RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14658
(306 letters)
>gnl|CDD|233348 TIGR01297, CDF, cation diffusion facilitator family transporter.
This model describes a broadly distributed family of
transporters, a number of which have been shown to
transport divalent cations of cobalt, cadmium and/or
zinc. The family has six predicted transmembrane
domains. Members of the family are variable in length
because of variably sized inserts, often containing
low-complexity sequence [Transport and binding proteins,
Cations and iron carrying compounds].
Length = 268
Score = 229 bits (587), Expect = 1e-74
Identities = 98/274 (35%), Positives = 149/274 (54%), Gaps = 24/274 (8%)
Query: 32 VFMICEIVGGYFSGSLAIATDAAHLLTDFASFMISLIALWVASRPATKQMPFGWYRAE-- 89
+ M+ +IVGG SGSLA+ DA H L+D A+ I+L+AL ++ RPA ++ PFG RAE
Sbjct: 1 LLMLIKIVGGLLSGSLALLADAIHSLSDVAASAIALLALRISRRPADERHPFGHGRAEIL 60
Query: 90 ----------VVTGILLYIAIERVITKNFDIEPTIMLYTSVFGLIVNVLMGCTLHQHSHS 139
VV +LY AIER+I +I+ ML ++ GLIVN+++ LH+ H
Sbjct: 61 AALLNGLFLVVVALFILYEAIERLINPEPEIDGGTMLIVAIVGLIVNLILALYLHRVGHR 120
Query: 140 HGGVREDVNVNVRAAFIHVLGDFLQSFGVFVAAVVIYFKPEWVLVDPICTFLFALLVLAT 199
G ++ +RAA +HVL D L S GV + A++IYF W DPI L +LL+L T
Sbjct: 121 LG------SLALRAAALHVLSDALSSVGVLIGALLIYFG--WHWADPIAALLISLLILYT 172
Query: 200 TFTILRDIMIVLMEGIPRGVEFTDVLNTFLDIEGVEKVHNLRIWALSLDKAALSAHLAVK 259
F +L++ + VL++ P + ++ L I GV+ VH+L IW + K L H+ V
Sbjct: 173 AFRLLKESINVLLDAAPDEEDLEEIKKAILSIPGVKGVHDLHIWRIGPGKLFLDVHVVVD 232
Query: 260 PGTDA----GLILKQASRLVHTKFDFFEMTLQIE 289
P D + L+ ++ +T+Q+E
Sbjct: 233 PDLDLKQAHDIALEIEREILKRHPGIEHVTIQVE 266
>gnl|CDD|224151 COG1230, CzcD, Co/Zn/Cd efflux system component [Inorganic ion
transport and metabolism].
Length = 296
Score = 206 bits (525), Expect = 5e-65
Identities = 103/296 (34%), Positives = 168/296 (56%), Gaps = 22/296 (7%)
Query: 6 HCHRERKNKNDKKARRKLWFASILCLVFMICEIVGGYFSGSLAIATDAAHLLTDFASFMI 65
H H ++ + R+L A +L L FM+ EI+GG +GSLA+ DA H+L+D + ++
Sbjct: 7 HSHGHDHAHDNPRNERRLLIALLLNLAFMLIEIIGGLLTGSLALLADALHMLSDALALLL 66
Query: 66 SLIALWVASRPATKQMPFGWYRAEV----VTGILL-----YIAIERVITKNFD---IEPT 113
+LIA+ +A RPATK+ FG+ R E+ + +LL I E I + I +
Sbjct: 67 ALIAIKLARRPATKRFTFGYKRLEILAAFLNALLLIVVSLLILWE-AIQRLLAPPPIHYS 125
Query: 114 IMLYTSVFGLIVNVLMGCTLHQHSHSHGGVREDVNVNVRAAFIHVLGDFLQSFGVFVAAV 173
ML ++ GL+VN++ LH+ N+N+R A++HVLGD L S GV +AA+
Sbjct: 126 GMLVVAIIGLVVNLVSALLLHKGHEE--------NLNMRGAYLHVLGDALGSVGVIIAAI 177
Query: 174 VIYFKPEWVLVDPICTFLFALLVLATTFTILRDIMIVLMEGIPRGVEFTDVLNTFLDIEG 233
VI F W +DPI + + ALL+L++ + +L++ + +L+EG+P G++ V L I G
Sbjct: 178 VIRFTG-WSWLDPILSIVIALLILSSAWPLLKESLNILLEGVPEGIDIDKVREALLRIPG 236
Query: 234 VEKVHNLRIWALSLDKAALSAHLAVKPGTDAGLILKQASRLVHTKFDFFEMTLQIE 289
V VH+L +W+++ + AL+ H+ V DA L Q R + K+ +T+Q+E
Sbjct: 237 VASVHDLHVWSITGGEHALTLHVVVDEVADADAALDQIVRRLLEKYGIEHVTIQLE 292
>gnl|CDD|235130 PRK03557, PRK03557, zinc transporter ZitB; Provisional.
Length = 312
Score = 151 bits (383), Expect = 1e-43
Identities = 95/297 (31%), Positives = 157/297 (52%), Gaps = 24/297 (8%)
Query: 6 HCHRERKNKNDKKARRKLWFASILCLVFMICEIVGGYFSGSLAIATDAAHLLTDFASFMI 65
H H D ARR L+ A + FM+ E++GG+ SGSLA+ DA H+LTD A+ +
Sbjct: 5 HSHTSSHLPEDNNARRLLY-AFGVTAGFMLVEVIGGFLSGSLALLADAGHMLTDAAALLF 63
Query: 66 SLIALWVASRPATKQMPFGWYRAE------------VVTGILLYIAIERVITKNFDIEPT 113
+L+A+ + RP T + FGW R V+T ++++ AIER T +
Sbjct: 64 ALLAVQFSRRPPTIRHTFGWLRLTTLAAFVNAIALVVITILIVWEAIERFRTPR-PVAGG 122
Query: 114 IMLYTSVFGLIVNVLMGCTLHQHSHSHGGVREDVNVNVRAAFIHVLGDFLQSFGVFVAAV 173
+M+ +V GL+ N+L LH S E+ N+NVRAA +HVLGD L S G +AA+
Sbjct: 123 MMMAIAVAGLLANILSFWLLHHGS-------EEKNLNVRAAALHVLGDLLGSVGAIIAAL 175
Query: 174 VIYFKPEWVLVDPICTFLFALLVLATTFTILRDIMIVLMEGIPRGVEFTDVL-NTFLDIE 232
+I + W DPI + L ++LVL + + +L++ + L+EG P ++ ++ +I
Sbjct: 176 IIIWT-GWTPADPILSILVSVLVLRSAWRLLKESVNELLEGAPVSLDIAELKRRLCREIP 234
Query: 233 GVEKVHNLRIWALSLDKAALSAHLAVKPGTDAGLILKQASRLVHTKFDFFEMTLQIE 289
V VH++ +W + +K ++ H+ V P D +L + + + T+Q+E
Sbjct: 235 EVRNVHHVHVWMVG-EKPVMTLHVQVIPPHDHDALLDRIQDYLMHHYQIEHATIQME 290
>gnl|CDD|216561 pfam01545, Cation_efflux, Cation efflux family. Members of this
family are integral membrane proteins, that are found to
increase tolerance to divalent metal ions such as
cadmium, zinc, and cobalt. These proteins are thought to
be efflux pumps that remove these ions from cells.
Length = 273
Score = 149 bits (379), Expect = 2e-43
Identities = 76/274 (27%), Positives = 129/274 (47%), Gaps = 23/274 (8%)
Query: 32 VFMICEIVGGYFSGSLAIATDAAHLLTDFASFMISLIALWVASRPATKQMPFGWYRAEV- 90
+ + ++ G +GSLA+ DA H L D S +++L+AL ++SRP K+ PFG R E
Sbjct: 1 LLALVKLAAGLLTGSLALLADALHSLIDLLSSLLALLALRLSSRPPDKRHPFGHGRLEPL 60
Query: 91 -----------VTGILLYIAIERVITKNFDIEPTIMLYTSVFGLIVNVLMGCTLHQHSHS 139
V +LY +IER + +IEP +L ++ L+VN+L+ L +
Sbjct: 61 AALIVSLLLLGVGVFILYESIER-LISPEEIEPGGILLVALISLVVNLLLALYLRRAGRK 119
Query: 140 HGGVREDVNVNVRAAFIHVLGDFLQSFGVFVAAVVIYFKPEWVLVDPICTFLFALLVLAT 199
G + +RA +H L D L S V + ++I + DP+ + L ALL+L T
Sbjct: 120 IGK----KSSALRADALHALVDVLGSLAVLIGLLLILLTG-LPIADPLASLLIALLILYT 174
Query: 200 TFTILRDIMIVLMEGIPRGVEFTDVLNTFLDIEGVEKVHNLRIWALSLDKAALSAHLAVK 259
+L++ + L+ P ++ + + GV VH+LR+W K + H+ V
Sbjct: 175 GLRLLKESLSELLGASPDPELVDEIRDALEKLPGVLGVHDLRVWKSG-PKYFVDIHIEVD 233
Query: 260 PGTDAG---LILKQASRLVHTKF-DFFEMTLQIE 289
P I + R + KF ++T+ +E
Sbjct: 234 PDLTVEEAHEIADEIERALKEKFPGIADVTIHVE 267
>gnl|CDD|223131 COG0053, MMT1, Predicted Co/Zn/Cd cation transporters [Inorganic
ion transport and metabolism].
Length = 304
Score = 112 bits (283), Expect = 3e-29
Identities = 62/281 (22%), Positives = 117/281 (41%), Gaps = 23/281 (8%)
Query: 10 ERKNKNDKKARRKLWFASILCLVFMICEIVGGYFSGSLAIATDAAHLLTDFASFMISLIA 69
+ + K RR + + L + +++ G +GS+A+ DA H L+D + +I LI
Sbjct: 2 MMEEERLKLVRRAALISLAVNLALALLKLIAGILTGSVALLADAIHSLSDIVASLIVLIG 61
Query: 70 LWVASRPATKQMPFGWYRAE-----------VVTGI-LLYIAIERVITKNFDIEPTIMLY 117
L ++S+P + P+G +AE G +L AI+R+I+ P + L
Sbjct: 62 LRISSKPPDRDHPYGHGKAETLASLIVSILIFAAGFEILLEAIKRLISPQPVEPPLLALG 121
Query: 118 TSVFGLIVNVLMGCTLHQHSHSHGGVREDVNVN-VRAAFIHVLGDFLQSFGVFVAAVVIY 176
++ +++ + + V + N + A +H D L S V V +
Sbjct: 122 VALISIVIKEAL--YRYLRR-----VGKKTNSQALIADALHHRSDVLTSLAVLVGLLGSL 174
Query: 177 FKPEWVLVDPICTFLFALLVLATTFTILRDIMIVLMEGIPRGVEFTDVLNTFLDIEGVEK 236
W +DP+ L +L +L T F + ++ + LM+ + + L + GV+
Sbjct: 175 L--GWPWLDPLAALLISLYILKTGFRLFKESVNELMDAALDPEDLEKIRAIILSVPGVKG 232
Query: 237 VHNLRIWALSLDKAALSAHLAVKPGTDAGLILKQASRLVHT 277
VH+LR S + + H+ V P + A +
Sbjct: 233 VHDLRT-RKSGSRIFIDVHIEVDPDLSLEEAHEIADEVEKR 272
>gnl|CDD|181919 PRK09509, fieF, ferrous iron efflux protein F; Reviewed.
Length = 299
Score = 34.3 bits (79), Expect = 0.060
Identities = 29/166 (17%), Positives = 74/166 (44%), Gaps = 18/166 (10%)
Query: 24 WFASILCLVFMICEIVGGYFSGSLAIATDAAHLLTDFASFMISLIALWVASRPATKQMPF 83
A+ + + ++ +I +++GS+++ L D A+ + +L+ + + +PA + F
Sbjct: 14 IAATAMASLLLLIKIFAWWYTGSVSLLAALVDSLVDIAASLTNLLVVRYSLQPADDEHTF 73
Query: 84 GWYRAEVVTGI------------LLYIAIERVITKNFDIEPTIMLYTSVFGLIVNVLMGC 131
G +AE + + L I+ +I+ +P + + ++ LI +++
Sbjct: 74 GHGKAESLAALAQSMFISGSALFLFLTGIQHLISPTPMNDPGVGIIVTLVALICTLIL-V 132
Query: 132 TLHQHSHSHGGVREDVNVNVRAAFIHVLGDFLQSFGVFVAAVVIYF 177
T + VR+ + VRA +H D + + + +A + ++
Sbjct: 133 TFQRWV-----VRKTQSQAVRADMLHYQSDVMMNGAILLALGLSWY 173
>gnl|CDD|222658 pfam14296, O-ag_pol_Wzy, O-antigen polysaccharide polymerase Wzy.
This family includes O-antigen polysaccharide
polymerases. These enzymes link O-units via a glycosidic
linkage to form a long O-antigen. These enzymes vary in
specificity and sequence.
Length = 440
Score = 34.2 bits (79), Expect = 0.073
Identities = 33/200 (16%), Positives = 63/200 (31%), Gaps = 42/200 (21%)
Query: 12 KNKNDKKARRKL-WFASILCLVFMICEI--------VGGYFSGSLAIATDAAHLLTDFAS 62
+ + K RKL + +F + + GGY + + + + + S
Sbjct: 117 EYERLLKNLRKLSLILFYITFIFSLIYLYEKLLIVSSGGYLAYYQSFLSSLPYFIILIGS 176
Query: 63 FMISLIALWVASRPATKQM--PFGWY------------RAEVVTGIL----LYIAIERVI 104
F L++A++P+ K++ Y R V IL YI +
Sbjct: 177 FFPIAFCLYLATKPSKKKILFILIIYLLYLLLSLLTGQRGPFVLNILFILWYYILRNYIS 236
Query: 105 TKNFDIEPTIMLYTSVFGLIVNVLMGCTLHQHSHSHGGVREDVNVNVRAAFIHVLGDFLQ 164
I + V ++++ L +R V+V + + +F
Sbjct: 237 WIGKKELFLIFISVPVLLVLLSFL------------SYIRGGVSVESL-NLLDSIIEFFY 283
Query: 165 SFGV--FVAAVVIYFKPEWV 182
GV V A I +
Sbjct: 284 GQGVSLNVLAYAITYVDSLP 303
>gnl|CDD|225839 COG3302, DmsC, DMSO reductase anchor subunit [General function
prediction only].
Length = 281
Score = 33.5 bits (77), Expect = 0.094
Identities = 15/61 (24%), Positives = 23/61 (37%), Gaps = 4/61 (6%)
Query: 19 ARRKLWFASILCLVFMICEIVGGYFSGSLA----IATDAAHLLTDFASFMISLIALWVAS 74
A + LV + IV SLA A+ L+ D+ S ++ + L VA
Sbjct: 172 AFALTLLLRLALLVLIAAAIVTLLQGLSLATIHSSVQQASALVPDYGSLRVARLLLLVAG 231
Query: 75 R 75
Sbjct: 232 L 232
>gnl|CDD|182482 PRK10467, PRK10467, hydrogenase 2 large subunit; Provisional.
Length = 567
Score = 31.7 bits (72), Expect = 0.46
Identities = 20/70 (28%), Positives = 32/70 (45%), Gaps = 11/70 (15%)
Query: 124 IVNVLMGCTLHQHSHSHGGVREDVNVNVRA-----------AFIHVLGDFLQSFGVFVAA 172
+V +L G T H + + GGV +N++ +FI L DF++ A
Sbjct: 204 VVALLGGKTPHIQNLAVGGVANPINLDGLGVLNLERLMYIKSFIDKLSDFVEQVYKVDTA 263
Query: 173 VVIYFKPEWV 182
V+ F PEW+
Sbjct: 264 VIAAFYPEWL 273
>gnl|CDD|113736 pfam04976, DmsC, DMSO reductase anchor subunit (DmsC). The
terminal electron transfer enzyme Me2SO reductase of
Escherichia coli is a heterotrimeric enzyme composed of
a membrane extrinsic catalytic dimer (DmsAB) and a
membrane intrinsic polytopic anchor subunit (DmsC).
Length = 276
Score = 30.1 bits (68), Expect = 1.3
Identities = 13/69 (18%), Positives = 23/69 (33%), Gaps = 11/69 (15%)
Query: 23 LWFASILCLVFMICEIVGGYFSGSLAI----ATDAAHLLTDFASFMI-------SLIALW 71
L+ + L + IV SL A L+ D+A+ ++ L
Sbjct: 181 LFLPFLFVLALTLAAIVIILQGFSLRSIHSSVQQANALVPDYATLIVLRYVLLFVAPLLL 240
Query: 72 VASRPATKQ 80
+A T+
Sbjct: 241 LAPLYVTRV 249
>gnl|CDD|212064 cd11495, SLC5sbd_NIS-like_u3, uncharacterized subgroup of the
Na(+)/iodide (NIS) cotransporter subfamily; putative
solute-binding domain. Proteins belonging to the same
subfamily as this uncharacterized subgroup include i)
NIS, which transports I-, and other anions including
ClO4-, SCN-, and Br-, ii) SMVT, which transports biotin,
pantothenic acid and lipoate, and iii) the
Na(+)/monocarboxylate cotransporters SMCT1 and 2. SMCT1
is a high-affinity transporter while SMCT2 is a
low-affinity transporter. This subgroup belongs to the
solute carrier 5 (SLC5) transporter family.
Length = 477
Score = 29.8 bits (68), Expect = 2.0
Identities = 15/50 (30%), Positives = 23/50 (46%), Gaps = 1/50 (2%)
Query: 23 LWFASILCLVFMICEIVGGYFSGSLAIATDAAHLLTDFASFMISLIALWV 72
L ++LCL+ +I +I GG F IA+ SF ++ WV
Sbjct: 184 LLGGALLCLIIIIFKIPGG-FGQVFDIASANGKFSLGDFSFSLTEPTFWV 232
>gnl|CDD|226474 COG3965, COG3965, Predicted Co/Zn/Cd cation transporters [Inorganic
ion transport and metabolism].
Length = 314
Score = 29.3 bits (66), Expect = 2.5
Identities = 39/214 (18%), Positives = 82/214 (38%), Gaps = 35/214 (16%)
Query: 23 LWFASILCLVFMICEIVGGYFSGSLAIATDAAHLLTDFASFMISLIALWV----ASRPAT 78
L + ++F I+ G SGS++I D + L D ++L++L V A P
Sbjct: 22 LRISIAGTVIFAAFGIIWGLLSGSMSIIFDGVYSLID---AGMTLLSLLVSRLIAKDPRD 78
Query: 79 KQMPFGWYRAE---------VVTGILLYI---AIERVITKNFDIEPTIMLYTSVFGLIVN 126
+ P+G++ E ++ + LY A+ ++ ++EP + ++ +
Sbjct: 79 ARFPYGFWHLEPLVLAINGTLLALLCLYALINALGSLLDGGREVEPGHAIAYTLVSVTGC 138
Query: 127 VLMGCTLHQHSHSHGGVREDVNVNVRAAFIHVLGDFLQSFGVFVAAVVIYF----KPEW- 181
+ + + ++ + + S +FVA + K
Sbjct: 139 AAI--AWKLRRLNRRLKSPLIALDTKQWLM----STCLSAALFVAFAAAWLLAGTKFAHL 192
Query: 182 -VLVDP----ICTFLFALLVLATTFTILRDIMIV 210
V DP + +F L L T + LR+I+++
Sbjct: 193 VVYADPMVLALVCLVFIPLPLGTVKSALREILLM 226
>gnl|CDD|224776 COG1863, MnhE, Multisubunit Na+/H+ antiporter, MnhE subunit
[Inorganic ion transport and metabolism].
Length = 158
Score = 28.0 bits (63), Expect = 3.8
Identities = 18/95 (18%), Positives = 36/95 (37%), Gaps = 15/95 (15%)
Query: 31 LVFMICEIVGGYFSGSLAIATDAAHLLTDFASFMISLIALWVASRPATKQM-PFGWYRAE 89
L+ ++ + +GS + A +L+ F++ I L + R ++ P RA
Sbjct: 6 LLNILLALFWLLLTGSFSPA----NLIL---GFIVGAIVLLLLRRFLPARLYPRRLLRAI 58
Query: 90 VVTGILLYIAIE-------RVITKNFDIEPTIMLY 117
+ + L I+ V+ I P I+
Sbjct: 59 KLILVFLKELIKANIDVAKIVLRPKRPINPGIVAV 93
>gnl|CDD|187595 cd05334, DHPR_SDR_c_like, dihydropteridine reductase (DHPR),
classical (c) SDRs. Dihydropteridine reductase is an
NAD-binding protein related to the SDRs. It converts
dihydrobiopterin into tetrahydrobiopterin, a cofactor
necessary in catecholamines synthesis. Dihydropteridine
reductase has the YXXXK of these tyrosine-dependent
oxidoreductases, but lacks the typical upstream Asn and
Ser catalytic residues. SDRs are a functionally diverse
family of oxidoreductases that have a single domain with
a structurally conserved Rossmann fold (alpha/beta
folding pattern with a central beta-sheet), an
NAD(P)(H)-binding region, and a structurally diverse
C-terminal region. Classical SDRs are typically about
250 residues long, while extended SDRS are approximately
350 residues. Sequence identity between different SDR
enzymes are typically in the 15-30% range, but the
enzymes share the Rossmann fold NAD-binding motif and
characteristic NAD-binding and catalytic sequence
patterns. These enzymes have a 3-glycine N-terminal
NAD(P)(H)-binding pattern (typically, TGxxxGxG in
classical SDRs and TGxxGxxG in extended SDRs), while
substrate binding is in the C-terminal region. A
critical catalytic Tyr residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering), is often found in a conserved YXXXK pattern.
In addition to the Tyr and Lys, there is often an
upstream Ser (Ser-138, 15-PGDH numbering) and/or an Asn
(Asn-107, 15-PGDH numbering) or additional Ser,
contributing to the active site. Substrates for these
enzymes include sugars, steroids, alcohols, and aromatic
compounds. The standard reaction mechanism is a proton
relay involving the conserved Tyr and Lys, as well as
Asn (or Ser). Some SDR family members, including 17
beta-hydroxysteroid dehydrogenase contain an additional
helix-turn-helix motif that is not generally found among
SDRs.
Length = 221
Score = 28.4 bits (64), Expect = 3.9
Identities = 8/28 (28%), Positives = 16/28 (57%)
Query: 241 RIWALSLDKAALSAHLAVKPGTDAGLIL 268
+W +L + +++HLA K GL++
Sbjct: 95 LMWKQNLWTSFIASHLATKHLLSGGLLV 122
>gnl|CDD|224188 COG1269, NtpI, Archaeal/vacuolar-type H+-ATPase subunit I [Energy
production and conversion].
Length = 660
Score = 28.9 bits (65), Expect = 4.2
Identities = 23/117 (19%), Positives = 45/117 (38%), Gaps = 10/117 (8%)
Query: 142 GVREDV-NVNVRAAFIHVLGDFLQSFGVFVAAVVIYFKPEWVLVDPICTFLFALLVLATT 200
G V + +++ A + L L G+ + + Y L+ + A +L
Sbjct: 477 GFINRVRSGDIKGAILPQLLWLLIILGLLLLILG-YKWSVPELLGMVGAMFGAFGILGLL 535
Query: 201 FTILRDIMI-VLMEGIPRGVEFTDVLNTFLDIEGVEKVHNLRIWALSLDKAALSAHL 256
L + V + G E VL+ D+ + LR+ AL L A++++ +
Sbjct: 536 VVGLILVPGLVAIGQGILGFEG--VLSLLSDV-----LSYLRLLALGLAGASIASVV 585
>gnl|CDD|150723 pfam10081, DUF2319, Predicted membrane protein (DUF2319). Members
of this family of hypothetical bacterial proteins have
no known function.
Length = 534
Score = 28.4 bits (64), Expect = 4.9
Identities = 32/185 (17%), Positives = 60/185 (32%), Gaps = 36/185 (19%)
Query: 59 DFASFMISLIALWVASRPATKQMPFGWYRAEVVTGILLYIA-----IERVITKNFDI-EP 112
FA ++ + + P+ +P W V++G+ I R + + ++ E
Sbjct: 7 SFAGLLLGTLFFAASLTPSL--LPRPWLFQGVLSGVSAAIGYGIGVFLRWLWRYLELPEL 64
Query: 113 TIMLYTS---VFGLIVNVLMGCTLHQHSHSHGGVREDVNVN----------------VRA 153
V + + L Q + VR + + V
Sbjct: 65 RPRPRRGARLVAVALGAAVTVLMLVQAARWQNSVRALMGMPPLETAAYLRGVLVALLVFG 124
Query: 154 AFIHVLGDFLQSFGVFVAAVVIYFKPEWVLVDPICTFLFALLVLATTFTILRDIMIVLME 213
A + LG L+ F+A + P V + L+V+ +T+ VL+
Sbjct: 125 ALV-ALGRLLRRLIRFLARRLQRVLPRRVAN-----VVGVLVVVLLLWTLTNG---VLVR 175
Query: 214 GIPRG 218
G RG
Sbjct: 176 GALRG 180
>gnl|CDD|216018 pfam00606, Glycoprotein_B, Herpesvirus Glycoprotein B. This family
of proteins contains a transmembrane region.
Length = 711
Score = 28.7 bits (65), Expect = 5.1
Identities = 11/33 (33%), Positives = 17/33 (51%)
Query: 142 GVREDVNVNVRAAFIHVLGDFLQSFGVFVAAVV 174
+ +D++ + R AF+ L DF Q G AV
Sbjct: 608 DIDKDIDNDNRPAFVRGLDDFFQGLGAVGKAVG 640
>gnl|CDD|110325 pfam01312, Bac_export_2, FlhB HrpN YscU SpaS Family. This family
includes the following members: FlhB, HrpN, YscU, SpaS,
HrcU SsaU and YopU. All of these proteins export
peptides using the type III secretion system. The
peptides exported are quite diverse.
Length = 343
Score = 28.0 bits (63), Expect = 6.2
Identities = 17/82 (20%), Positives = 29/82 (35%), Gaps = 9/82 (10%)
Query: 113 TIMLYTSVFGLIVNVLMGCTLHQHSHSHGGVREDVNVNVRAAFIHVLGDFLQSFGVFVAA 172
+ L SVF + L+ TL ++ + + +L L +FVA
Sbjct: 41 YLFLLGSVFARRLIALLLLTLILIPLPF----SLSVTDLFSLVVLLLLTVLLLLSLFVAL 96
Query: 173 VVIYFKPEWVLVDPICTFLFAL 194
+V + V FLF+
Sbjct: 97 LVGLA-SNLLQVG----FLFST 113
>gnl|CDD|226967 COG4608, AppF, ABC-type oligopeptide transport system, ATPase
component [Amino acid transport and metabolism].
Length = 268
Score = 27.9 bits (63), Expect = 7.0
Identities = 12/36 (33%), Positives = 16/36 (44%), Gaps = 4/36 (11%)
Query: 98 IAIERVITKNFDI----EPTIMLYTSVFGLIVNVLM 129
I I R + N + EP L SV I+N+L
Sbjct: 118 IGIARALALNPKLIVADEPVSALDVSVQAQILNLLK 153
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.328 0.140 0.430
Gapped
Lambda K H
0.267 0.0760 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 15,962,430
Number of extensions: 1590454
Number of successful extensions: 2312
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2280
Number of HSP's successfully gapped: 102
Length of query: 306
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 209
Effective length of database: 6,635,264
Effective search space: 1386770176
Effective search space used: 1386770176
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 59 (26.4 bits)