIF  350 (397)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHCCCccHHH-HHHHHHHhheeeeceEEEeHHHHHHHHcCCCHHHHHHHHHHHHHHHHH
Confidence            5778888899999999999999999999964 456667889999999999999998877666899999999999999999


Q ss_pred             HHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy8504          96 LSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAI  141 (150)
Q Consensus        96 ~tslt~~~~f~~~~~s~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~  141 (150)
                      .+++|+++++....+...+.+|.|++...+|++++++.++++-+.+
T Consensus       351 ~s~lTtlia~l~L~~~g~g~~~~fA~tl~igii~s~~~sl~vtr~~  396 (397)
T TIGR01129       351 DANITTLIAALILYVFGTGPVKGFAVTLAIGIIASLFTALVFTRLL  396 (397)
T ss_pred             HHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            9999999999988876677899999999999999999999987765

SecD from Mycobacterium tuberculosis has a long Pro-rich insert.

>PRK08578 preprotein translocase subunit SecF; Reviewed

Probab=99.37  E-value=2.4e-11  Score=97.25  Aligned_cols=128  Identities=16%  Similarity=0.162  Sum_probs=108.0

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHHHHHHHHHHhHH
Q psy8504          14 AGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRKTGLS   93 (150)
Q Consensus        14 ~~l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~i~~~l~~~g~~   93 (150)
                      ++.++...+++...+..++|++.++|+++|..+. ..-..++|.++||++++.+++++..  + +.+|++.+++++.   
T Consensus       158 ~~~~l~~~lal~~dv~~tlg~~~l~g~~ln~~~i-~gll~iiG~sVdd~IVv~dri~~~~--~-~~~eai~~a~~~~---  230 (292)
T PRK08578        158 PVPSLAVILSAFSDIIIALALMNLFGIELSLATV-AALLMLIGYSVDSDILLTTRVLKRR--G-TFDESIKRAMRTG---  230 (292)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHCccccHHHH-HHHHHHHheeecCcEEEehHHHHcc--C-CHHHHHHHHHHHH---
Confidence            5667888888899999999999999999999754 3333678999999999999997642  3 7889999988553   


Q ss_pred             HHHHHHHHHHHHHHhccC----CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccc
Q psy8504          94 IILSSVCKSVAFFSASLI----PIPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLRRS  149 (150)
Q Consensus        94 i~~tslt~~~~f~~~~~s----~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~rR~  149 (150)
                       ..+++||.++|....+.    +.+.+|.|++....|++++++.++.+-++++.+..+||
T Consensus       231 -i~tslTTl~~~lpL~l~~~~~g~~~~~~fal~l~~Gli~s~~~tl~~~~~~l~~~~~~~  289 (292)
T PRK08578        231 -ITMTLTTIAAMAVLYIVSTIPQAEVLANIAAVLIFGLLADLMNTWLLNAGILRWYKTEG  289 (292)
T ss_pred             -HHHHHHHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence             45679999999887643    57999999999999999999999999999999877765

>PRK10555 aminoglycoside/multidrug efflux system; Provisional

Probab=99.37  E-value=2.2e-11  Score=111.38  Aligned_cols=128  Identities=15%  Similarity=0.269  Sum_probs=113.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhh-cCCCCHHHHHHHHHHHHhHHHH
Q psy8504          17 GILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYT-SKNQFDSECTGIVLRKTGLSII   95 (150)
Q Consensus        17 ~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~-~~~~~~~~~i~~~l~~~g~~i~   95 (150)
                      ++...+.+.+++++++++++++|+++|..+ .+.+.+.+|+.+||++|+++++++.. +++.+++|++.++.++.+++++
T Consensus       365 ~li~~~~iP~si~~t~~~~~~~G~~ln~~s-l~glii~iGi~Vd~aIvvve~i~~~~~~~G~~~~~Ai~~a~~~~~~~i~  443 (1037)
T PRK10555        365 TLIPTIAVPVVLMGTFSVLYAFGYSINTLT-MFAMVLAIGLLVDDAIVVVENVERIMSEEGLTPREATRKSMGQIQGALV  443 (1037)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHhCCChhHHH-HHHHHHHhhheecCeEEeHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHH
Confidence            566677778899999999999999999975 58888889999999999999998876 4566999999999999999999


Q ss_pred             HHHHHHHHHHHHhccCC---cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy8504          96 LSSVCKSVAFFSASLIP---IPALRVFNLQLAILILFNMFVLLLVYPAIVSLD  145 (150)
Q Consensus        96 ~tslt~~~~f~~~~~s~---~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~  145 (150)
                      .+++|++++|.-..+.+   -.-.+.+++....+++++++.++++.|++.+..
T Consensus       444 ~stltti~~flPl~~~~G~~g~~~~~l~~~v~~~l~~S~~~al~l~P~l~~~~  496 (1037)
T PRK10555        444 GIAMVLSAVFVPMAFFGGTTGAIYRQFSITIVSAMVLSVLVAMILTPALCATL  496 (1037)
T ss_pred             HHHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999888752   244689999999999999999999999998854

>PRK14726 bifunctional preprotein translocase subunit SecD/SecF; Provisional

Probab=99.37  E-value=2.6e-11  Score=108.28  Aligned_cols=129  Identities=17%  Similarity=0.215  Sum_probs=117.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHHHHHHHHHHhHHHH
Q psy8504          16 VGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRKTGLSII   95 (150)
Q Consensus        16 l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~i~~~l~~~g~~i~   95 (150)
                      .++...+.+..+++.++|++.++|.++|.... ..-.+.+|..+||.+++.++.+++.+++.+..+++.++.+++..+++
T Consensus       396 ~glia~ial~~~vl~~l~~l~l~g~tLnl~~I-aGiil~IGm~VD~~IVI~ErIreel~~G~s~~~Ai~~g~~~a~~~Il  474 (855)
T PRK14726        396 LGVIAVIALIVNVVLIIAVLSLLGATLTLPGI-AGIVLTIGMAVDSNVLIYERIREEEKTGHSLIQALDRGFSRALATIV  474 (855)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhCcceeHHHH-HHHHHHHHhhhCceEEeHHHHHHHHHcCCCHHHHHHHHHHHHHHHHH
Confidence            57788888899999999999999999999642 44456788999999999999999888777999999999999999999


Q ss_pred             HHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy8504          96 LSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVSLD  145 (150)
Q Consensus        96 ~tslt~~~~f~~~~~s~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~  145 (150)
                      .+++||+++|..+.+.+-.++|.|++...++++..++.++++.|.++++-
T Consensus       475 ~s~lTTlia~lpL~~~g~~~ikgFAvtl~igii~Sl~~Al~vtp~l~~~~  524 (855)
T PRK14726        475 DANVTILIAAVILFFLGSGAVRGFAVTLAVGILTTVFTAFTLTRSLVAVW  524 (855)
T ss_pred             HHHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999888889999999999999999999999999998854

>PRK10503 multidrug efflux system subunit MdtB; Provisional

Probab=99.36  E-value=1.8e-11  Score=111.97  Aligned_cols=129  Identities=19%  Similarity=0.269  Sum_probs=114.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHHHHHHHHHHhHHHH
Q psy8504          16 VGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRKTGLSII   95 (150)
Q Consensus        16 l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~i~~~l~~~g~~i~   95 (150)
                      .++...+.+.+++..+++++.++|+++|.++. ....+.+|+.+||++++++++++..+++.++.++..++.++.+.+++
T Consensus       367 ~~~i~~~~ip~s~~~~~~~l~~~g~~ln~~sl-~gl~~~iG~~Vd~aIvv~e~i~~~~~~g~~~~~aa~~~~~~~~~~vl  445 (1040)
T PRK10503        367 ATIIPGVAVPLSLIGTFAVMVFLDFSINNLTL-MALTIATGFVVDDAIVVIENISRYIEKGEKPLAAALKGAGEIGFTII  445 (1040)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHHhCCCHHHHHH-HHHHHheeeeecCeEEEehhHHHHHHcCCCHHHHHHHHHHHHHHHHH
Confidence            46667778889999999999999999999753 56667788889999999999988777766888999999999999999


Q ss_pred             HHHHHHHHHHHHhccCCc---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy8504          96 LSSVCKSVAFFSASLIPI---PALRVFNLQLAILILFNMFVLLLVYPAIVSLD  145 (150)
Q Consensus        96 ~tslt~~~~f~~~~~s~~---p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~  145 (150)
                      .+++|++++|.-..+.+-   +.++.|++..+.+++++++.++++.|.+.+..
T Consensus       446 ~~tltti~~f~Pl~~~~g~~G~~~~~~~~~v~~~l~~S~~~al~~~P~l~~~~  498 (1040)
T PRK10503        446 SLTFSLIAVLIPLLFMGDIVGRLFREFAVTLAVAILISAVVSLTLTPMMCARM  498 (1040)
T ss_pred             HHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            999999999999887765   77899999999999999999999999988753

>PRK13024 bifunctional preprotein translocase subunit SecD/SecF; Reviewed

Probab=99.33  E-value=5.5e-11  Score=105.62  Aligned_cols=135  Identities=15%  Similarity=0.221  Sum_probs=118.5

Q ss_pred             chhHHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhc--CCCCHHHHHHHHHHHH
Q psy8504          13 QAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTS--KNQFDSECTGIVLRKT   90 (150)
Q Consensus        13 k~~l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~--~~~~~~~~i~~~l~~~   90 (150)
                      ++..++.++++.+.-++.++|+++++|+++|+... ..-..++|.++||.+++.+|++|+.+  ++.+.+|.+.+++.++
T Consensus       599 ~~~~~~~aiial~~dvii~~g~~~l~~~~~~~~~i-aall~iiGysvndtIvi~dRirE~~~~~~~~~~~~~v~~si~~t  677 (755)
T PRK13024        599 EWTFSLGAILALLHDVLIVIGFFSLFRLEVDLTFI-AAILTIIGYSINDTVVVFDRIRENLRLYKKKDLREIVNKSINQT  677 (755)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcceEcHHHH-HHHHHHHhheeeceEEEEhHHHHHhhhcCCCCHHHHHHHHHHHH
Confidence            56678999999999999999999999999999754 44456889999999999999999764  4458999999999999


Q ss_pred             hHHHHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-hhccc
Q psy8504          91 GLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVS-LDLRR  148 (150)
Q Consensus        91 g~~i~~tslt~~~~f~~~~~s~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~-l~~rR  148 (150)
                      ......|++||.+++.++.+...|.+++|++.+.+|+++...-++.+-++++. +..||
T Consensus       678 l~rti~ts~tt~~~~~~L~~~g~~~i~~fa~~l~iGii~g~~ssifia~~l~~~~~~~~  736 (755)
T PRK13024        678 LSRTINTSLTTLLVLLALLIFGGSSLRNFSLALLVGLIVGTYSSIFIAAPLWLDLEKRR  736 (755)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            99999999999999999999999999999999999999999999888777665 44443

>TIGR00915 2A0602 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family

Probab=99.32  E-value=6.5e-11  Score=108.45  Aligned_cols=128  Identities=16%  Similarity=0.278  Sum_probs=111.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhh-cCCCCHHHHHHHHHHHHhHHHH
Q psy8504          17 GILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYT-SKNQFDSECTGIVLRKTGLSII   95 (150)
Q Consensus        17 ~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~-~~~~~~~~~i~~~l~~~g~~i~   95 (150)
                      ++...+++.++++.+++++.++|+++|..+ .....+.+|+.+||++++++++++.. +++.++.|++.++.++.+++++
T Consensus       365 ~li~~~~iP~s~~~~~~~~~~~g~~ln~~s-l~gli~~iGi~VD~aIvv~e~i~~~~~~~g~~~~~A~~~~~~~~~~~i~  443 (1044)
T TIGR00915       365 TLIPTIAVPVVLLGTFAVLAAFGFSINTLT-MFAMVLAIGLLVDDAIVVVENVERVMAEEGLPPKEATRKSMGQIQGALV  443 (1044)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCChhHHH-HHHHHHHhhheecceEEEehHHHHHHHhcCCCHHHHHHHHHHHHHHHHH
Confidence            566666778899999999999999999975 46667888888999999999988764 4455899999999999999999


Q ss_pred             HHHHHHHHHHHHhccCC---cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy8504          96 LSSVCKSVAFFSASLIP---IPALRVFNLQLAILILFNMFVLLLVYPAIVSLD  145 (150)
Q Consensus        96 ~tslt~~~~f~~~~~s~---~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~  145 (150)
                      .+++|++++|.-..+.+   -+..+.|++....+++++++.++++.|++....
T Consensus       444 ~ttltti~~flPl~~~~G~~g~~~~~~~~~i~~~l~~S~l~al~~~P~l~~~~  496 (1044)
T TIGR00915       444 GIAMVLSAVFVPMAFFGGSTGAIYRQFSITIVSAMALSVLVALILTPALCATM  496 (1044)
T ss_pred             HHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            99999999999888754   567899999999999999999999999987753

This family is one of several subfamilies within the scope of pfam model pfam00873.

>PRK15127 multidrug efflux system protein AcrB; Provisional

Probab=99.32  E-value=6.7e-11  Score=108.36  Aligned_cols=128  Identities=16%  Similarity=0.274  Sum_probs=111.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhh-cCCCCHHHHHHHHHHHHhHHHH
Q psy8504          17 GILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYT-SKNQFDSECTGIVLRKTGLSII   95 (150)
Q Consensus        17 ~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~-~~~~~~~~~i~~~l~~~g~~i~   95 (150)
                      ++...+.+.++++.+++++.++|.++|..+ .....+.+|+.+||++++++++++.. +++.++++++.++.++.++++.
T Consensus       365 ~li~~~~iP~sl~~~~~~~~~~g~~ln~~s-l~glil~iGi~VD~aIvvie~i~~~~~~~G~~~~~A~~~~~~~v~~~i~  443 (1049)
T PRK15127        365 TLIPTIAVPVVLLGTFAVLAAFGFSINTLT-MFGMVLAIGLLVDDAIVVVENVERVMAEEGLPPKEATRKSMGQIQGALV  443 (1049)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCHhHHH-HHHHHHHHHhhccceEEEeHHHHHHHHHcCCCHHHHHHHHHHHHHHHHH
Confidence            556667778899999999999999999975 46677889999999999999998865 4455899999999999999999


Q ss_pred             HHHHHHHHHHHHhccC---CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy8504          96 LSSVCKSVAFFSASLI---PIPALRVFNLQLAILILFNMFVLLLVYPAIVSLD  145 (150)
Q Consensus        96 ~tslt~~~~f~~~~~s---~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~  145 (150)
                      .+++|++++|.-..+.   .-+..+.|++....+++++++.++++.|++.+..
T Consensus       444 ~~tltt~~~f~Pl~~~~G~~g~~~~~~~~~~~~~l~~S~l~al~~vP~l~~~~  496 (1049)
T PRK15127        444 GIAMVLSAVFVPMAFFGGSTGAIYRQFSITIVSAMALSVLVALILTPALCATM  496 (1049)
T ss_pred             HHHHHHHHHHHHHHHcCCchHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            9999999999998873   3355689999999999999999999999987754

>PRK09577 multidrug efflux protein; Reviewed

Probab=99.31  E-value=5.8e-11  Score=108.64  Aligned_cols=129  Identities=21%  Similarity=0.311  Sum_probs=113.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhh-cCCCCHHHHHHHHHHHHhHHHH
Q psy8504          17 GILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYT-SKNQFDSECTGIVLRKTGLSII   95 (150)
Q Consensus        17 ~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~-~~~~~~~~~i~~~l~~~g~~i~   95 (150)
                      ++...+++.+++..++++|.++|+++|.++ .....+.+|+.+||++++++++++.. +++.++.+++.++.++.+++++
T Consensus       364 ~liv~~~iP~s~~~~~~~m~~~g~~ln~~s-l~gl~~~iGi~VD~aIvvie~i~~~~~~~G~~~~~A~~~a~~~~~~~i~  442 (1032)
T PRK09577        364 TLIPTLVVPVALLGTFGVMLAAGFSINVLT-MFGMVLAIGILVDDAIVVVENVERLMVEEGLSPYDATVKAMKQISGAIV  442 (1032)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhcccHHHHH-HHHHHHheeeEecCcEEEehHHHHHHHHcCCCHHHHHHHHHHHHHHHHH
Confidence            566677788999999999999999999975 57777889999999999999998865 4555889999999999999999


Q ss_pred             HHHHHHHHHHHHhccCC---cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q psy8504          96 LSSVCKSVAFFSASLIP---IPALRVFNLQLAILILFNMFVLLLVYPAIVSLDL  146 (150)
Q Consensus        96 ~tslt~~~~f~~~~~s~---~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~  146 (150)
                      .+++|++++|.-..+.+   -+..+.|++....+++++++.++++.|++.....
T Consensus       443 ~~tlt~~~~flPl~~~~g~~g~~~~~~~~~v~~~l~~S~~~al~~~P~l~~~~~  496 (1032)
T PRK09577        443 GITVVLTSVFVPMAFFGGAVGNIYRQFALSLAVSIGFSAFLALSLTPALCATLL  496 (1032)
T ss_pred             HHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            99999999998877654   3457999999999999999999999999987643

>PF02460 Patched: Patched family; InterPro: IPR003392 The transmembrane protein, patched, is a receptor for the morphogene Sonic Hedgehog

Probab=99.27  E-value=5.1e-11  Score=106.41  Aligned_cols=128  Identities=19%  Similarity=0.297  Sum_probs=112.5

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHHHHHHHHHHhHHH
Q psy8504          15 GVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRKTGLSI   94 (150)
Q Consensus        15 ~l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~i~~~l~~~g~~i   94 (150)
                      ..++...++++.-.+..+|.|.+.|+++|+.. .+.-.+.+|+++|++.|+..+|.+...+  +++||+.+++++.|+|+
T Consensus       670 ~~~~~~~~~i~~i~~~v~G~m~~~g~~l~~vs-~v~l~~~iG~sVd~~~Hi~~~f~~~~~~--~~~~r~~~al~~~g~pv  746 (798)
T PF02460_consen  670 RSSLIVTLSILSIDVGVIGFMSLWGVDLDPVS-MVNLIMSIGFSVDFSAHIAYAFVHSQGS--TRDERVAEALSSMGWPV  746 (798)
T ss_pred             hhHHHHHHHHHHHHHHHHHhhhccccCcchHH-HHHHHHHhchhhHHHHHHHHHheecccc--hHHHHHHHHHHHhhHHH
Confidence            33555555556666678899999999999974 5777788899999999999999875544  89999999999999999


Q ss_pred             HHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy8504          95 ILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVSLD  145 (150)
Q Consensus        95 ~~tslt~~~~f~~~~~s~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~  145 (150)
                      +-.+++|.+|...+++++.+..+.|.-...+.+++.++..+.++|++|++-
T Consensus       747 ~~~~~st~l~~~~l~f~~~~~~~~ff~~~~l~~~~~~~hglv~lPv~ls~~  797 (798)
T PF02460_consen  747 LQGALSTFLGVLPLAFSPSYIFRVFFKTVFLVIIFGLLHGLVFLPVLLSLF  797 (798)
T ss_pred             HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            999999999999999999999999999999999999999999999999863

In Drosophila melanogaster, this protein associates with the smoothened protein to transduce hedgehog signals, leading to the activation of wingless, decapentaplegic and patched itself. It participates in cell interactions that establish pattern within the segment and imaginal disks during development. The mouse homologue may play a role in epidermal development. The human Niemann-Pick C1 protein, defects in which cause Niemann-Pick type II disease, is also a member of this family. This protein is involved in the intracellular trafficking of cholesterol, and may play a role in vesicular trafficking in glia, a process that may be crucial for maintaining the structural functional integrity of nerve terminals.; GO: 0008158 hedgehog receptor activity, 0016020 membrane

>PF02355 SecD_SecF: Protein export membrane protein; InterPro: IPR022813 Secretion across the inner membrane in some Gram-negative bacteria occurs via the preprotein translocase pathway

Probab=99.26  E-value=1.7e-10  Score=86.98  Aligned_cols=132  Identities=18%  Similarity=0.231  Sum_probs=111.9

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcC--CCCHHHHHHHHHHHHhH
Q psy8504          15 GVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSK--NQFDSECTGIVLRKTGL   92 (150)
Q Consensus        15 ~l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~--~~~~~~~i~~~l~~~g~   92 (150)
                      ..++.+++.....++.++|++.++|+++|+.. ...-..++|.++||.+++.+|.+|+.++  +.+.++++.+++++.-.
T Consensus        55 ~~~~~aii~l~~dv~i~l~~~~~~~~~l~l~~-iaall~~iG~sVd~~IVifdRIre~~~~~~~~~~~~~~~~s~~~tl~  133 (189)
T PF02355_consen   55 RFALAAIIALIHDVLITLGIFSLFGIELTLPS-IAALLTIIGYSVDDNIVIFDRIREELRASRGKSLREAINISIKQTLS  133 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHT-EE-HHH-HHHHHHHHHHHHHHHHHHHHHHHHHHCC-STS-HHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHCCcccHHH-HHHHHHHHHHHHhcceeehHHHHHHhhhCCCCCHHHHHHHHHHHHHH
Confidence            35788888888889999999999999999964 3555688999999999999999998533  55899999999999999


Q ss_pred             HHHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Q psy8504          93 SIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLR  147 (150)
Q Consensus        93 ~i~~tslt~~~~f~~~~~s~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~r  147 (150)
                      ....|++|+.+......+..-+++++|+....+|++.+..-++.+-++++.+-.|
T Consensus       134 r~i~t~~ttll~~~~L~~~g~~~l~~Fa~~l~iGvi~~~~ss~~ia~~l~~~l~~  188 (189)
T PF02355_consen  134 RTIDTSLTTLLAALILFFFGGGSLKGFALTLIIGVIIGTYSSLFIARPLLYWLVK  188 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHC--CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            9999999999999998888889999999999999999999999998888876544

Proteins are produced in the cytoplasm as precursors, and require a chaperone subunit to direct them to the translocase component []. From there, the mature proteins are either targeted to the outer membrane, or remain as periplasmic proteins. The translocase protein subunits are encoded on the bacterial chromosome. The translocase itself comprises 7 proteins, including a chaperone protein (SecB), an ATPase (SecA), an integral membrane complex (SecCY, SecE and SecG), and two additional membrane proteins that promote the release of the mature peptide into the periplasm (SecD and SecF) []. The chaperone protein SecB [] is a highly acidic homotetrameric protein that exists as a "dimer of dimers" in the bacterial cytoplasm. SecB maintains preproteins in an unfolded state after translation, and targets these to the peripheral membrane protein ATPase SecA for secretion []. Together with SecY and SecG, SecE forms a multimeric channel through which preproteins are translocated, using both proton motive forces and ATP-driven secretion. The latter is mediated by SecA. The structure of the Escherichia coli SecYEG assembly revealed a sandwich of two membranes interacting through the extensive cytoplasmic domains []. Each membrane is composed of dimers of SecYEG. The monomeric complex contains 15 transmembrane helices. The SecD and SecF equivalents of the Gram-positive bacterium Bacillus subtilis are jointly present in one polypeptide, denoted SecDF, that is required to maintain a high capacity for protein secretion. Unlike the SecD subunit of the pre-protein translocase of E. coli, SecDF of B. subtilis was not required for the release of a mature secretory protein from the membrane, indicating that SecDF is involved in earlier translocation steps []. Comparison with SecD and SecF proteins from other organisms revealed the presence of 10 conserved regions in SecDF, some of which appear to be important for SecDF function. Interestingly, the SecDF protein of B. subtilis has 12 putative transmembrane domains. Thus, SecDF does not only show sequence similarity but also structural similarity to secondary solute transporters []. This entry represents bacterial SecD and SecF protein export membrane proteins and their archaeal homologues []. It is found in association with PF07549 from PFAM SecD and SecF proteins are part of the multimeric protein export complex comprising SecA, D, E, F, G, Y, and YajC []. SecD and SecF are required to maintain a proton motive force []. ; PDB: 3AQP_A 2RRN_A 3AQO_B.

>PRK12933 secD preprotein translocase subunit SecD; Reviewed

Probab=99.25  E-value=2.6e-10  Score=98.33  Aligned_cols=129  Identities=15%  Similarity=0.186  Sum_probs=115.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHh-CCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHHHHHHHHHHhHHH
Q psy8504          16 VGILGCCLISFSILAGLGFCSIL-GIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRKTGLSI   94 (150)
Q Consensus        16 l~l~~~~~~~~s~~~~~G~~~~~-G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~i~~~l~~~g~~i   94 (150)
                      .|+...+.+...++.++|+|+++ |.++|... ...-.+.+|..+|+.+++.++.+++.+++.+..+++..+++++..++
T Consensus       464 ~glva~iAL~~~l~l~l~vmsll~G~tLtLpg-IAGiILtIGmaVDanIVI~ERIrEel~~G~s~~~Ai~~G~~~a~~~I  542 (604)
T PRK12933        464 LGWVANVALIANMVCLFGLLALIPGAVLTLPG-IAGLVLTVGMAVDTNVLIFERIKDKLKEGRSFAQAIDTGFDSAFSTI  542 (604)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhCCcccHHH-HHHHHHHHHhhccCcEEEehHHHHHHHcCCCHHHHHHHHHHHHHHHH
Confidence            47778888899999999999998 99999864 34455778999999999999999988777789999999999999999


Q ss_pred             HHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy8504          95 ILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVSLD  145 (150)
Q Consensus        95 ~~tslt~~~~f~~~~~s~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~  145 (150)
                      +.+++||.++|..+.+-.-.++|.|++...+|++..++..+++-|+++.+-
T Consensus       543 ldanlTTlia~lpL~~~Ggg~ikgFAvTL~iGIl~S~ftAi~vtr~l~~~~  593 (604)
T PRK12933        543 FDANFTTMITAVVLYSIGNGPIQGFALTLGLGLLTSMFTGIFASRALINLV  593 (604)
T ss_pred             HHHHHHHHHHHHHHHHHccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999998887766677999999999999999999999999998754

>PRK12911 bifunctional preprotein translocase subunit SecD/SecF; Reviewed

Probab=99.24  E-value=2.2e-10  Score=104.65  Aligned_cols=130  Identities=19%  Similarity=0.181  Sum_probs=115.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHHHHHHHHHHhHHHHH
Q psy8504          17 GILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRKTGLSIIL   96 (150)
Q Consensus        17 ~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~i~~~l~~~g~~i~~   96 (150)
                      ++...+.+...++.+++++.++|.++|... ...-.+.+|.++||.+++.++.+++.+.+.+..+++.++.++...+++.
T Consensus       934 GliA~IALll~VlltLg~LsLlGitLTLpg-IAGIILlIGmAVDdnIVIfERIREELr~Gksl~eAI~~G~~~afs~ILd 1012 (1403)
T PRK12911        934 GVIASGAVLLNLLLIWAALQYLDAPLTLSG-LAGIVLAMGMAVDANVLVFERIREEYLLSRSLSESVEAGYKKAFSAIFD 1012 (1403)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCCchHHH-HHHHHHHHHHhhcCCEEEehHHHHHHHcCCCHHHHHHHHHHHHHHHHHH
Confidence            666777777889999999999999999964 3555678899999999999999998877778999999999999999999


Q ss_pred             HHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Q psy8504          97 SSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLR  147 (150)
Q Consensus        97 tslt~~~~f~~~~~s~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~r  147 (150)
                      +++||++++..+.+....+++.|++...+|++...+.++++.|+++.+-.+
T Consensus      1013 TnLTTLIA~lPLf~fGtG~vkgFAvTLiIGII~SmftALfVtP~Ll~l~l~ 1063 (1403)
T PRK12911       1013 SNLTTILASALLLMLDTGPIKGFALTLIIGIFSSMFTALFMTKFFFMIWMN 1063 (1403)
T ss_pred             HHHHHHHHHHHHHHhcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            999999999998777777799999999999999999999999999876543

>PRK13021 secF preprotein translocase subunit SecF; Reviewed

Probab=99.22  E-value=7.8e-10  Score=88.66  Aligned_cols=130  Identities=15%  Similarity=0.136  Sum_probs=114.6

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhh--cCCCCHHHHHHHHHHHHh
Q psy8504          14 AGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYT--SKNQFDSECTGIVLRKTG   91 (150)
Q Consensus        14 ~~l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~--~~~~~~~~~i~~~l~~~g   91 (150)
                      +..++..++++...+..++|.+.++|.++|.. ....-..++|..++|.+.+.++.+|+.  .++.+.+|.+.++..+.-
T Consensus       149 ~~~~l~al~al~~dv~~~l~~l~l~g~~l~~~-~iaglLtliG~svnd~IVi~drire~~~~~~~~~~~e~i~~ai~~~l  227 (297)
T PRK13021        149 WRLASGALFALVHDVIFVLAFFALTQMEFNLT-VLAAVLAILGYSLNDSIIIADRIRELLIAKPKLAIQEINNQAIVATF  227 (297)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHCCCccHH-HHHHHHHHHHHeeeCCEEEeeHHHHHHHhccCCCHHHHHHHHHHHHH
Confidence            45678888899999999999999999999985 345566789999999999999999775  344588999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy8504          92 LSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVSL  144 (150)
Q Consensus        92 ~~i~~tslt~~~~f~~~~~s~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l  144 (150)
                      .+++.|++|+.++...+.+..-+.+|.|++....|++.....++.+=++++..
T Consensus       228 rr~l~TslTt~l~llpL~l~G~~~~~~fA~~li~Gli~gt~sslfva~pl~~~  280 (297)
T PRK13021        228 SRTMVTSGTTLMTVGALWIMGGGPLEGFSIAMFIGILTGTFSSISVGTSLPEL  280 (297)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999998888889999999999999999999999888877643

>TIGR00914 2A0601 heavy metal efflux pump (cobalt-zinc-cadmium)

Probab=99.21  E-value=4.3e-11  Score=109.64  Aligned_cols=132  Identities=17%  Similarity=0.186  Sum_probs=114.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHHHHHHHHHHhHHHHH
Q psy8504          17 GILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRKTGLSIIL   96 (150)
Q Consensus        17 ~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~i~~~l~~~g~~i~~   96 (150)
                      ++..++++-++++.++..+.++|.+++... .+...+++|+.+||++++++++++..+++.+.+|++.++.++..+|+++
T Consensus       905 ~lii~~~iPl~~~g~~~~l~~~g~~l~~~s-~~G~i~l~GivV~naIvlv~~~~~~~~~g~~~~~Ai~~a~~~r~rpIl~  983 (1051)
T TIGR00914       905 ALLVFTGIPFALTGGVFALWLRGIPLSISA-AVGFIALSGVAVLNGLVMISFIRKLLEEGPSLDEAVYEGALTRVRPVLM  983 (1051)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCccHHH-HHHHHHHHHHHHhhhhHHHHHHHHHHHcCCCHHHHHHHHHHHhhhhHHH
Confidence            555666777888888888889999999864 5667778999999999999999988777779999999999999999999


Q ss_pred             HHHHHHHHHHHhccCC---cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccc
Q psy8504          97 SSVCKSVAFFSASLIP---IPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLRRS  149 (150)
Q Consensus        97 tslt~~~~f~~~~~s~---~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~rR~  149 (150)
                      |++||++||.-.++.+   -+..+.+++....|++++.++++++.|+++.+..||+
T Consensus       984 ttltti~g~lPl~~~~g~~~~~~~pla~~v~~gl~~s~~~tL~~vP~l~~~~~~~~ 1039 (1051)
T TIGR00914       984 TALVASLGFVPMAIATGTGAEVQRPLATVVIGGIITATLLTLFVLPALYRLVHRRR 1039 (1051)
T ss_pred             HHHHHHHHHHHHHhcCCCChhhhcCceEEEEchHHHHHHHHHHHHHHHHHHHHhhh
Confidence            9999999999988763   4567789999999999999999999999998866654

This model represents a family of H+/heavy metal cation antiporters. This family is one of several subfamilies within the scope of pfam model pfam00873.

>PRK14726 bifunctional preprotein translocase subunit SecD/SecF; Provisional

Probab=99.18  E-value=1.2e-09  Score=97.77  Aligned_cols=135  Identities=14%  Similarity=0.178  Sum_probs=114.0

Q ss_pred             chhHHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhc--CCCCHHHHHHHHHHHH
Q psy8504          13 QAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTS--KNQFDSECTGIVLRKT   90 (150)
Q Consensus        13 k~~l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~--~~~~~~~~i~~~l~~~   90 (150)
                      ++..++.+++....-+++++|++.++|.+++... ...-..++|.+++|.+++.++++|+.+  ++.+.+|....++.++
T Consensus       694 ~~~fa~~avial~hDv~i~~g~~~l~g~~ls~~~-iaglLtliGysvndtIVi~DRIrE~~~~~~~~~~~~~~~~si~~t  772 (855)
T PRK14726        694 EWQFAVGAIIATLHDVILTLGLFVLTGIEFNLTS-IAAILTIVGYSLNDTVVVYDRVRENLRRYKKMPLPILIDASINQT  772 (855)
T ss_pred             HhhHHHHHHHHHHHHHHHHHHHHHHHCCCccHHH-HHHHHHHHHHeeeCcEEEehHHHHHHhhccCCCHHHHHHHHHHHH
Confidence            3456888999999999999999999999999964 455567899999999999999997763  3336566666667666


Q ss_pred             hHHHHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccc
Q psy8504          91 GLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLRR  148 (150)
Q Consensus        91 g~~i~~tslt~~~~f~~~~~s~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~rR  148 (150)
                      ..-++.|++||.+++..+.+...+.++.|++....|++.....++.+-++++.+-.+|
T Consensus       773 l~Rii~TslTTll~llpL~l~G~~~i~~fai~li~Gli~gt~sSifvAspll~~~~~~  830 (855)
T PRK14726        773 LSRTVLTSATTLLALLALYLFGGEVIRSFTFAMLFGVAVGTFSSIYIAAPVLIVFKLR  830 (855)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            6668999999999999998888999999999999999999999999999987654333

>COG2409 Predicted drug exporters of the RND superfamily [General function prediction only]

Probab=99.14  E-value=2.6e-10  Score=103.53  Aligned_cols=136  Identities=18%  Similarity=0.327  Sum_probs=120.6

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHhCCC----cccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHHHHHHHHH
Q psy8504          14 AGVGILGCCLISFSILAGLGFCSILGIP----FNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRK   89 (150)
Q Consensus        14 ~~l~l~~~~~~~~s~~~~~G~~~~~G~~----~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~i~~~l~~   89 (150)
                      +..++..++.+.++...+.|+..++...    .+.++......+.+|+|+||+.-++++|+|+.+++.+++++.+++++.
T Consensus       208 ~i~a~lpL~t~~~s~~~a~~iv~~l~~~~~~~~stf~~~~~~~~~ig~gtDY~Lflv~R~~e~~~~g~~~~~a~~~a~~t  287 (937)
T COG2409         208 VITAFLPLITVGLSLLVAQGIVALLAYAFGLGVSTFALSLLVALGIGAGTDYALFLVSRYREELREGQDREAAVGTAYRT  287 (937)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCChhhHHHHHHHh
Confidence            3447778888899999999988854433    344555667778899999999999999999988778999999999999


Q ss_pred             HhHHHHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccc
Q psy8504          90 TGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLRRS  149 (150)
Q Consensus        90 ~g~~i~~tslt~~~~f~~~~~s~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~rR~  149 (150)
                      .|+.+..+..|.+.++..+.+.++|..+..++..+++|.++.+..+|+.||++++-+||.
T Consensus       288 ag~~V~~sg~tV~~a~~~l~~a~~~~~~s~g~~~ai~V~va~l~slTllPAll~llg~~~  347 (937)
T COG2409         288 AGKTVAFSGLTVAIALLGLSFARLPFLKTLGIAAAIGVAVAVLAALTLLPALLALLGRRG  347 (937)
T ss_pred             ccceeehhhhHHHHHHHHHHhcccchhhhchhhHHHHHHHHHHHHHHHHHHHHHHhcccC
Confidence            999999999999999999999999999999999999999999999999999999988874

>TIGR00915 2A0602 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family

Probab=99.09  E-value=2.5e-09  Score=98.14  Aligned_cols=132  Identities=12%  Similarity=0.097  Sum_probs=113.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHHHHHHHHHHhHHHHH
Q psy8504          17 GILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRKTGLSIIL   96 (150)
Q Consensus        17 ~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~i~~~l~~~g~~i~~   96 (150)
                      .+.-++++.++++.++..+.++|.+++... .+--..++|+-+||++++++.+++..+++.+.+|++.++-++-..|+++
T Consensus       897 pliI~~~iPlsl~G~~~~l~~~g~~l~~~s-l~G~i~l~GivVnnaIvlvd~~~~~~~~G~~~~~Ai~~a~~~RlRPIlm  975 (1044)
T TIGR00915       897 PVSVMLVVPLGIIGALLATSLRGLSNDVYF-QVGLLTTIGLSAKNAILIVEFAKELMAQGKSIVEAALEAARMRLRPILM  975 (1044)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCCccHHH-HHHHHHHHHHHHcceEeeHHHHHHHHHcCCCHHHHHHHHHHhhhchHHH
Confidence            455556677788888888889999999964 4666688999999999999999987777779999999999999999999


Q ss_pred             HHHHHHHHHHHhccCC---cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccc
Q psy8504          97 SSVCKSVAFFSASLIP---IPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLRRS  149 (150)
Q Consensus        97 tslt~~~~f~~~~~s~---~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~rR~  149 (150)
                      |++|+++||.-++++.   -+..+.+++....|++++.++++++.|+++.+-.|+.
T Consensus       976 Ttltti~gllPla~~~g~g~~~~~plai~vigGL~~st~ltL~vvP~ly~~~~~~~ 1031 (1044)
T TIGR00915       976 TSLAFILGVVPLAISTGAGSGSQHAIGTGVFGGMVTATVLAIFFVPLFYVVVRRLF 1031 (1044)
T ss_pred             HHHHHHHHHHHHHHhcCCChHHhCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            9999999999988763   3567889999999999999999999999998765553

This family is one of several subfamilies within the scope of pfam model pfam00873.

>TIGR00914 2A0601 heavy metal efflux pump (cobalt-zinc-cadmium)

Probab=99.08  E-value=3.9e-09  Score=96.91  Aligned_cols=127  Identities=17%  Similarity=0.184  Sum_probs=105.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcC-----C-----CCHHHHHHH
Q psy8504          16 VGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSK-----N-----QFDSECTGI   85 (150)
Q Consensus        16 l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~-----~-----~~~~~~i~~   85 (150)
                      .++...+++-+|++.++.+|.++|+++|.++.  . .+++|+-+||+++++++.++..++     +     .++.++..+
T Consensus       367 ~~liv~~~iP~s~~~~~~~m~~~g~sln~~sl--~-~l~iGilVDdaIVvvE~i~r~~~~~~~~~g~~~~~~~~~~A~~~  443 (1051)
T TIGR00914       367 AALIAATVIPLSLLITFIGMVFQGISANLMSL--G-ALDFGLIVDGAVVIVENAHRRLAEAQHHHGRQLTLKERLHEVFA  443 (1051)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhCCcHHHHHH--H-HHHHHhhhcCcEEeehHHHHHHHhcccccccccccccHHHHHHH
Confidence            35566677788999999999999999999753  3 466799999999998875443221     1     367788999


Q ss_pred             HHHHHhHHHHHHHHHHHHHHHHhccCCc---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy8504          86 VLRKTGLSIILSSVCKSVAFFSASLIPI---PALRVFNLQLAILILFNMFVLLLVYPAIVSLD  145 (150)
Q Consensus        86 ~l~~~g~~i~~tslt~~~~f~~~~~s~~---p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~  145 (150)
                      +.++.++|++.+++|++++|.-..+.+-   ...+.|++....+++++++.++++.|++.+..
T Consensus       444 g~~~~~~pil~stlTti~~flPl~~~~g~~g~~~~~~~~~v~~~l~~Sll~al~~~P~l~~~~  506 (1051)
T TIGR00914       444 ASREVRRPLIFGQLIITLVFLPIFTLTGVEGKMFHPMAFTVVLALAGAMILSLTFVPAAVALF  506 (1051)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHccchHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            9999999999999999999999876432   56799999999999999999999999998764

This model represents a family of H+/heavy metal cation antiporters. This family is one of several subfamilies within the scope of pfam model pfam00873.

>PRK15127 multidrug efflux system protein AcrB; Provisional

Probab=99.05  E-value=3.3e-09  Score=97.37  Aligned_cols=131  Identities=13%  Similarity=0.118  Sum_probs=112.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhh-cCCCCHHHHHHHHHHHHhHHHH
Q psy8504          17 GILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYT-SKNQFDSECTGIVLRKTGLSII   95 (150)
Q Consensus        17 ~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~-~~~~~~~~~i~~~l~~~g~~i~   95 (150)
                      .+.-++++-++++.++..+.++|.+++... .+--.+++|+-+||++++++..++.. +++.+.+|++.++-++-.+|++
T Consensus       898 pliI~~~IPls~~Ga~~~l~~~g~~l~~~s-l~Gli~l~GivV~naIvlvd~~~~~~~~~G~~~~~Ai~~a~~~R~rPIl  976 (1049)
T PRK15127        898 PFSVMLVVPLGVIGALLAATFRGLTNDVYF-QVGLLTTIGLSAKNAILIVEFAKDLMDKEGKGLIEATLEAVRMRLRPIL  976 (1049)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHhCCCccHHH-HHHHHHHHHHHHcCeEEEeHHHHHHHHhcCCCHHHHHHHHHHHhhhhHH
Confidence            455566777888999999999999999863 46666788999999999999998754 3456899999999999999999


Q ss_pred             HHHHHHHHHHHHhccCC---cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccc
Q psy8504          96 LSSVCKSVAFFSASLIP---IPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLRR  148 (150)
Q Consensus        96 ~tslt~~~~f~~~~~s~---~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~rR  148 (150)
                      +|++|+++||.-.++..   -+..+-+++....|++++.++++++.|+++.+-.||
T Consensus       977 mTtlTti~gllPl~l~~G~g~~~~~plai~ii~GL~~St~ltL~~vP~ly~~~~~~ 1032 (1049)
T PRK15127        977 MTSLAFILGVMPLVISSGAGSGAQNAVGTGVMGGMVTATVLAIFFVPVFFVVVRRR 1032 (1049)
T ss_pred             HHHHHHHHHHHHHHhcCCCCHHHhcCchhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999988764   356677999999999999999999999999876555

>PF00873 ACR_tran: AcrB/AcrD/AcrF family; InterPro: IPR001036 The Escherichia coli acrA and acrB genes encode a multi-drug efflux system that is believed to protect the bacterium against hydrophobic inhibitors []

Probab=99.05  E-value=1.5e-09  Score=99.38  Aligned_cols=132  Identities=21%  Similarity=0.318  Sum_probs=111.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcC-CCCHHHHHHHHHHHHhHHH
Q psy8504          16 VGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSK-NQFDSECTGIVLRKTGLSI   94 (150)
Q Consensus        16 l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~-~~~~~~~i~~~l~~~g~~i   94 (150)
                      .++...+++-+|++.++.+|+++|+++|.++. ..-.+.+|+=+||+++..+..++..++ +.++.++..++.+++++|+
T Consensus       357 ~~liv~~~IPisi~~t~~~m~~~g~slN~~SL-~gl~laiG~lVDdaIVV~Eni~r~~~~~g~~~~~Aa~~~~~ev~~~i  435 (1021)
T PF00873_consen  357 SALIVALSIPISILGTFIFMYLFGISLNIMSL-AGLILAIGMLVDDAIVVVENIYRHLEEEGKSPLEAAIEGTKEVAPPI  435 (1021)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTTTBEHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHcCCCchHHHH-HhHHHhcccccccceehHHHHHHHHHHhccchHHHHHHHHHHHHHHH
Confidence            35566677778999999999999999999753 444455565589999999999877766 7799999999999999999


Q ss_pred             HHHHHHHHHHHHHhccCC---cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccc
Q psy8504          95 ILSSVCKSVAFFSASLIP---IPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLRR  148 (150)
Q Consensus        95 ~~tslt~~~~f~~~~~s~---~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~rR  148 (150)
                      +.+++||+++|.-..+.+   -.-++.|++...+++++.++.++|+.|.+.+...|+
T Consensus       436 ~~stlTti~vF~Pl~f~~G~~g~~~~~l~~~v~~al~~Sllval~~~P~l~~~~l~~  492 (1021)
T PF00873_consen  436 LASTLTTIAVFLPLLFMPGIAGQFFRPLALTVIIALIASLLVALTLVPALAALFLKP  492 (1021)
T ss_dssp             HHHHHHHHHHTCGGGGSBHHHHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHHCS--
T ss_pred             HHHHHHHHHHhhhhhhcCCchHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhcc
Confidence            999999999999988765   455789999999999999999999999998765443

The E. coli AcrB protein is a transporter that is energized by proton-motive force and that shows the widest substrate specificity among all known multidrug pumps, ranging from most of the currently used antibiotics, disinfectants, dyes, and detergents to simple solvents. The structure of ligand-free AcrB shows that it is a homotrimer of 110kDa per subunit. Each subunit contains 12 transmembrane helices and two large periplasmic domains (each exceeding 300 residues) between helices 1 and 2, and helices 7 and 8. X-ray analysis of the overexpressed AcrB protein demonstrated that the three periplasmic domains form, in the centre, a funnel-like structure and a connected narrow (or closed) pore. The pore is opened to the periplasm through three vestibules located at subunit interfaces. These vestibules were proposed to allow direct access of drugs from the periplasm as well as the outer leaflet of the cytoplasmic membrane. The three transmembrane domains of AcrB protomers form a large, 30A-wide central cavity that spans the cytoplasmic membrane and extends to the cytoplasm X-ray crystallographic structures of the trimeric AcrB pump from E. coli with four structurally diverse ligands demonstrated that three molecules of ligand bind simultaneously to the extremely large central cavity of 5000 cubic angstroms, primarily by hydrophobic, aromatic stacking and van der Waals interactions. Each ligand uses a slightly different subset of AcrB residues for binding. The bound ligand molecules often interact with each other, stabilising the binding. ; GO: 0005215 transporter activity, 0006810 transport, 0016020 membrane; PDB: 2V50_B 1T9U_A 2HRT_B 3NOC_A 3NOG_A 4DX7_A 1OYD_A 3AOB_A 1T9V_A 4DX6_B ....

>PRK10555 aminoglycoside/multidrug efflux system; Provisional

Probab=99.00  E-value=1.2e-08  Score=93.59  Aligned_cols=132  Identities=14%  Similarity=0.099  Sum_probs=113.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHHHHHHHHHHhHHHHH
Q psy8504          17 GILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRKTGLSIIL   96 (150)
Q Consensus        17 ~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~i~~~l~~~g~~i~~   96 (150)
                      .+.-++++-++++.++..+.++|.+++... .+--.+++|+-+||++.+++..++..+++.+.+|++.++-++-.+|+++
T Consensus       896 pliI~~~IPlal~G~l~~L~i~g~~l~~~s-l~Gli~l~GivV~naIvlvd~i~~~~~~G~~~~~Ai~~A~~~RlRPIlm  974 (1037)
T PRK10555        896 PFSVMLVVPLGVIGALLATWMRGLENDVYF-QVGLLTVIGLSAKNAILIVEFANEMNQKGHDLFEATLHASRQRLRPILM  974 (1037)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCccHHH-HHHHHHHHHHHHcCeEEeHHHHHHHHHcCCCHHHHHHHHHHhhhhhHHH
Confidence            455566677888888888999999999864 4666788899999999999999876666668999999999999999999


Q ss_pred             HHHHHHHHHHHhccCC---cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccc
Q psy8504          97 SSVCKSVAFFSASLIP---IPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLRRS  149 (150)
Q Consensus        97 tslt~~~~f~~~~~s~---~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~rR~  149 (150)
                      |++|+++|+.-.++..   -+..+-+++....|++++.++++++.|+++.+-.||.
T Consensus       975 Ttltti~gllPlal~~g~g~~~~~pla~~ii~GL~~St~ltL~vvP~ly~~~~~~~ 1030 (1037)
T PRK10555        975 TSLAFIFGVLPMATSTGAGSGSQHAVGTGVMGGMISATILAIFFVPLFFVLVRRRF 1030 (1037)
T ss_pred             HHHHHHHHHHHHHHhcCCChHHhcccHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            9999999999988763   3677889999999999999999999999999866653

>PRK10503 multidrug efflux system subunit MdtB; Provisional

Probab=98.96  E-value=1.4e-08  Score=93.33  Aligned_cols=128  Identities=11%  Similarity=0.047  Sum_probs=108.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhh-hcCCCCHHHHHHHHHHHHhHHHH
Q psy8504          17 GILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKY-TSKNQFDSECTGIVLRKTGLSII   95 (150)
Q Consensus        17 ~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~-~~~~~~~~~~i~~~l~~~g~~i~   95 (150)
                      .+.-++++-++++.++..+.++|.++|... .+--.+++|+-+||++.+++..++. ++++.+++|++.++-++-.+|++
T Consensus       891 pliI~~tIPls~~G~~~~l~l~g~~l~~~s-liGli~l~GivV~naIvlvd~~~~~~~~~G~~~~eAi~~a~~~R~rPIl  969 (1040)
T PRK10503        891 PITILSTLPTAGVGALLALMIAGSELDVIA-IIGIILLIGIVKKNAIMMIDFALAAEREQGMSPRDAIYQACLLRFRPIL  969 (1040)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCccHHH-HHHHHHHHHHHHcCeEEEehHHhHHHHHcCCCHHHHHHHHHhhhhhhHH
Confidence            444556677788888888889999999964 4666688899999999999987753 55666899999999999999999


Q ss_pred             HHHHHHHHHHHHhccCC---cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy8504          96 LSSVCKSVAFFSASLIP---IPALRVFNLQLAILILFNMFVLLLVYPAIVSLD  145 (150)
Q Consensus        96 ~tslt~~~~f~~~~~s~---~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~  145 (150)
                      +|++|+++||.-.++.+   -+..+-+++....|++++.++++++.|+++.+-
T Consensus       970 mTtltti~gllPlal~~G~g~e~~~pla~~ii~GL~~St~ltL~vvP~ly~~~ 1022 (1040)
T PRK10503        970 MTTLAALLGALPLMLSTGVGAELRRPLGICMVGGLIVSQVLTLFTTPVIYLLF 1022 (1040)
T ss_pred             HHHHHHHHHHHHHHHhcCCChHHhCcchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999988763   346788999999999999999999999998875

>PRK09579 multidrug efflux protein; Reviewed

Probab=98.94  E-value=1.1e-08  Score=93.80  Aligned_cols=133  Identities=14%  Similarity=0.073  Sum_probs=109.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhh-cCCCCHHHHHHHHHHHHhHHHH
Q psy8504          17 GILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYT-SKNQFDSECTGIVLRKTGLSII   95 (150)
Q Consensus        17 ~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~-~~~~~~~~~i~~~l~~~g~~i~   95 (150)
                      .+.-++++.++++.++..+.++|.+++... .+--.+++|+-++|++.+++.+++.+ +++.+.+|++.++-++-..|++
T Consensus       871 pliI~~~iPla~~G~~~~L~i~~~~l~~~s-~~G~i~L~GivVnnaIllvd~~~~~r~~~G~~~~~Ai~~a~~~R~RPIl  949 (1017)
T PRK09579        871 PLVILVTVPLSICGALIPLFLGVSSMNIYT-QVGLVTLIGLISKHGILIVEFANQLRHEQGLSRREAIEEAAAIRLRPVL  949 (1017)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCccHHH-HHHHHHHHHHHHcCcEEehHHHHHHHHhcCCCHHHHHHHHHHHhhhHHH
Confidence            444555666777777777788999999863 46666889999999999999988765 3466899999999999999999


Q ss_pred             HHHHHHHHHHHHhccCC---cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccC
Q psy8504          96 LSSVCKSVAFFSASLIP---IPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLRRSR  150 (150)
Q Consensus        96 ~tslt~~~~f~~~~~s~---~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~rR~e  150 (150)
                      +|++||++||.-.++..   -+..+.+++...-|++++.++++++.|+++.+-.||++
T Consensus       950 mTtlTti~gllPla~~~g~g~~~~~plA~~iigGL~~st~ltL~~iP~ly~l~~~~~~ 1007 (1017)
T PRK09579        950 MTTAAMVFGMVPLILATGAGAVSRFDIGLVIATGMSIGTLFTLFVLPCIYTLLAKPDA 1007 (1017)
T ss_pred             HHHHHHHHHHHHHHHhcCCChHHhCCceeeeehHHHHHHHHHHHHHHHHHHHHhhccc
Confidence            99999999999987763   34556789999999999999999999999998777654

>COG0341 SecF Preprotein translocase subunit SecF [Intracellular trafficking and secretion]

Probab=98.90  E-value=1e-07  Score=76.68  Aligned_cols=138  Identities=19%  Similarity=0.257  Sum_probs=115.2

Q ss_pred             ccchhHHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhc--CCCCHHHHHHHHHH
Q psy8504          11 KSQAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTS--KNQFDSECTGIVLR   88 (150)
Q Consensus        11 ~sk~~l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~--~~~~~~~~i~~~l~   88 (150)
                      |=++..++.++++.+-=++.++|+++++|+++|+.+. ..-.-++|=.+||.+.+.+|.+|+.+  +..+..|.+..++.
T Consensus       154 RFe~~~a~aaI~al~hDvii~~g~~slfgiE~~l~~I-AAlLtiIGYSvNDtIVvfDRIREn~r~~~~~~~~~iin~si~  232 (305)
T COG0341         154 RFEWRFALAAILALLHDVIITLGFFSLFGIEFNLATI-AALLTIIGYSVNDTIVVFDRIRENLRKYRRETLREIINTSIN  232 (305)
T ss_pred             eeehHHHHHHHHHHHHHHHHHHHHHHHhheeecHHHH-HHHHHHeeeccCCeEEEEhHHHHHHhhhccCCHHHHHHHHHH
Confidence            3345568889999999999999999999999999643 44456788889999999999998663  33477788999998


Q ss_pred             HHhHHHHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccc
Q psy8504          89 KTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLRRS  149 (150)
Q Consensus        89 ~~g~~i~~tslt~~~~f~~~~~s~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~rR~  149 (150)
                      ++-.-...|++|+.+......+-.-+.+++|+...-+|++.+..=++.+=++++.+..+|+
T Consensus       233 qTlsRti~Ts~ttll~~~~l~~fgg~~l~~fa~~llvGii~gtySSifiA~pll~~~~~~~  293 (305)
T COG0341         233 QTLTRTINTSVTTLLVVVALLLFGGGSLKDFALALLVGIIAGTYSSIFIAAPLLLLLGKRR  293 (305)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHcCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhH
Confidence            8888889999999999777776666999999999999999999999988888887665543

>TIGR00917 2A060601 Niemann-Pick C type protein family

Probab=98.88  E-value=3.7e-08  Score=91.50  Aligned_cols=128  Identities=15%  Similarity=0.200  Sum_probs=107.6

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHHHHHHHHHHhHHH
Q psy8504          15 GVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRKTGLSI   94 (150)
Q Consensus        15 ~l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~i~~~l~~~g~~i   94 (150)
                      +-++...+++.+.++..+|+|.+.|+++|.+. .+.-.+.+|+++|..-|+.++|.+..  ..++++|..++++++|.|+
T Consensus      1074 ~~aliv~l~I~~i~~~~~g~M~~~gisLN~vS-lv~Li~avGisV~f~~hI~~~f~~~~--~~~~~~ra~~al~~vg~~v 1150 (1204)
T TIGR00917      1074 LSAVNVVISVGMIVVNLVGIMHLWNISLNAVS-VVNLVMAKGISIEFCSHINAQFSTSK--HFSRNHRAKEALGGMGSSV 1150 (1204)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHhCCCHhHHH-HHHHHHHhhhHHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHHHH
Confidence            44666677888899999999999999999974 56666788999999999999887532  2378999999999999999


Q ss_pred             HHH-HHHHHHHHHHhccCCcHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHhhh
Q psy8504          95 ILS-SVCKSVAFFSASLIPIPALRVFNLQLAIL-ILFNMFVLLLVYPAIVSLD  145 (150)
Q Consensus        95 ~~t-slt~~~~f~~~~~s~~p~i~~F~i~a~l~-v~~~~~~~~t~~pa~L~l~  145 (150)
                      +.. ++|+.+|+..+++++....+.|--.+-++ |++..+--+.++|.+|++-
T Consensus      1151 ~~g~tlT~~~g~~~L~f~~s~if~vfff~m~l~iv~~g~~HGLvfLPVlLS~~ 1203 (1204)
T TIGR00917      1151 FSGITLTKLVGVVVLGFSKSEIFQVYYFRMYLAIVLLGALHGLVFLPVLLSYI 1203 (1204)
T ss_pred             HHHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            988 68999999999999999999875555553 4779999999999999874

The model describes Niemann-Pick C type protein in eukaryotes. The defective protein has been associated with Niemann-Pick disease which is described in humans as autosomal recessive lipidosis. It is characterized by the lysosomal accumulation of unestrified cholesterol. It is an integral membrane protein, which indicates that this protein is most likely involved in cholesterol transport or acts as some component of cholesterol homeostasis.

>COG0841 AcrB Cation/multidrug efflux pump [Defense mechanisms]

Probab=98.86  E-value=2e-08  Score=91.73  Aligned_cols=130  Identities=19%  Similarity=0.342  Sum_probs=109.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHHHHHHHHHHhHHHHH
Q psy8504          17 GILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRKTGLSIIL   96 (150)
Q Consensus        17 ~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~i~~~l~~~g~~i~~   96 (150)
                      ++...+.+-+|++.++++|..+|+++|.++ ...-.+.+|+=+||+++.++...+..+ +.++.|+..+++++.+.+++.
T Consensus       356 tlI~~iaiPlsLlgtf~~m~~~GfslN~lT-L~aLiLAiGllVDDAIVVvENI~R~~~-G~~p~~Aa~~a~~ei~~~via  433 (1009)
T COG0841         356 TLIPALAVPVSLLGTFAVMYAFGFSLNTLT-LFALVLAIGLLVDDAIVVVENIERHMR-GLPPREAAEKAMGEIGGAVIA  433 (1009)
T ss_pred             eEEeeeechHHHHHHHHHHHHhCccchHhH-HHHHHHhhheeEeccEEEEeeEEeecC-CCCHHHHHHHHHHHHHHHHHH
Confidence            455566777899999999999999999975 355556677778999998887766555 779999999999999999999


Q ss_pred             HHHHHHHHHHHhccCC-c--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccc
Q psy8504          97 SSVCKSVAFFSASLIP-I--PALRVFNLQLAILILFNMFVLLLVYPAIVSLDLRR  148 (150)
Q Consensus        97 tslt~~~~f~~~~~s~-~--p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~rR  148 (150)
                      ++++.++.|.-.++.+ +  +-.|+|++..++++++.++..+|+-|.+-+.-.|+
T Consensus       434 ~TlvliaVF~Pi~f~~G~~G~~f~~f~~tia~a~~~S~~vAltltP~L~a~lLk~  488 (1009)
T COG0841         434 ITLVLIAVFLPMAFMGGSTGELFRQFAITIAVAMLLSLLVALTLTPALCARLLKP  488 (1009)
T ss_pred             HHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCc
Confidence            9999999999877543 3  34699999999999999999999999998865554

>PRK09577 multidrug efflux protein; Reviewed

Probab=98.85  E-value=5.7e-08  Score=89.24  Aligned_cols=128  Identities=10%  Similarity=0.121  Sum_probs=108.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHHHHHHHHHHhHHHHH
Q psy8504          17 GILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRKTGLSIIL   96 (150)
Q Consensus        17 ~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~i~~~l~~~g~~i~~   96 (150)
                      .+.-++++-+++..++..+.++|.+++... .+--.+++|+-++|++++++..++..+++.+.+|++.++-++-.+|+++
T Consensus       892 plii~~~iPl~l~G~~~~l~l~g~~l~~~s-~~G~i~L~GivVnnaIllvd~~~~~~~~G~~~~~Ai~~a~~~R~RPIlm  970 (1032)
T PRK09577        892 PFAVMLVVPLGVIGAVLGVTLRGMPNDIYF-KVGLIATIGLSAKNAILIVEVAKDLVAQRMSLADAALEAARLRLRPIVM  970 (1032)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhCCCccHHH-HHHHHHHHHHHHcCcEEEeHHHHHHHHcCCCHHHHHHHHHHHhHhhHHH
Confidence            455566667777777777888999999863 4556688999999999999999877666679999999999999999999


Q ss_pred             HHHHHHHHHHHhccCC---cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy8504          97 SSVCKSVAFFSASLIP---IPALRVFNLQLAILILFNMFVLLLVYPAIVSLD  145 (150)
Q Consensus        97 tslt~~~~f~~~~~s~---~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~  145 (150)
                      |++|+++|+.-.+++.   -+..+-.++...-|++++.++++.+.|+++.+-
T Consensus       971 Ttltti~gllPla~~~g~g~~~~~pla~~iigGL~~sT~lTL~vvP~ly~l~ 1022 (1032)
T PRK09577        971 TSLAFGVGVLPLAFASGAASGAQIAIGTGVLGGVITATVLAVFLVPLFFVVV 1022 (1032)
T ss_pred             HHHHHHHHHHHHHHccCCChHHhcCchhhhhhhHHHHHHHHHHHHHHHHHHH
Confidence            9999999999988763   345567899999999999999999999998864

>KOG3664|consensus

Probab=98.80  E-value=1.9e-09  Score=96.34  Aligned_cols=137  Identities=25%  Similarity=0.456  Sum_probs=116.5

Q ss_pred             cchhHHHHHHHHHHHHHHHHHHHHH-HhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhc----------------
Q psy8504          12 SQAGVGILGCCLISFSILAGLGFCS-ILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTS----------------   74 (150)
Q Consensus        12 sk~~l~l~~~~~~~~s~~~~~G~~~-~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~----------------   74 (150)
                      +.....+.+...++++...+++++. .+|+++-+....+.-++++|||.||.|.+.+.|++..+                
T Consensus       347 ~s~f~tf~~~~~i~ls~~~a~f~y~vv~~i~~fp~lnlv~~vv~i~Ig~dd~fl~~~~~~~~~~r~l~~~~~~~~~~~~l  426 (999)
T KOG3664|consen  347 GSAFITFMSIVAICLSLGVALFFYAVVLGIDFFPYLNLVAVVVIIGIGADDVFLFLKIYERSNLRMLHTQSQSASFFLEL  426 (999)
T ss_pred             CcHHHHHHHHHHHHHHhhHHHhhheeeehhhhhhhhhhhheeeeeecccccceeehhhhhhhhHHHHHHHHhhccccccc
Confidence            4455688899999999999999999 48899999877777788999999999999999943111                


Q ss_pred             --CCCCHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccc
Q psy8504          75 --KNQFDSECTGIVLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLRR  148 (150)
Q Consensus        75 --~~~~~~~~i~~~l~~~g~~i~~tslt~~~~f~~~~~s~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~rR  148 (150)
                        ..+...+.....+++...+|.+|+++++.+|+...-++.+.+|.|+++++..+.++|..+.+.+||..++..++
T Consensus       427 ~~~~~ll~~~~~l~~~h~~~smfvt~~~t~~~f~~~~ssp~~~lrcfg~~A~~~v~~n~~~~v~~lPa~~SI~~~~  502 (999)
T KOG3664|consen  427 SDHTELLENVFALTLRHASFSMFVTSLTTACAFYANYSSPVIVLRCFGIFAGLTVVFNYLLVVLWLPASVSIALRL  502 (999)
T ss_pred             ccchhHHHHHHhhhhhhhhHHHHHHHHHHHhhhhhccccchHHHHHhccccccccccccceeEEeccchhhhhhcc
Confidence              01234456777889999999999999999999999999999999999999999999999999999987776543

>PRK10614 multidrug efflux system subunit MdtC; Provisional

Probab=98.76  E-value=1.5e-07  Score=86.52  Aligned_cols=130  Identities=10%  Similarity=0.065  Sum_probs=109.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcC-CCCHHHHHHHHHHHHhHHHH
Q psy8504          17 GILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSK-NQFDSECTGIVLRKTGLSII   95 (150)
Q Consensus        17 ~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~-~~~~~~~i~~~l~~~g~~i~   95 (150)
                      .+.-++++-++++.++..+.++|.+++.. ..+--..++|+-++|++.+++.+++..++ +.+.+|++.++-++--.|++
T Consensus       877 pliI~~tIPlal~G~~~~L~l~g~~l~~~-s~iG~i~L~GIvvnNaIllvd~~~~~~~~~g~~~~~Aii~A~~~RlRPIl  955 (1025)
T PRK10614        877 PLTILSTLPSAGVGALLALELFNAPFSLI-ALIGIMLLIGIVKKNAIMMVDFALEAQRNGNLTAQEAIFQACLLRFRPIM  955 (1025)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCCccHH-HHHHHHHHHHHHHcCeEEehHHHHHHHHhcCCCHHHHHHHHHHhhhhHHH
Confidence            44455667778888888888999999985 45666688999999999999988866544 55899999999888889999


Q ss_pred             HHHHHHHHHHHHhccCC---cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Q psy8504          96 LSSVCKSVAFFSASLIP---IPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLR  147 (150)
Q Consensus        96 ~tslt~~~~f~~~~~s~---~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~r  147 (150)
                      +|++|+++|+.-.++..   -+..+-+++...-|++++.++++++.|+++.+-.|
T Consensus       956 mTtlTti~GllPlal~~g~g~~~~~pmAi~iigGL~~sT~ltL~vvP~lY~~~~~ 1010 (1025)
T PRK10614        956 MTTLAALFGALPLVLSGGDGAELRQPLGITIVGGLVMSQLLTLYTTPVVYLFFDR 1010 (1025)
T ss_pred             HHHHHHHHHHHHHHHhcCCCHHHhCCchhhhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999988763   24578899999999999999999999999987633

>PRK08343 secD preprotein translocase subunit SecD; Reviewed

Probab=98.71  E-value=5.8e-07  Score=75.28  Aligned_cols=114  Identities=15%  Similarity=0.234  Sum_probs=93.3

Q ss_pred             HHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHHHHHHHHHHhHHHHHHHHHHHHH
Q psy8504          25 SFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRKTGLSIILSSVCKSVA  104 (150)
Q Consensus        25 ~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~i~~~l~~~g~~i~~tslt~~~~  104 (150)
                      ...++..+|++.++|.+++... ..--.+.+|+++||.+++.++.+++.. . +.++++.+.+++...+++.+++|+.++
T Consensus       296 ~~~v~~~lg~l~l~g~tLtl~~-IaGlIl~iGmaVD~~IvI~e~i~~~~~-~-~~~~ai~~g~~~a~~~Il~t~lTTiia  372 (417)
T PRK08343        296 LSEVIIILGFAALIGWQLDLAS-IAGIIAVIGTGVDDLIIITDEVLHEGK-V-PSRKVFLSRIKRAFFIIFAAAATTIAA  372 (417)
T ss_pred             HHHHHHHHHHHHHHCCCccHHH-HHHHHHHHHHeeeCcEEEhHHHHHhCC-c-cHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4557788999999999999864 356668899999999999987765422 2 678889999999999999999999999


Q ss_pred             HHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy8504         105 FFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAI  141 (150)
Q Consensus       105 f~~~~~s~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~  141 (150)
                      +..+.+....++|.|++...+|+++..+++=-+|--+
T Consensus       373 ~lpL~~~g~g~ikgfAitliiGii~s~~iTrp~~~~~  409 (417)
T PRK08343        373 MSPLAVMGLGDLKGFAITTILGVLIGVLITRPAYGDI  409 (417)
T ss_pred             HHHHHHhccccccchHHHHHHHHHHHHHHHHHHHHHH
Confidence            9988877777899999999999998766655444433

>PRK13023 bifunctional preprotein translocase subunit SecD/SecF; Reviewed

Probab=98.70  E-value=7.6e-07  Score=79.25  Aligned_cols=132  Identities=12%  Similarity=0.145  Sum_probs=111.1

Q ss_pred             chhHHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcC--CCCHHHHHHHHHHHH
Q psy8504          13 QAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSK--NQFDSECTGIVLRKT   90 (150)
Q Consensus        13 k~~l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~--~~~~~~~i~~~l~~~   90 (150)
                      |+-.++.+++...-=++.++|+++++|+++|... ...-..++|=++||.+++.+|.||+.+.  ..+.+|.+.+++.++
T Consensus       600 ~~~fav~AviALiHDvlivlg~fsl~~~e~~l~~-IAAlLTiiGYSiNDTIVVfDRIREn~~~~~~~~~~eivn~SInqT  678 (758)
T PRK13023        600 RWQLALGAVLSTLHDVVILSGMFIVFRMEFNLWS-VAAILTIIGYSLNDTVVIYDRVRENLRRYKSAPLPAIIDASINQT  678 (758)
T ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHhCceecHHH-HHHHHHHHhhcccCeEEEeHHHHHHHhhcCCCCHHHHHHHHHHHH
Confidence            3456888888888899999999999999999954 3444467889999999999999987642  347888899999888


Q ss_pred             hHHHHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy8504          91 GLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVSLD  145 (150)
Q Consensus        91 g~~i~~tslt~~~~f~~~~~s~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~  145 (150)
                      -.-...||+||.++..+..+-.-+.+|+|++...+|+++...-++.+=++++..-
T Consensus       679 l~RTI~TS~TTll~~l~L~ifGg~~i~~Fal~lliGiv~GtySSIfIAspl~~~~  733 (758)
T PRK13023        679 LSRTLLTSFVTFLAHVPLYAFGGSEIRMFALALSVGIIVASYSSIFIAAPLLVQF  733 (758)
T ss_pred             HHHhhHHHHHHHHHHHHHHHhcCccHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            8888999999999999999889999999999999999998887777766666543

>COG4258 Predicted exporter [General function prediction only]

Probab=98.68  E-value=9.9e-08  Score=81.89  Aligned_cols=111  Identities=20%  Similarity=0.289  Sum_probs=91.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHHHHHHHHHHhHHHHH
Q psy8504          17 GILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRKTGLSIIL   96 (150)
Q Consensus        17 ~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~i~~~l~~~g~~i~~   96 (150)
                      ++-.++++.+++.|.+....+.|+++|.+. .+.-.+++|+|+||...+-++=       +++.|...     +-.++.+
T Consensus       672 glrvllP~v~a~~~~~A~~a~aGvplnLfh-llal~LvlgvG~nYalFfs~~~-------~~~ae~lt-----tl~alal  738 (788)
T COG4258         672 GLRVLLPSVLALGCGLAVLAMAGVPLNLFH-LLALVLVLGVGINYALFFSNAG-------DPRAEPLT-----TLLALAL  738 (788)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHcCCchhHHH-HHHHHHHHHcccchhhhhhccc-------CCCCchHH-----HHHHHHH
Confidence            556778889999999999999999999985 4777899999999988774422       12222222     5667888


Q ss_pred             HHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy8504          97 SSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPA  140 (150)
Q Consensus        97 tslt~~~~f~~~~~s~~p~i~~F~i~a~l~v~~~~~~~~t~~pa  140 (150)
                      .++||.++|+...+|.+|.++.||+..+.|++.+|++.-...|.
T Consensus       739 a~ltTlltfgLLa~Sa~pvLssfG~tlasGiila~vlApL~mp~  782 (788)
T COG4258         739 AMLTTLLTFGLLAFSATPVLSSFGITLASGIILAFVLAPLAMPD  782 (788)
T ss_pred             HHHHHHHHHHHHHhcccHHHHHhhHHHHHHHHHHHHHHHhcCCC
Confidence            99999999999999999999999999999999999987765553

>COG0342 SecD Preprotein translocase subunit SecD [Intracellular trafficking and secretion]

Probab=98.66  E-value=8.2e-07  Score=75.95  Aligned_cols=133  Identities=17%  Similarity=0.186  Sum_probs=117.9

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHHHHHHHHHHhHHH
Q psy8504          15 GVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRKTGLSI   94 (150)
Q Consensus        15 ~l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~i~~~l~~~g~~i   94 (150)
                      ..|+.+.+...+.....+|+++++|..++.... .--.+-+|.++|.=+++.++-++|.+.+.+.+.++...++++...|
T Consensus       366 ~~Gvia~ial~~n~~lil~vls~lgatLtLpgI-AGiILtIGmaVDaNVlI~ERIrEElr~G~s~~~ai~~G~~rAf~tI  444 (506)
T COG0342         366 LAGVIAAIALGLNGVLILAVLSLLGATLTLPGI-AGIILTIGMAVDANVLIFERIREELRNGKSVLSAIDAGFKRAFSTI  444 (506)
T ss_pred             HhHHHHHHHHHHHHHHHHHHHHHhcccccchhh-hHHHHhhhhcccccEEeeHHHHHHHhcCccHHHHHHHHHHHHHHHH
Confidence            457778888888999999999999999999643 4455788889999999999999999888799999999999999999


Q ss_pred             HHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccc
Q psy8504          95 ILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLRR  148 (150)
Q Consensus        95 ~~tslt~~~~f~~~~~s~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~rR  148 (150)
                      .-+.+||.++=..+..-..-++|-|++..++|++...+..+++.-.++.+-.+|
T Consensus       445 ~DsN~TTlia~~~L~~~GtG~vKGFA~Tl~lGi~~smfta~~~tr~l~~~~~~~  498 (506)
T COG0342         445 LDSNATTLIAAAILFALGTGPVKGFAVTLILGILTSMFTAIPVTRLLLNLLVGR  498 (506)
T ss_pred             HHhchHHHHHHHHHHHhccCCchHHHHHHHHHHHHHhhhhHHHHHHHHHHHhcc
Confidence            999999999988888889999999999999999999999999988887765443

>KOG1934|consensus

Probab=98.66  E-value=2.1e-07  Score=83.72  Aligned_cols=116  Identities=17%  Similarity=0.302  Sum_probs=102.7

Q ss_pred             HHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhc
Q psy8504          30 AGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRKTGLSIILSSVCKSVAFFSAS  109 (150)
Q Consensus        30 ~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~i~~~l~~~g~~i~~tslt~~~~f~~~~  109 (150)
                      ..+|.|.+.|.++++++ .+.-..-+|..+|..-|+.-+|.+.+.+. ++++|+..+++..|.|++-.+++|.+|...+.
T Consensus       717 GV~G~lslW~V~LDpIS-mi~iiMsIGFSVD~~AHi~yhy~~~~~~~-t~~~Rv~~aL~~vgwPv~Qa~lSTiL~v~pL~  794 (868)
T KOG1934|consen  717 GVFGFLSLWGVDLDPIS-MITIIMSIGFSVDFSAHVAYHYYQSRKSS-TPRERLRSALSAVGWPVLQAGLSTILGVLPLL  794 (868)
T ss_pred             hHhhhhHHhcCCccHHH-HHHHHHhCCceeeehhheeeeeEecCCCC-CHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHH
Confidence            56889999999999974 45555666777899999888887766544 89999999999999999999999999999999


Q ss_pred             cCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Q psy8504         110 LIPIPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLR  147 (150)
Q Consensus       110 ~s~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~r  147 (150)
                      +.+...++.|.=..-+.+.+..+--+.++|.+|++..+
T Consensus       795 ~V~sYmv~vF~KTv~LVv~~GllHGLv~LPviLs~f~~  832 (868)
T KOG1934|consen  795 FVPSYMVQVFFKTVVLVVTLGLLHGLVFLPVILSLFPP  832 (868)
T ss_pred             hchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCc
Confidence            99999999999999999999999999999999997653

>PF00873 ACR_tran: AcrB/AcrD/AcrF family; InterPro: IPR001036 The Escherichia coli acrA and acrB genes encode a multi-drug efflux system that is believed to protect the bacterium against hydrophobic inhibitors []

Probab=98.65  E-value=3e-07  Score=84.36  Aligned_cols=127  Identities=16%  Similarity=0.163  Sum_probs=107.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhc-CCCCHHHHHHHHHHHHhHHHHH
Q psy8504          18 ILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTS-KNQFDSECTGIVLRKTGLSIIL   96 (150)
Q Consensus        18 l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~-~~~~~~~~i~~~l~~~g~~i~~   96 (150)
                      +.-+.++-++++.++-.+.++|.+++.. ..+--..++|+-++|++.+++.+++.++ ++.+.+|++.++-++=-+|+++
T Consensus       890 liIm~~IPla~~G~~~~l~i~g~~l~~~-s~iG~i~L~GIvVnNaIllvd~~~~~~~~~g~~~~eAi~~a~~~RlRPIlm  968 (1021)
T PF00873_consen  890 LIIMLTIPLALIGVLLGLFITGQPLSFM-SLIGIIALIGIVVNNAILLVDFINELRKREGMPLEEAIIEAARSRLRPILM  968 (1021)
T ss_dssp             HHHHTTHHHHHHHHHHHHHHTTBEBSHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHH
T ss_pred             EEEEeccchhhHHHHHHHhhcccccccc-ceehHHHHHHHHHhhhHHHHHHHHHHhhhccccHHHHHHHHHHHHHHHHHH
Confidence            3444555567777777778899999996 4566678899999999999999999887 7778999999999999999999


Q ss_pred             HHHHHHHHHHHhccCCc---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy8504          97 SSVCKSVAFFSASLIPI---PALRVFNLQLAILILFNMFVLLLVYPAIVSLD  145 (150)
Q Consensus        97 tslt~~~~f~~~~~s~~---p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~  145 (150)
                      |++||++|+.-++++.-   +-.+-+++...-|++++.++++.+.|+++.+-
T Consensus       969 TtlTti~G~lPla~~~g~g~~~~~pla~~iigGL~~stllTL~vvP~ly~l~ 1020 (1021)
T PF00873_consen  969 TTLTTILGMLPLALGIGEGAEFWQPLAIVIIGGLLFSTLLTLIVVPVLYSLF 1020 (1021)
T ss_dssp             HHHHHHHHHHHHHTT-STTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhhhhccccccccccCCCccccCchhhHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            99999999999888753   56788999999999999999999999998753

The E. coli AcrB protein is a transporter that is energized by proton-motive force and that shows the widest substrate specificity among all known multidrug pumps, ranging from most of the currently used antibiotics, disinfectants, dyes, and detergents to simple solvents. The structure of ligand-free AcrB shows that it is a homotrimer of 110kDa per subunit. Each subunit contains 12 transmembrane helices and two large periplasmic domains (each exceeding 300 residues) between helices 1 and 2, and helices 7 and 8. X-ray analysis of the overexpressed AcrB protein demonstrated that the three periplasmic domains form, in the centre, a funnel-like structure and a connected narrow (or closed) pore. The pore is opened to the periplasm through three vestibules located at subunit interfaces. These vestibules were proposed to allow direct access of drugs from the periplasm as well as the outer leaflet of the cytoplasmic membrane. The three transmembrane domains of AcrB protomers form a large, 30A-wide central cavity that spans the cytoplasmic membrane and extends to the cytoplasm X-ray crystallographic structures of the trimeric AcrB pump from E. coli with four structurally diverse ligands demonstrated that three molecules of ligand bind simultaneously to the extremely large central cavity of 5000 cubic angstroms, primarily by hydrophobic, aromatic stacking and van der Waals interactions. Each ligand uses a slightly different subset of AcrB residues for binding. The bound ligand molecules often interact with each other, stabilising the binding. ; GO: 0005215 transporter activity, 0006810 transport, 0016020 membrane; PDB: 2V50_B 1T9U_A 2HRT_B 3NOC_A 3NOG_A 4DX7_A 1OYD_A 3AOB_A 1T9V_A 4DX6_B ....

>PRK12911 bifunctional preprotein translocase subunit SecD/SecF; Reviewed

Probab=98.55  E-value=3.1e-06  Score=78.19  Aligned_cols=137  Identities=14%  Similarity=0.158  Sum_probs=112.2

Q ss_pred             chhHHHHHHHHHHHHHHHHHHHHHHh-----CCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcC--CCCHHHHHHH
Q psy8504          13 QAGVGILGCCLISFSILAGLGFCSIL-----GIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSK--NQFDSECTGI   85 (150)
Q Consensus        13 k~~l~l~~~~~~~~s~~~~~G~~~~~-----G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~--~~~~~~~i~~   85 (150)
                      ++-.|+.+++..+-=++.++|+++++     |+++|... ...-.-++|-.++|++++.+|.|++.+.  ..+.+|-+.+
T Consensus      1256 EW~FAvgAVIALlHDVLItLGifsl~~f~lfgiEfdltf-IAALLTIIGYSINDTIVVFDRIRENlr~~~~~~l~eIIN~ 1334 (1403)
T PRK12911       1256 EWRYAFSAICALIHDLLATCAVLVALHFFLQKIQIDLQA-IGALMTVLGYSLNNTLIIFDRIREDRQEKLFTPMPILIND 1334 (1403)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCeEEcHHH-HHHHHHHhhccccCeEEEeHHHHHHHhhccCCCHHHHHHH
Confidence            45678888888888888888888765     89999853 3444457888999999999999987642  3467777888


Q ss_pred             HHHHHhHHHHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccC
Q psy8504          86 VLRKTGLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLRRSR  150 (150)
Q Consensus        86 ~l~~~g~~i~~tslt~~~~f~~~~~s~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~rR~e  150 (150)
                      ++.++-.-.+.||+||.+...++.+-.-+.+++|++.+.+|+++...-++..=++++.+-.+|++
T Consensus      1335 SINQTLsRTI~TSlTTLLallaLllFGG~sI~~FAlALLIGIIvGTYSSIFIASPLll~l~~~~~ 1399 (1403)
T PRK12911       1335 ALQKTLGRTVMTTATTLSVLLILLFVGGGSIFNFAFIMTIGILLGTLSSLYIAPPLLLFMVRKEE 1399 (1403)
T ss_pred             HHHHhhhhhhHHHHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccch
Confidence            88888777799999999999999988889999999999999999998888888888776666553

>COG4258 Predicted exporter [General function prediction only]

Probab=98.35  E-value=6.5e-06  Score=70.99  Aligned_cols=118  Identities=18%  Similarity=0.227  Sum_probs=84.1

Q ss_pred             HHHHHHHHHHHHHHHHHHH-HhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHHHHHHHHHHhHHHHH
Q psy8504          18 ILGCCLISFSILAGLGFCS-ILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRKTGLSIIL   96 (150)
Q Consensus        18 l~~~~~~~~s~~~~~G~~~-~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~i~~~l~~~g~~i~~   96 (150)
                      +.|++++..+..++.--.. .+| +...+| .+.-+-++|..+||.+++..+.++   .+ ...+. ++..++..|.+..
T Consensus       284 lLgvls~gig~laglvAt~laFg-~lH~lT-l~fg~slIGeAvDYsI~yfv~h~~---pG-~~~dp-~rsaaev~paL~l  356 (788)
T COG4258         284 LLGVLSIGIGALAGLVATLLAFG-ELHLLT-LVFGMSLIGEAVDYSIYYFVEHMV---PG-NDVDP-WRSAAEVRPALLL  356 (788)
T ss_pred             HHHHHHhhHHHHHHHHHHHHHHh-hHhHHH-HHhhhhheeecccceeeehhhccC---CC-CCCCh-hHHHHHhhHHHHH
Confidence            3445555444444333333 222 333434 356667889999999987553332   12 11222 2337889999999


Q ss_pred             HHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy8504          97 SSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIV  142 (150)
Q Consensus        97 tslt~~~~f~~~~~s~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L  142 (150)
                      ..+|++++|.++.+++.|.+|+.++|+..|+..+++....++|.+.
T Consensus       357 allTtvlayatmlfs~fpgLrQLa~faivGL~aAaltvrfllP~L~  402 (788)
T COG4258         357 ALLTTVLAYATMLFSPFPGLRQLAIFAIVGLLAAALTVRFLLPWLC  402 (788)
T ss_pred             HHHHHHHHHHHHHhcCChhHHHHHHHHHHHHHHHHHHHHHhhhhhc
Confidence            9999999999999999999999999999999999999999999875

>COG0841 AcrB Cation/multidrug efflux pump [Defense mechanisms]

Probab=97.92  E-value=3.3e-05  Score=71.07  Aligned_cols=130  Identities=16%  Similarity=0.175  Sum_probs=108.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHHHHHHHHHHhHHHHH
Q psy8504          17 GILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRKTGLSIIL   96 (150)
Q Consensus        17 ~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~i~~~l~~~g~~i~~   96 (150)
                      .+.-+.++-++++.++.-..+.|.+++.. ..+--..++|+-.+|++.+++..++..+++.++.|++-++-+.=-+|+++
T Consensus       876 P~~Il~tvPla~iGa~~~L~l~g~~~~i~-a~IGli~LiGiv~KNaIllVefa~~~~~~G~~~~eAiieA~~~RlRPIlM  954 (1009)
T COG0841         876 PFIVMLTVPLGLLGALLALLLTGLPLDVY-AQIGLITLIGLVAKNAILIVEFANELRAEGLSLREAILEAARLRLRPILM  954 (1009)
T ss_pred             hhHHHhhhhHHHHHHHHHHHHhCCCCcHH-HHHHHHHHHHHHhcCcEEEEhHHHHHHHcCCCHHHHHHHHhhhhhhhHHH
Confidence            34445566677888888888999999996 45667788999999999999999988887789999999999999999999


Q ss_pred             HHHHHHHHHHHhccCCcH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Q psy8504          97 SSVCKSVAFFSASLIPIP---ALRVFNLQLAILILFNMFVLLLVYPAIVSLDLR  147 (150)
Q Consensus        97 tslt~~~~f~~~~~s~~p---~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~r  147 (150)
                      |++++.+|..-++++.-.   .-+-.|+..--|++++-++++.+.|.++.+-.|
T Consensus       955 Ttla~ilG~iPLal~~g~Ga~~r~~lgi~vigGl~~sT~LtL~~vPv~Y~~~~~ 1008 (1009)
T COG0841         955 TSLAAILGVLPLALSTGAGAESRQPLGIAVVGGLLVATVLTLFVVPVFYVLVER 1008 (1009)
T ss_pred             HHHHHHHhhhhhhhcccccccccCcceEEEechhHHHHHHHHhhhhhhheeeec
Confidence            999999998777665444   445677778888999999999999999887653

>COG2409 Predicted drug exporters of the RND superfamily [General function prediction only]

Probab=97.85  E-value=0.00014  Score=66.62  Aligned_cols=125  Identities=15%  Similarity=0.161  Sum_probs=100.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHH-----HhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHHHHHHHHHHh
Q psy8504          17 GILGCCLISFSILAGLGFCS-----ILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRKTG   91 (150)
Q Consensus        17 ~l~~~~~~~~s~~~~~G~~~-----~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~i~~~l~~~g   91 (150)
                      ....+-.+..+..+++|+..     .+|.+.....-......++++|.||...++++++|+.+.+ ..++ +.++++..|
T Consensus       784 ~~~li~~v~~s~~~a~~l~~~~~~~~lg~~~~w~vp~~~f~~L~avG~dY~~~li~r~ree~~~g-~~~~-ii~a~~~tg  861 (937)
T COG2409         784 PAVLVGTVLLSYGAALGLSVLIWQHILGIELHWLVPALSFVVLLAVGSDYNILLISRLREEIGAG-LRTG-IIRAMRGTG  861 (937)
T ss_pred             HHHHHHHHHHHHHHHhhhhhhhhhhhcCcceeeehHHHHHHHHHHcCchHHHHHHHHHHHHhccc-cchh-hhhhhccCC
Confidence            44445556778888888754     4566655532222233678899999999999999999888 4666 999999999


Q ss_pred             HHHHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy8504          92 LSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVS  143 (150)
Q Consensus        92 ~~i~~tslt~~~~f~~~~~s~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~  143 (150)
                      ..++...+.-+..|+.+..++++.+++-|...++|++++-++.-+++++-+.
T Consensus       862 ~Vit~ag~i~~~t~~~l~~s~~~~l~qig~~i~~g~l~dt~v~r~~~vPa~~  913 (937)
T COG2409         862 GVITAAGLIFAATMASLVFSDLRVLGQIGTTIGLGLLLDTLVVRPFMVPAIA  913 (937)
T ss_pred             chHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHH
Confidence            9999999999999999999999999999999999999999888877765544

>KOG1935|consensus

Probab=97.78  E-value=0.00026  Score=63.29  Aligned_cols=134  Identities=17%  Similarity=0.247  Sum_probs=111.7

Q ss_pred             chhHHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHHHHHHHHHHhH
Q psy8504          13 QAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRKTGL   92 (150)
Q Consensus        13 k~~l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~i~~~l~~~g~   92 (150)
                      .+|-+...+.++.....--+|+|...|++++++. .++....+|+|++-.+|..-.|--.-.   ++..|...++.+.-.
T Consensus       941 npWaA~Liv~sL~~mt~eL~G~Mgl~GIKlS~i~-aViLi~sVGigveFtvhv~l~FlTs~G---~rs~R~s~al~~~F~ 1016 (1143)
T KOG1935|consen  941 NPWAAGLIVCSLAIMTVELFGFMGLLGIKLSAIP-AVILIASVGIGVEFTVHVALGFLTALG---TRSQRASSALQHMFV 1016 (1143)
T ss_pred             CCcccHHHHHHHHHHHHHHHHHHHhhceeeccch-hHHHHHHhhhchhhhHHHHHHHHHhhc---cchhHhHHhhhhcch
Confidence            4555666666666777778899999999999975 688888999999999998887764333   567788899999999


Q ss_pred             HHHHHHHHHHHHHHHhccCCcHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccC
Q psy8504          93 SIILSSVCKSVAFFSASLIPIPAL-RVFNLQLAILILFNMFVLLLVYPAIVSLDLRRSR  150 (150)
Q Consensus        93 ~i~~tslt~~~~f~~~~~s~~p~i-~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~rR~e  150 (150)
                      +...-++++..+-+.++.++..-+ |.|+..+.+-+....+=-+.++|-+|++.+-|.|
T Consensus      1017 Pv~hG~lST~lgv~MLs~S~FdFvVryFf~~ltvl~~lGv~ngL~~lPVlLS~~GP~pE 1075 (1143)
T KOG1935|consen 1017 PVSHGALSTLLGVLMLSFSEFDFVVRYFFAVLTVLTCLGVLNGLVVLPVLLSLVGPKPE 1075 (1143)
T ss_pred             hhhhhHHHHHhhHheeccCchhHHHHHHHHHHHHHHHHHHhccchHHHHHHHhcCCCcc
Confidence            999999999999999998988765 9999999988888888889999999998765544

>COG3696 Putative silver efflux pump [Inorganic ion transport and metabolism]

Probab=96.91  E-value=0.0099  Score=54.05  Aligned_cols=130  Identities=14%  Similarity=0.214  Sum_probs=90.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHH-hhhhc---CCCCHHHHHHHHHHHHhH
Q psy8504          17 GILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTF-AKYTS---KNQFDSECTGIVLRKTGL   92 (150)
Q Consensus        17 ~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~-~~~~~---~~~~~~~~i~~~l~~~g~   92 (150)
                      ++....++-+|++.++-+|..+|++-|.++. .--.+-+|.=+|+++..++.- ++-.+   ++.++-+.+.++-+++++
T Consensus       361 Ali~~~~lPLS~li~f~~M~~~gi~~NlMSL-GGlAIaiG~~VD~AIV~vEN~~r~L~~~q~~~~~r~~~I~~a~~EV~~  439 (1027)
T COG3696         361 ALIVIISLPLSLLIAFIVMNFFGISANLMSL-GGLAIAIGAMVDAAIVVVENAHRRLEENQHTNATRFHVIYDASKEVGR  439 (1027)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHcCCcchhhcc-cchheeeeeeecceEEeehhHHHHhhhhccCCcchHHHHHHHHHHhhh
Confidence            5666777789999999999999999999643 322345555579987776544 33221   223555667888899999


Q ss_pred             HHHHHHHHHHHHHHH-hccCCcH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Q psy8504          93 SIILSSVCKSVAFFS-ASLIPIP--ALRVFNLQLAILILFNMFVLLLVYPAIVSLDLR  147 (150)
Q Consensus        93 ~i~~tslt~~~~f~~-~~~s~~p--~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~r  147 (150)
                      |+.+..+.-.+.|.- .+++..+  ..+-.+..-.+++..+.++++|+.|++.++..|
T Consensus       440 ~v~f~~lII~vvf~PIFtL~GvEGklF~Pma~t~~~al~~a~llsiT~iPal~~~~i~  497 (1027)
T COG3696         440 PVFFGLLIITVVFLPIFTLTGVEGKLFAPLAFTKTYALLAALLLSITFIPALMAYLIR  497 (1027)
T ss_pred             hHhhhhhhheeehhhhheeccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            999999877777765 2233322  123345566666777788999999999887655

>COG3696 Putative silver efflux pump [Inorganic ion transport and metabolism]

Probab=96.50  E-value=0.0097  Score=54.10  Aligned_cols=131  Identities=11%  Similarity=0.120  Sum_probs=102.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHHHHHHHHHHhHHHHH
Q psy8504          17 GILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRKTGLSIIL   96 (150)
Q Consensus        17 ~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~i~~~l~~~g~~i~~   96 (150)
                      ++.-...+-++.+.++-.+++.|.+++.. ..+-+.=+.|+.+.|.+.+++.+++..+++.+.+|++.+.=-+--.|+++
T Consensus       888 alli~~~lP~Al~GGv~~l~l~G~~lSva-s~vGFiaL~GVA~lnglvmv~~~~~~~~~~~~l~eaI~~GA~~Rvrp~lM  966 (1027)
T COG3696         888 ALLIFSNLPFALIGGVIALALRGFNLSVA-AAVGFIALFGVAVLNGVVMVSYIRQALQQGMSLKEAIMEGAVERVRPKLM  966 (1027)
T ss_pred             hHHHHhcCcHHHhhhHHHhhhcCceEeeh-hhhhHHHHHHHHHhcchhhHHHHHHHHHcCCcHHHHHHHhHHHHhhHHHH
Confidence            33444445567777777888999999985 33444457789999999999999988877779999999844444667799


Q ss_pred             HHHHHHHHHHHhccC---CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccc
Q psy8504          97 SSVCKSVAFFSASLI---PIPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLRR  148 (150)
Q Consensus        97 tslt~~~~f~~~~~s---~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~rR  148 (150)
                      |.++..+|+.-..++   .-+..|-.+..+-=|++-+-++++..+|+.+.+..+|
T Consensus       967 Ta~~~~lGlvPi~~~~g~GsEV~~plA~vviGGl~tst~LtL~vlPaly~~~~~~ 1021 (1027)
T COG3696         967 TALVILLGLLPILWATGAGSEVMRPLAIVVIGGLVTSTALTLLVLPALYALFGKR 1021 (1027)
T ss_pred             HHHHHHHhhhhhhhhcCCchHhhccchheeEcceeHHHHHHHHHHHHHHHHHHHh
Confidence            999999998775543   5666777888888888999999999999999876554

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

No hit with e-value below 0.005

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	150
3aqp_A	741	Probable secdf protein-export membrane protein; tr	99.73
3aqp_A	741	Probable secdf protein-export membrane protein; tr	99.65
4dx5_A	1057	Acriflavine resistance protein B; multidrug efflux	99.59
2v50_A	1052	Multidrug resistance protein MEXB; DDM, RND, membr	99.58
4dx5_A	1057	Acriflavine resistance protein B; multidrug efflux	99.56
2v50_A	1052	Multidrug resistance protein MEXB; DDM, RND, membr	99.49
3ne5_A	1054	Cation efflux system protein CUSA; transmembrane h	99.46
3ne5_A	1054	Cation efflux system protein CUSA; transmembrane h	99.44

>3aqp_A Probable secdf protein-export membrane protein; translocon, cell membrane, MEM protein transport, translocation, transmembrane, transport; 3.30A {Thermus thermophilus} PDB: 2rrn_A

Probab=99.73  E-value=4.4e-17  Score=142.85  Aligned_cols=134  Identities=18%  Similarity=0.160  Sum_probs=124.8

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHHHHHHHHHHhHH
Q psy8504          14 AGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRKTGLS   93 (150)
Q Consensus        14 ~~l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~i~~~l~~~g~~   93 (150)
                      +..++...+++.+++++++|++.++|.++|..+ ...+.+.+|+++||.+|+.++|+++.+++.++++++.+++++.+++
T Consensus       295 ~~~~li~~~~l~~~i~~~~~~l~l~g~~l~l~~-i~glil~iGi~VD~~I~i~eri~e~~~~g~~~~~Ai~~~~~~~~~~  373 (741)
T 3aqp_A          295 PHLGLVASLGLLYTSALILGLLSGLGATLTLPG-IAGLVLTLGAAVDGNVLSFERIKEELRAGKKLRQAIPEGFRHSTLT  373 (741)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHCCBCCHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHCCCccHHH-HHHHHHHHHHHHhchhhhHHHHHHHHHcCCCHHHHHHHHHHHHHHH
Confidence            446788889999999999999999999999975 5778899999999999999999998887779999999999999999


Q ss_pred             HHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccc
Q psy8504          94 IILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLRR  148 (150)
Q Consensus        94 i~~tslt~~~~f~~~~~s~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~rR  148 (150)
                      ++.+++|++++|..+.+.+.+.+|.||+..++|++++++.++++.|+++.+..||
T Consensus       374 Il~s~lTt~i~f~~L~~~~~~~~~~fa~~~~~gi~~s~~~al~~~P~l~~~~~~~  428 (741)
T 3aqp_A          374 IMDVNIAHLLAAAALYQYATGPVRGFAVILAIGVVASVFSNLVFSRHLLERLADR  428 (741)
T ss_dssp             HHHHHHHHHHHHHHHHHTCCTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHcccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            9999999999999999999999999999999999999999999999999876554

>3aqp_A Probable secdf protein-export membrane protein; translocon, cell membrane, MEM protein transport, translocation, transmembrane, transport; 3.30A {Thermus thermophilus} PDB: 2rrn_A

Probab=99.65  E-value=9e-16  Score=134.55  Aligned_cols=136  Identities=16%  Similarity=0.235  Sum_probs=122.0

Q ss_pred             chhHHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcC--CCCHHHHHHHHHHHH
Q psy8504          13 QAGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSK--NQFDSECTGIVLRKT   90 (150)
Q Consensus        13 k~~l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~--~~~~~~~i~~~l~~~   90 (150)
                      ++..++..++++.+++.+++|++.++|.+++..+ .+....++|+++||++|+.++|+++.++  +.+.+|++.+++++.
T Consensus       590 s~~~~l~~l~~l~~~~~~~~g~l~l~g~~l~~~~-i~~~l~liGisvd~~I~l~~r~re~~~~~~g~~~~eav~~a~~~~  668 (741)
T 3aqp_A          590 DWTFGVASILAVAHDVAIVAGMYSLLGLEFSIPT-IAALLTIVGYSINDSIVVSDRIRENQKLLRHLPYAELVNRSINQT  668 (741)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHTCCCCHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhcCccHHH-HHHHHHHHHHhhcceEEehHHHHHHHHhcCCCCHHHHHHHHHHHH
Confidence            4566888899999999999999999999999864 3555567999999999999999987753  348999999999999


Q ss_pred             hHHHHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccc
Q psy8504          91 GLSIILSSVCKSVAFFSASLIPIPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLRRS  149 (150)
Q Consensus        91 g~~i~~tslt~~~~f~~~~~s~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~rR~  149 (150)
                      +++++.|++|++++|..+.+++.+.++.||+..+.|++++.+..+++.|+++.+-.||+
T Consensus       669 ~~~il~Tsltt~~g~~~L~~~g~~~~~~~g~~~~~Gl~~~~~~sl~l~Pal~~~~~~~~  727 (741)
T 3aqp_A          669 LSRTVMTSLTTLLPILALLFLGGSVLRDFALAIFVGIFVGTYSSIYVVSALVVAWKNRR  727 (741)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            99999999999999999999999999999999999999999999999999998766554

>4dx5_A Acriflavine resistance protein B; multidrug efflux protein, membrane protein, transpor; HET: LMT OCT D10 HEX D12 MIY C14 LMU DD9 UND GOL; 1.90A {Escherichia coli} PDB: 2hrt_A* 2gif_A* 4dx7_A* 4dx6_A* 3noc_A* 1oy6_A* 1oy9_A* 1oyd_A* 1oy8_A* 1oye_A 2rdd_A* 2w1b_A* 3d9b_A 2i6w_A* 3nog_A* 1t9x_A* 1t9t_A* 1t9v_A* 1t9w_A* 1t9u_A* ...

Probab=99.59  E-value=9.9e-15  Score=131.84  Aligned_cols=134  Identities=16%  Similarity=0.266  Sum_probs=120.8

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcC-CCCHHHHHHHHHHHHhH
Q psy8504          14 AGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSK-NQFDSECTGIVLRKTGL   92 (150)
Q Consensus        14 ~~l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~-~~~~~~~i~~~l~~~g~   92 (150)
                      +..++..++++.++++++++++.++|.++|..+ .+...+.+|+++||+++++++++++.++ +.+++|++.++.++.++
T Consensus       362 ~~~~li~~~~ip~~~~~~~~~l~~~g~~ln~~s-l~gl~~~iGi~vd~aIv~~~~~~~~~~~~g~~~~~A~~~a~~~~~~  440 (1057)
T 4dx5_A          362 FRATLIPTIAVPVVLLGTFAVLAAFGFSINTLT-MFGMVLAIGLLVDDAIVVVENVERVMAEEGLPPKEATRKSMGQIQG  440 (1057)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTTCCBCHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHhCCcHHHHH-HHHHHHHeeccccceEEeHHHHHHHHHhcCCCHHHHHHHHHHHHHH
Confidence            344677888899999999999999999999975 4677789999999999999999987653 66999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhccCC---cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccc
Q psy8504          93 SIILSSVCKSVAFFSASLIP---IPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLRR  148 (150)
Q Consensus        93 ~i~~tslt~~~~f~~~~~s~---~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~rR  148 (150)
                      |+++|++|++++|....+++   -+..+.|++..+.|++++++.++++.|+++++..||
T Consensus       441 pi~~t~ltt~~~f~pl~~~~g~~~~~~~~~a~~~~~gl~~s~~~~l~~~P~l~~~~~~~  499 (1057)
T 4dx5_A          441 ALVGIAMVLSAVFVPMAFFGGSTGAIYRQFSITIVSAMALSVLVALILTPALCATMLKP  499 (1057)
T ss_dssp             HHHHHHHHHHHHHSGGGGCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHHHHHHHHccCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            99999999999999999988   677899999999999999999999999999876554

>2v50_A Multidrug resistance protein MEXB; DDM, RND, membrane, detergent, transport, cell membrane, transmembrane, membrane protein; HET: LMT; 3.00A {Pseudomonas aeruginosa PA01}

Probab=99.58  E-value=4.5e-15  Score=134.10  Aligned_cols=132  Identities=17%  Similarity=0.285  Sum_probs=119.6

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhh-cCCCCHHHHHHHHHHHHhHH
Q psy8504          15 GVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYT-SKNQFDSECTGIVLRKTGLS   93 (150)
Q Consensus        15 ~l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~-~~~~~~~~~i~~~l~~~g~~   93 (150)
                      ..++..++++.++++++++++.++|.++|..+ .+.+.+++|+++||++|++++|+++. +++.+++|++.++.++.++|
T Consensus       363 ~~~li~~~~ip~s~~~~~~~l~~~g~~ln~~s-~~gl~~~iGi~vd~aI~~~~~~~~~~~~~g~~~~~A~~~a~~~~~~p  441 (1052)
T 2v50_A          363 RATLIPTIAVPVVLLGTFGVLAAFGFSINTLT-MFGMVLAIGLLVDDAIVVVENVERVMAEEGLSPREAARKSMGQIQGA  441 (1052)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTCCCCHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHTTSST
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHH-HHHHHHHHHhhccceEEEehHHHHHHHhcCCCHHHHHHHHHHHHHHH
Confidence            34777788889999999999999999999975 57778899999999999999998876 55668999999999999999


Q ss_pred             HHHHHHHHHHHHHHhccCCc---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Q psy8504          94 IILSSVCKSVAFFSASLIPI---PALRVFNLQLAILILFNMFVLLLVYPAIVSLDLR  147 (150)
Q Consensus        94 i~~tslt~~~~f~~~~~s~~---p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~r  147 (150)
                      +++|++|++++|....+++.   +..+.||+..+.|++++++.++++.|+++++..|
T Consensus       442 il~t~ltt~~~f~pl~~~~~~~g~~~~~~~~~~~~gl~~s~~~~l~l~P~l~~~~~~  498 (1052)
T 2v50_A          442 LVGIAMVLSAVFLPMAFFGGSTGVIYRQFSITIVSAMALSVIVALILTPALCATMLK  498 (1052)
T ss_dssp             THHHHHHHHHTTHHHHTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            99999999999999999988   5899999999999999999999999999987543

>4dx5_A Acriflavine resistance protein B; multidrug efflux protein, membrane protein, transpor; HET: LMT OCT D10 HEX D12 MIY C14 LMU DD9 UND GOL; 1.90A {Escherichia coli} PDB: 2hrt_A* 2gif_A* 4dx7_A* 4dx6_A* 3noc_A* 1oy6_A* 1oy9_A* 1oyd_A* 1oy8_A* 1oye_A 2rdd_A* 2w1b_A* 3d9b_A 2i6w_A* 3nog_A* 1t9x_A* 1t9t_A* 1t9v_A* 1t9w_A* 1t9u_A* ...

Probab=99.56  E-value=2.1e-14  Score=129.67  Aligned_cols=132  Identities=13%  Similarity=0.123  Sum_probs=119.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhh-hcCCCCHHHHHHHHHHHHhHHH
Q psy8504          16 VGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKY-TSKNQFDSECTGIVLRKTGLSI   94 (150)
Q Consensus        16 l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~-~~~~~~~~~~i~~~l~~~g~~i   94 (150)
                      .++..++++.++++.+++.+.++|.++|..+ .+...+++|+++||+++++++++++ .+++.+.+|++.++.++.++++
T Consensus       897 ~~l~~l~~i~~~~~~~~~~l~~~g~~l~~~~-~~g~i~l~Gi~vd~~I~lv~~~~~~~~~~g~~~~~Ai~~a~~~~~rpi  975 (1057)
T 4dx5_A          897 IPFSVMLVVPLGVIGALLAATFRGLTNDVYF-QVGLLTTIGLSAKNAILIVEFAKDLMDKEGKGLIEATLDAVRMRLRPI  975 (1057)
T ss_dssp             THHHHHTTHHHHHHHHHHHHHHHTCCBCHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCCCccHHH-HHHHHHHHHHHHcCeEEEehHHhHHHHHcCCCHHHHHHHHHHHhHhHH
Confidence            4666777888999999999999999999964 4666688999999999999999998 7777799999999999999999


Q ss_pred             HHHHHHHHHHHHHhccCC---cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccc
Q psy8504          95 ILSSVCKSVAFFSASLIP---IPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLRR  148 (150)
Q Consensus        95 ~~tslt~~~~f~~~~~s~---~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~rR  148 (150)
                      ++|++|+++||..+.+++   .+.++.||+..+.|++++.++.+++.|+++.+-.+|
T Consensus       976 l~t~ltt~~g~~pl~~~~g~g~~~~~~~g~~~~~Gl~~s~~~tl~~~P~l~~~~~~~ 1032 (1057)
T 4dx5_A          976 LMTSLAFILGVMPLVISTGAGSGAQNAVGTGVMGGMVTATVLAIFFVPVFFVVVRRR 1032 (1057)
T ss_dssp             HHHHHHHHHHTHHHHTCCSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCchhhhcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            999999999999999985   899999999999999999999999999999876543

>2v50_A Multidrug resistance protein MEXB; DDM, RND, membrane, detergent, transport, cell membrane, transmembrane, membrane protein; HET: LMT; 3.00A {Pseudomonas aeruginosa PA01}

Probab=99.49  E-value=6.4e-14  Score=126.62  Aligned_cols=130  Identities=11%  Similarity=0.062  Sum_probs=114.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcCCCCHHHHHHHHHHHHhHHHHH
Q psy8504          17 GILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSKNQFDSECTGIVLRKTGLSIIL   96 (150)
Q Consensus        17 ~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~~~~~~~~i~~~l~~~g~~i~~   96 (150)
                      ++..++++.++++.+++.+.++|.+++..+ .+...+++|+++||++|++++++++.+++.+.+|++.++.++.+.++++
T Consensus       897 ~l~il~~ip~~~~g~~~~~~~~g~~l~~~~-~~g~~~l~Gi~vd~~I~lv~~~~~~~~~g~~~~~Ai~~a~~~~~rpil~  975 (1052)
T 2v50_A          897 PFSVMLVVPLGVIGALLATSMRGLSNDVFF-QVGLLTTIGLSAKNAILIVEFAKELHEQGKGIVEAAIEACRMRLRPIVM  975 (1052)
T ss_dssp             THHHHTHHHHHHTTHHHHHHHTTCCBSHHH-HHHHHHHHHHHHHHHHHHHHHHHHTTTTTCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCCccHHH-HHHHHHHHHHHHcCeEEEeehHHHHHHcCCCHHHHHHHHHHHhHHHHHH
Confidence            455566777888999999999999999864 4666788999999999999999988777779999999999999999999


Q ss_pred             HHHHHHHHHHHhccCCc---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Q psy8504          97 SSVCKSVAFFSASLIPI---PALRVFNLQLAILILFNMFVLLLVYPAIVSLDLR  147 (150)
Q Consensus        97 tslt~~~~f~~~~~s~~---p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~r  147 (150)
                      |++|+++||..+.+++.   +..+.+|+..+.|++++.+..+++.|+++.+..|
T Consensus       976 t~~tt~~g~~pl~~~~~~g~~~~~~~~~~~~~Gl~~s~~~~l~~~P~l~~~~~~ 1029 (1052)
T 2v50_A          976 TSLAFILGVVPLAISTGAGSGSQHAIGTGVIGGMVTATVLAIFWVPLFYVAVST 1029 (1052)
T ss_dssp             HHHHHHTTSHHHHTCCSTTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHTC----
T ss_pred             HHHHHHHHHHHHHhcCCCChhhhcccHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            99999999999999887   8899999999999999999999999999986554

>3ne5_A Cation efflux system protein CUSA; transmembrane helix, metal transport; 2.90A {Escherichia coli} PDB: 3k07_A 3k0i_A 3kso_A 3kss_A 3t53_A 3t51_A 3t56_A 4dop_A 4dnt_A

Probab=99.46  E-value=1.3e-13  Score=124.50  Aligned_cols=134  Identities=10%  Similarity=0.028  Sum_probs=116.8

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhc------C-----CCCHHHHH
Q psy8504          15 GVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTS------K-----NQFDSECT   83 (150)
Q Consensus        15 ~l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~------~-----~~~~~~~i   83 (150)
                      ..++..++++.+++++++|.+.++|.++|..+ .+...+++|+++||++++++++++..+      +     +.+.+|++
T Consensus       902 ~~~l~il~~ip~~~~g~~~~l~l~g~~l~~~~-~~g~i~l~Gi~vd~~I~lv~~~~~~~~~~~~~~~~~~~~g~~~~~Ai  980 (1054)
T 3ne5_A          902 GEALLIISSVPFALVGGIWLLWWMGFHLSVAT-GTGFIALAGVAAEFGVVMLMYLRHAIEAVPSLNNPQTFSEQKLDEAL  980 (1054)
T ss_dssp             HHHHHHHTTSHHHHHHHHHHHHHHTCCBCHHH-HHHHHHHHHHHHHHHHHHHHHHHHHTTSTHHHHTTTSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHCCCccHHH-HHHHHHHHHHHHhhhhhHHHHHHHHHHhhhhhhcccccCCCCHHHHH
Confidence            34677778888999999999999999999964 566678899999999999977766544      2     34778999


Q ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHhccC---CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccc
Q psy8504          84 GIVLRKTGLSIILSSVCKSVAFFSASLI---PIPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLRRS  149 (150)
Q Consensus        84 ~~~l~~~g~~i~~tslt~~~~f~~~~~s---~~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~rR~  149 (150)
                      .++.++.++++++|++|+++||..+.++   ..+..+.||+..+.|++++.+.++++.|+++.+-.+|.
T Consensus       981 ~~a~~~~~rpil~t~ltti~g~~pl~~~~g~g~~~~~~l~~~~~~Gl~~s~~~tl~v~P~l~~~~~~~~ 1049 (1054)
T 3ne5_A          981 YHGAVLRVRPKAMTVAVIIAGLLPILWGTGAGSEVMSRIAAPMIGGMITAPLLSLFIIPAAYKLMWLHR 1049 (1054)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHSCCSTTHHHHHHTTHHHHHHHHHHHHHHHHHTHHHHHHHTTTC
T ss_pred             HHHHHHhHhHHHHHHHHHHHHHHHHHhhcCCChHHhccCHHHHHhHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            9999999999999999999999999998   47889999999999999999999999999998765543

>3ne5_A Cation efflux system protein CUSA; transmembrane helix, metal transport; 2.90A {Escherichia coli} PDB: 3k07_A 3k0i_A 3kso_A 3kss_A 3t53_A 3t51_A 3t56_A 4dop_A 4dnt_A

Probab=99.44  E-value=8.2e-14  Score=125.85  Aligned_cols=134  Identities=10%  Similarity=0.113  Sum_probs=118.1

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhhcC-----------CCCHHHH
Q psy8504          14 AGVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYTSK-----------NQFDSEC   82 (150)
Q Consensus        14 ~~l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~~~-----------~~~~~~~   82 (150)
                      +..++...+++.++++++++.+.++|.++|..+ ...+.+++|+++||+++++++++++.++           +.+++++
T Consensus       367 ~~~~li~~~~ip~~~~~~~~~l~~~g~~ln~~s-l~gl~l~iGi~vd~aIvvve~~~~~~~~~~~~~~~~~~~g~~~~~a  445 (1054)
T 3ne5_A          367 VRSALVAIISLPLGLCIAFIVMHFQGLNANIMS-LGGIAIAVGAMVDAAIVMIENAHKRLEEWQHQHPDATLDNKTRWQV  445 (1054)
T ss_dssp             HHHHHHHHTTTHHHHHHHHHHHHHHTCCBCHHH-HHHHHHHHHHHHHHHHHHHHHHHHHTTTHHHHSCSSCCCTTHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHH-HHHHHHHhhheecCcEEEeeHHHHHHhhccccccccccccCCHHHH
Confidence            334777888889999999999999999999975 5777789999999999999999877654           5578899


Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHhccCC---cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccc
Q psy8504          83 TGIVLRKTGLSIILSSVCKSVAFFSASLIP---IPALRVFNLQLAILILFNMFVLLLVYPAIVSLDLRR  148 (150)
Q Consensus        83 i~~~l~~~g~~i~~tslt~~~~f~~~~~s~---~p~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~rR  148 (150)
                      +.++.++.+++++.+++|++++|....+++   .+..+.|++..+.|++++++.++++.|+++++..||
T Consensus       446 ~~~a~~~~~~~i~~s~ltt~~~f~pl~~~~g~~~~~~~~~~~~~~~gl~~s~~~~l~~~P~l~~~~~~~  514 (1054)
T 3ne5_A          446 ITDASVEVGPALFISLLIITLSFIPIFTLEGQEGRLFGPLAFTKTYAMAGAALLAIVVIPILMGYWIRG  514 (1054)
T ss_dssp             HHTTTTTHHHHHHHHHHHHHHTTGGGGGCCHHHHHHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHC---
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            999999999999999999999999999987   778899999999999999999999999999875543

---

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	150
d1iwga7	199	Multidrug efflux transporter AcrB transmembrane do	99.72
d1iwga8	222	Multidrug efflux transporter AcrB transmembrane do	99.61

>d1iwga7 f.35.1.1 (A:7-37,A:331-498) Multidrug efflux transporter AcrB transmembrane domain {Escherichia coli [TaxId: 562]}

class: Membrane and cell surface proteins and peptides
fold: Multidrug efflux transporter AcrB transmembrane domain
superfamily: Multidrug efflux transporter AcrB transmembrane domain
family: Multidrug efflux transporter AcrB transmembrane domain
domain: Multidrug efflux transporter AcrB transmembrane domain
species: Escherichia coli [TaxId: 562]

Probab=99.72  E-value=5.5e-18  Score=125.58  Aligned_cols=132  Identities=17%  Similarity=0.280  Sum_probs=118.4

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhhh-cCCCCHHHHHHHHHHHHhHH
Q psy8504          15 GVGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKYT-SKNQFDSECTGIVLRKTGLS   93 (150)
Q Consensus        15 ~l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~~-~~~~~~~~~i~~~l~~~g~~   93 (150)
                      ..++...+++.+++.+++|.+.++|.++|..+ ...+.+.+|+++||..|+.++++++. +++++++|++.++.++.|.+
T Consensus        64 ~~~li~~~~i~~~i~~~~~~m~~~g~~l~~~s-~~~~~i~igi~vd~~i~i~~~~~~~~~~~g~~~~eAi~~a~~~~g~~  142 (199)
T d1iwga7          64 RATLIPTIAVPVVLLGTFAVLAAFGFSINTLT-MFGMVLAIGLLVDDAIVVVENVERVMAEEGLPPKEATRKSMGQIQGA  142 (199)
T ss_dssp             TTTTHHHHHHHHHHHHHHHHHHTTTCCSCHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTSCCSHHHHHHGGGTHHHH
T ss_pred             hhhheeccccchhhHHHHHHhhcCCCchHHHH-HHHHHHHHHHhcccHHHHHHHHHHHHHhcCCCHHHHHHHHHhHhhhH
Confidence            34777888999999999999999999999974 58888999999999999998876554 56669999999999999999


Q ss_pred             HHHHHHHHHHHHHHhccCCcHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Q psy8504          94 IILSSVCKSVAFFSASLIPIPA---LRVFNLQLAILILFNMFVLLLVYPAIVSLDLR  147 (150)
Q Consensus        94 i~~tslt~~~~f~~~~~s~~p~---i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~r  147 (150)
                      ++.+++|++++|....+++.++   .++||...+.++.++++..++++|+++++-.|
T Consensus       143 i~~s~lTt~~~f~~l~~~~~~~~~~~~~~g~~i~~gv~~s~i~al~llPall~~~~K  199 (199)
T d1iwga7         143 LVGIAMVLSAVFVPMAFFGGSTGAIYRQFSITIVSAMALSVLVALILTPALCATMLK  199 (199)
T ss_dssp             HHHHHHHHHHHHTTTTCCCTTSHHHHHHHHHHHHHHHHHHHHHTTTHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            9999999999999999887654   79999999999999999999999999987654

>d1iwga8 f.35.1.1 (A:513-566,A:869-1036) Multidrug efflux transporter AcrB transmembrane domain {Escherichia coli [TaxId: 562]}

class: Membrane and cell surface proteins and peptides
fold: Multidrug efflux transporter AcrB transmembrane domain
superfamily: Multidrug efflux transporter AcrB transmembrane domain
family: Multidrug efflux transporter AcrB transmembrane domain
domain: Multidrug efflux transporter AcrB transmembrane domain
species: Escherichia coli [TaxId: 562]

Probab=99.61  E-value=2.1e-16  Score=118.70  Aligned_cols=134  Identities=13%  Similarity=0.112  Sum_probs=118.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhCCCcccchhhhHHHHHHhhccccEEeehHHHhhh-hcCCCCHHHHHHHHHHHHhHHH
Q psy8504          16 VGILGCCLISFSILAGLGFCSILGIPFNASTTQIVPFLALGLSVDDMFLITKTFAKY-TSKNQFDSECTGIVLRKTGLSI   94 (150)
Q Consensus        16 l~l~~~~~~~~s~~~~~G~~~~~G~~~~~~~~~~~pflvlgigvd~~~~l~~~~~~~-~~~~~~~~~~i~~~l~~~g~~i   94 (150)
                      ..+..+.++.+++.++++.+.++|.++|... .....+++|+++||.+++.++|++. .+++.+.+|++.++.++.++|+
T Consensus        83 ~~liv~~~ipl~~~~~~~~l~~~g~~~~~~~-~~g~i~l~Gi~v~~~i~~~~~~~~~~~~~g~~~~~Ai~~a~~~~~~~i  161 (222)
T d1iwga8          83 IPFSVMLVVPLGVIGALLAATFRGLTNDVYF-QVGLLTTIGLSAKNAILIVEFAKDLMDKEGKGLIEATLDAVRMRLRPI  161 (222)
T ss_dssp             HHHHGGGHHHHHHHHHHHHHHHTTCCBCHHH-HHHHHHHHHHHHHHHHHHHHHHHHHTTSSCCCTTHHHHHHHHTTHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHcCCchhhhh-cccccchhhhhhhHHHHHHHHhccccccccCCHHHHHHHHHHHHhhhh
Confidence            3555667778899999999999999999964 5778889999999999999999875 4555689999999999999999


Q ss_pred             HHHHHHHHHHHHHhccCCcH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccC
Q psy8504          95 ILSSVCKSVAFFSASLIPIP---ALRVFNLQLAILILFNMFVLLLVYPAIVSLDLRRSR  150 (150)
Q Consensus        95 ~~tslt~~~~f~~~~~s~~p---~i~~F~i~a~l~v~~~~~~~~t~~pa~L~l~~rR~e  150 (150)
                      ..|++|++++|....+++-+   ..+.++...+.|++++++.++++.|+++.+-+||++
T Consensus       162 ~~t~ltti~gf~pl~~~~~~g~~~~~~la~~v~~Gll~s~~~~l~~~Pal~~l~~r~~~  220 (222)
T d1iwga8         162 LMTSLAFILGVMPLVISTGAGSGAQNAVGTGVMGGMVTATVLAIFFVPVFFVVVRRRFS  220 (222)
T ss_dssp             HHHHHHHHHHHHHHHTTCSSSCHHHHHHHHHHHHHHHHHHTTTTSSSSSSHHHHHHHTS
T ss_pred             hhhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            99999999999999987644   788999999999999999999999999998887764