RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10468
(365 letters)
>gnl|CDD|233209 TIGR00958, 3a01208, Conjugate Transporter-2 (CT2) Family protein.
[Transport and binding proteins, Other].
Length = 711
Score = 110 bits (276), Expect = 2e-26
Identities = 58/143 (40%), Positives = 84/143 (58%), Gaps = 2/143 (1%)
Query: 198 QLRCQLFESILKQDIAFFDSTRTGELVDRLTTDVQEFKSSFKLVVSQGLRNGAQVIGAVS 257
++R LF S+L+QD+ FFD +TGEL RL++D Q S L V+ LRN ++G +
Sbjct: 235 RIREDLFRSLLRQDLGFFDENKTGELTSRLSSDTQTMSRSLSLNVNVLLRNLVMLLGLLG 294
Query: 258 SLLIISPSLTLGMLGIVPIVIISGTFIGSLLRSLSREAQNQAAKAVTIGEEAISNIRTVR 317
+L +SP LT+ L +P+V ++ G + LS E Q AKA + EEA+S +RTVR
Sbjct: 295 FMLWLSPRLTMVTLINLPLVFLAEKVFGKRYQLLSEELQEAVAKANQVAEEALSGMRTVR 354
Query: 318 AFAMEPYEVRLFTDQVSLSCTLQ 340
+FA E E F + +L TLQ
Sbjct: 355 SFAAEEGEASRF--KEALEETLQ 375
Score = 45.9 bits (109), Expect = 3e-05
Identities = 28/90 (31%), Positives = 43/90 (47%), Gaps = 10/90 (11%)
Query: 12 LPLYLGNIINILAKFTQDSTAQLSFMSEMKEPALKLVGLY-VAQSVFTCVYISLLSGLGE 70
+P Y G +I+ L D + S A+ + L +A SV + +
Sbjct: 180 IPFYTGRVIDTLG---GDKGPP-ALAS-----AIFFMCLLSIASSVSAGLRGGSFNYTMA 230
Query: 71 RIAAKLRCQLFESILKQDIAFFDSTRTGEL 100
RI ++R LF S+L+QD+ FFD +TGEL
Sbjct: 231 RINLRIREDLFRSLLRQDLGFFDENKTGEL 260
Score = 41.2 bits (97), Expect = 7e-04
Identities = 13/67 (19%), Positives = 39/67 (58%)
Query: 133 NSIHAESMVLGTLYFGGHLMASNTLTAGDLMSFLVSTQMIQRSMAQMSLLFGSYIKGLSS 192
S+ + + LY+GG L+ + +++G+L+SFL+ + + ++ +S ++ ++ + +
Sbjct: 391 TSVLGMLIQVLVLYYGGQLVLTGKVSSGNLVSFLLYQEQLGEAVRVLSYVYSGMMQAVGA 450
Query: 193 GARIFQL 199
++F+
Sbjct: 451 SEKVFEY 457
>gnl|CDD|216049 pfam00664, ABC_membrane, ABC transporter transmembrane region.
This family represents a unit of six transmembrane
helices. Many members of the ABC transporter family
(pfam00005) have two such regions.
Length = 274
Score = 104 bits (261), Expect = 9e-26
Identities = 62/191 (32%), Positives = 94/191 (49%), Gaps = 3/191 (1%)
Query: 146 YFGGHLMASNTLTAGDLMSFLVST--QMIQRSMAQMSLLFGSYIKGLSSGARI-FQLRCQ 202
G + S GD S L+S +I + Q LL GS+ G G RI +L
Sbjct: 20 LLLGRFLDSLIDGNGDERSSLISLAILLIAVGVLQGLLLQGSFYLGERLGQRIRKRLFRA 79
Query: 203 LFESILKQDIAFFDSTRTGELVDRLTTDVQEFKSSFKLVVSQGLRNGAQVIGAVSSLLII 262
L IL ++FFD+ GEL RLT DV + + + ++ A V+G +
Sbjct: 80 LLRQILGLPMSFFDTNSVGELTSRLTNDVSKIRDGLGDKLGLFFQSLATVVGGFIVMFYY 139
Query: 263 SPSLTLGMLGIVPIVIISGTFIGSLLRSLSREAQNQAAKAVTIGEEAISNIRTVRAFAME 322
LTL +L I+P++I+ + LR L+R+ Q AKA ++ EE++S IRTV+AF E
Sbjct: 140 GWKLTLVLLAILPLLILLSAVLAKKLRKLNRKEQKAYAKAGSVAEESLSGIRTVKAFGRE 199
Query: 323 PYEVRLFTDQV 333
YE+ + +
Sbjct: 200 EYELERYDKAL 210
Score = 43.0 bits (102), Expect = 1e-04
Identities = 27/100 (27%), Positives = 42/100 (42%), Gaps = 6/100 (6%)
Query: 2 ALLVAFINIQLPLYLGNIINILAKFTQDSTAQLSFMSEMKEPALKLVGLYVAQSVFTCVY 61
+L + PL LG ++ L D + L + A+ L+ + V Q +
Sbjct: 8 LILAGATALVFPLLLGRFLDSLIDGNGDERSSLISL------AILLIAVGVLQGLLLQGS 61
Query: 62 ISLLSGLGERIAAKLRCQLFESILKQDIAFFDSTRTGELV 101
L LG+RI +L L IL ++FFD+ GEL
Sbjct: 62 FYLGERLGQRIRKRLFRALLRQILGLPMSFFDTNSVGELT 101
>gnl|CDD|131259 TIGR02204, MsbA_rel, ABC transporter, permease/ATP-binding protein.
This protein is related to a Proteobacterial ATP
transporter that exports lipid A and to eukaryotic
P-glycoproteins.
Length = 576
Score = 103 bits (259), Expect = 3e-24
Identities = 49/131 (37%), Positives = 71/131 (54%)
Query: 199 LRCQLFESILKQDIAFFDSTRTGELVDRLTTDVQEFKSSFKLVVSQGLRNGAQVIGAVSS 258
+R +F ++ +FFD R+GE+V RLTTD +S +S LRN IG +
Sbjct: 93 IRRAVFAHLISLSPSFFDKNRSGEVVSRLTTDTTLLQSVIGSSLSMALRNALMCIGGLIM 152
Query: 259 LLIISPSLTLGMLGIVPIVIISGTFIGSLLRSLSREAQNQAAKAVTIGEEAISNIRTVRA 318
+ I SP LT +L VP+V++ G +R LSRE+Q++ A A + E + IRTV+A
Sbjct: 153 MFITSPKLTSLVLLAVPLVLLPILLFGRRVRKLSRESQDRIADAGSYAGETLGAIRTVQA 212
Query: 319 FAMEPYEVRLF 329
F E E F
Sbjct: 213 FGHEDAERSRF 223
Score = 43.5 bits (103), Expect = 1e-04
Identities = 17/55 (30%), Positives = 32/55 (58%)
Query: 47 LVGLYVAQSVFTCVYISLLSGLGERIAAKLRCQLFESILKQDIAFFDSTRTGELV 101
L+ + + ++ T L++ LGER+ A +R +F ++ +FFD R+GE+V
Sbjct: 64 LLVVALVLALGTAARFYLVTWLGERVVADIRRAVFAHLISLSPSFFDKNRSGEVV 118
Score = 33.5 bits (77), Expect = 0.18
Identities = 14/61 (22%), Positives = 31/61 (50%)
Query: 139 SMVLGTLYFGGHLMASNTLTAGDLMSFLVSTQMIQRSMAQMSLLFGSYIKGLSSGARIFQ 198
++G L+ G H + + ++AG L F+ M+ S+ +S ++G + + R+ +
Sbjct: 254 GAIVGVLWVGAHDVIAGKMSAGTLGQFVFYAVMVAGSIGTLSEVWGELQRAAGAAERLIE 313
Query: 199 L 199
L
Sbjct: 314 L 314
>gnl|CDD|224055 COG1132, MdlB, ABC-type multidrug transport system, ATPase and
permease components [Defense mechanisms].
Length = 567
Score = 89.0 bits (221), Expect = 2e-19
Identities = 43/178 (24%), Positives = 79/178 (44%)
Query: 182 LFGSYIKGLSSGARIFQLRCQLFESILKQDIAFFDSTRTGELVDRLTTDVQEFKSSFKLV 241
SY+ + LR LFE +L+ ++FFD ++G+L+ RLT DV+ + V
Sbjct: 70 ALQSYLGSRLGQKIVADLRRDLFEKLLRLPLSFFDKAKSGDLISRLTNDVEAVSNLVSTV 129
Query: 242 VSQGLRNGAQVIGAVSSLLIISPSLTLGMLGIVPIVIISGTFIGSLLRSLSREAQNQAAK 301
+ + +IG++ L +S L L +L I+P++ + + + R LSR + +
Sbjct: 130 LVLVFTSILLLIGSLVLLFSLSWRLALILLLILPLLALVLSLLARKSRKLSRRVREALGE 189
Query: 302 AVTIGEEAISNIRTVRAFAMEPYEVRLFTDQVSLSCTLQERLGVGVGMFQAGTNLFLN 359
E++S IR ++AF E E++ F + R + L +
Sbjct: 190 LNARLLESLSGIRVIKAFGAEDRELKRFEEANEELRRANLRASRLEALLAPLMLLLSS 247
Score = 57.8 bits (140), Expect = 4e-09
Identities = 60/298 (20%), Positives = 125/298 (41%), Gaps = 41/298 (13%)
Query: 1 AALLVAFINIQLPLYLGNIINILAKFTQDSTAQLSFMSEMKEPALKLVGLYVAQSVFTCV 60
LL A +++ LPL +G II+ L L+ + E+ E L L+ L + V +
Sbjct: 22 LLLLSALLSLLLPLLIGRIIDAL----------LADLGELLELLLLLLLLALLGGVLRAL 71
Query: 61 YISLLSGLGERIAAKLRCQLFESILKQDIAFFDSTRTGELVDSAKPNIKNKLNPIHNHVI 120
L S LG++I A LR LFE +L+ ++FFD ++G+L+ + N + + N ++
Sbjct: 72 QSYLGSRLGQKIVADLRRDLFEKLLRLPLSFFDKAKSGDLIS----RLTNDVEAVSN-LV 126
Query: 121 RMITGAFRSSPLNSIHAESMVLGTLYFGGHLMASNTLTAGDLMSFLVS---------TQM 171
+ +S L I L L+ +A L L++ ++S ++
Sbjct: 127 STVLVLVFTSILLLI----GSLVLLFSLSWRLALILLLILPLLALVLSLLARKSRKLSRR 182
Query: 172 IQRSMAQMSLLFGSYIKGLSSGARIFQLRCQLFESILKQDIAFFDSTRTGELVDRLTTDV 231
++ ++ +++ + G+ + F + + + + + ++ L +
Sbjct: 183 VREALGELNARLLESLSGIRV-IKAFGAEDRELKRFEEANEELRRANLRASRLEALLAPL 241
Query: 232 QEFKSSFKLVVSQGLRNGAQVIGAVSSLLIISPSLTLGMLGIVPIVIISGTFIGSLLR 289
SS V ++ A+ L++S SLT+G L ++ + +L+
Sbjct: 242 MLLLSSLGTV----------LVLALGGFLVLSGSLTVGAL--AAFILYLLRLLTPILQ 287
Score = 43.2 bits (102), Expect = 2e-04
Identities = 18/84 (21%), Positives = 35/84 (41%), Gaps = 3/84 (3%)
Query: 140 MVLGTLYFGGHLMASNTLTAGDLMSFLVSTQMIQRSMAQMSLLFGSYIKGLSSGARIFQL 199
+ L GG L+ S +LT G L +F++ + + Q+ + + ++ R+F+L
Sbjct: 249 GTVLVLALGGFLVLSGSLTVGALAAFILYLLRLLTPILQLGEVVSLLQRASAAAERLFEL 308
Query: 200 RCQLFESILKQDIAFFDSTRTGEL 223
L E +D G +
Sbjct: 309 ---LDEEPEVEDPPDPLKDTIGSI 329
>gnl|CDD|131258 TIGR02203, MsbA_lipidA, lipid A export permease/ATP-binding protein
MsbA. This family consists of a single polypeptide
chain transporter in the ATP-binding cassette (ABC)
transporter family, MsbA, which exports lipid A. It may
also act in multidrug resistance. Lipid A, a part of
lipopolysaccharide, is found in the outer leaflet of the
outer membrane of most Gram-negative bacteria. Members
of this family are restricted to the Proteobacteria
(although lipid A is more broadly distributed) and often
are clustered with lipid A biosynthesis genes [Cell
envelope, Biosynthesis and degradation of surface
polysaccharides and lipopolysaccharides, Transport and
binding proteins, Other].
Length = 571
Score = 79.0 bits (195), Expect = 5e-16
Identities = 50/171 (29%), Positives = 81/171 (47%), Gaps = 6/171 (3%)
Query: 183 FGSYIKGLSSGARIFQLRCQLFESILKQDIAFFDSTRTGELVDRLTTDVQEFKSSFKLVV 242
+Y+ S + +R ++FE +L ++FFD TG L+ R+T D ++ S+
Sbjct: 73 VSTYLLSWVSNKVVRDIRVRMFEKLLGLPVSFFDRQPTGTLLSRITFDSEQVASAATDAF 132
Query: 243 SQGLRNGAQVIGAVSSLLIISPSLTLGMLGIVPIVIISGTFIGSLLRSLSREAQNQAAKA 302
+R VIG LL S LTL ++ ++P++ I + LR +S+E QN +
Sbjct: 133 IVLVRETLTVIGLFIVLLYYSWQLTLIVVVMLPVLSILMRRVSKRLRRISKEIQNSMGQV 192
Query: 303 VTIGEEAISNIRTVRAFAMEPYEVRLFTDQVSLSCTLQERLGVGVGMFQAG 353
T+ EE + R V+ F + YE R F D VS + + M AG
Sbjct: 193 TTVAEETLQGYRVVKLFGGQAYETRRF-DAVS-----NRNRRLAMKMTSAG 237
Score = 35.1 bits (81), Expect = 0.066
Identities = 17/80 (21%), Positives = 38/80 (47%)
Query: 120 IRMITGAFRSSPLNSIHAESMVLGTLYFGGHLMASNTLTAGDLMSFLVSTQMIQRSMAQM 179
++M + SSP+ + A + L+ + +LTAGD +F+ + + R + +
Sbjct: 231 MKMTSAGSISSPITQLIASLALAVVLFIALFQAQAGSLTAGDFTAFITAMIALIRPLKSL 290
Query: 180 SLLFGSYIKGLSSGARIFQL 199
+ + +GL++ +F L
Sbjct: 291 TNVNAPMQRGLAAAESLFTL 310
Score = 28.1 bits (63), Expect = 8.8
Identities = 19/59 (32%), Positives = 35/59 (59%), Gaps = 4/59 (6%)
Query: 45 LKLVGLYVAQSVFTCVYIS--LLSGLGERIAAKLRCQLFESILKQDIAFFDSTRTGELV 101
L ++GL V + + C ++S LLS + ++ +R ++FE +L ++FFD TG L+
Sbjct: 58 LVVIGLAVLRGI--CSFVSTYLLSWVSNKVVRDIRVRMFEKLLGLPVSFFDRQPTGTLL 114
>gnl|CDD|183016 PRK11176, PRK11176, lipid transporter ATP-binding/permease protein;
Provisional.
Length = 582
Score = 57.7 bits (140), Expect = 4e-09
Identities = 49/172 (28%), Positives = 82/172 (47%), Gaps = 4/172 (2%)
Query: 163 MSFLVSTQMIQRSMAQMSLLFGSYIKGLSSGARIFQLRCQLFESILKQDIAFFDSTRTGE 222
M +V MI R + + SY SG + +R +LF ++ ++FFD TG
Sbjct: 67 MPLVVIGLMILRGI---TSFISSYCISWVSGKVVMTMRRRLFGHMMGMPVSFFDKQSTGT 123
Query: 223 LVDRLTTDVQEFKSSFKLVVSQGLRNGAQVIGAVSSLLIISPSLTLGMLGIVPIVIISGT 282
L+ R+T D ++ SS + +R GA +IG + S L+L ++ I PIV I+
Sbjct: 124 LLSRITYDSEQVASSSSGALITVVREGASIIGLFIMMFYYSWQLSLILIVIAPIVSIAIR 183
Query: 283 FIGSLLRSLSREAQNQAAKAVTIGEEAISNIRTVRAFAMEPYEVRLFTDQVS 334
+ R++S+ QN + T E+ + + V F + E + F D+VS
Sbjct: 184 VVSKRFRNISKNMQNTMGQVTTSAEQMLKGHKEVLIFGGQEVETKRF-DKVS 234
>gnl|CDD|225183 COG2274, SunT, ABC-type bacteriocin/lantibiotic exporters, contain
an N-terminal double-glycine peptidase domain [Defense
mechanisms].
Length = 709
Score = 56.1 bits (136), Expect = 1e-08
Identities = 33/125 (26%), Positives = 62/125 (49%), Gaps = 7/125 (5%)
Query: 203 LFESILKQDIAFFDSTRTGELVDRLT--TDVQEFKSSFKL-VVSQGLRNGAQVIGAVSSL 259
F +L+ +++F+ GE++ R+ ++EF + L ++ L A + AV +
Sbjct: 233 FFRHLLRLPLSYFEKRSVGEIISRVRELEQIREFLTGSILTLIIDLLF--ALIFLAV--M 288
Query: 260 LIISPSLTLGMLGIVPIVIISGTFIGSLLRSLSREAQNQAAKAVTIGEEAISNIRTVRAF 319
+ S LTL +L +P+ ++ LLR +R+ ++A+ + E I I TV+A
Sbjct: 289 FLYSWKLTLIVLAAIPLNVLITLIFQPLLRRKTRKLIEESAEQQSFLVETIKGIETVKAL 348
Query: 320 AMEPY 324
A EP
Sbjct: 349 AAEPR 353
Score = 28.3 bits (64), Expect = 8.1
Identities = 52/302 (17%), Positives = 119/302 (39%), Gaps = 48/302 (15%)
Query: 1 AALLVAFINIQLPLYLGNIINILAKFTQDSTAQLSFMSEMKEPALKLVGLYVAQSVFTCV 60
A+LL+ + + PL+ +I+ + S + L+ + A+ L+ + +++ +
Sbjct: 162 ASLLLQLLALATPLFSQIVIDKV--LPDASRSTLTVL------AIGLLLAALFEALLRLL 213
Query: 61 YISLLSGLGERIAAKLRCQLFESILKQDIAFFDSTRTGELVDSAKPNIKNKLNPIHNHVI 120
L++ LG+R+ +L + F +L+ +++F+ GE++ +++ + +
Sbjct: 214 RTYLIAHLGKRLDLELSGRFFRHLLRLPLSYFEKRSVGEII--------SRVREL-EQIR 264
Query: 121 RMITGAFRSSPLNSIHAESMVLGTL----YFGGHLMASNTLTAGDLMSFLVSTQMIQRSM 176
+TG+ + ++ + L L + L L A L + T + Q +
Sbjct: 265 EFLTGSILTLIIDLL----FALIFLAVMFLYSWKLTLI-VLAAIPLNVLI--TLIFQPLL 317
Query: 177 AQMSLLFGSYIKGLSSGARIFQLRCQLFESILKQDIAFFDSTRTGELVDRLTTDVQEFKS 236
+ + K + A + + I + + +RL ++
Sbjct: 318 RRKTR------KLIEESAEQQSFLVETIKGIETVKALAAEPRFRSQWDNRLA---KQVNI 368
Query: 237 SFKLVV-SQGLRNGAQVIGAVSSLLI--------ISPSLTLGMLGIVPIVIISGTFIGSL 287
FK + L ++ +SS+LI + LTLG L V +++G FI +
Sbjct: 369 GFKTEKLALILNTIKSLLQQLSSVLILWFGAILVLEGELTLGQL--VAFNMLAGYFISPI 426
Query: 288 LR 289
R
Sbjct: 427 TR 428
>gnl|CDD|233596 TIGR01846, type_I_sec_HlyB, type I secretion system ABC
transporter, HlyB family. Type I protein secretion is a
system in some Gram-negative bacteria to export proteins
(often proteases) across both inner and outer membranes
to the extracellular medium. This is one of three
proteins of the type I secretion apparatus. Targeted
proteins are not cleaved at the N-terminus, but rather
carry signals located toward the extreme C-terminus to
direct type I secretion [Protein fate, Protein and
peptide secretion and trafficking].
Length = 694
Score = 42.4 bits (100), Expect = 3e-04
Identities = 33/139 (23%), Positives = 68/139 (48%), Gaps = 5/139 (3%)
Query: 198 QLRCQLFESILKQDIAFFDSTRTGELVDRL--TTDVQEFKSSFKLVVSQGLRNGAQVIGA 255
+L +L+ +L + +F+S R G+ V R+ ++ F + L V L V+
Sbjct: 213 ELGARLYRHLLGLPLGYFESRRVGDTVARVRELEQIRNFLTGSALTVVLDL---LFVVVF 269
Query: 256 VSSLLIISPSLTLGMLGIVPIVIISGTFIGSLLRSLSREAQNQAAKAVTIGEEAISNIRT 315
++ + SP+LT ++G + + F+G +LR + ++A A + E+++ I T
Sbjct: 270 LAVMFFYSPTLTGVVIGSLVCYALLSVFVGPILRKRVEDKFERSAAATSFLVESVTGIET 329
Query: 316 VRAFAMEPYEVRLFTDQVS 334
++A A EP + Q++
Sbjct: 330 IKATATEPQFQNRWDRQLA 348
Score = 30.1 bits (68), Expect = 2.1
Identities = 14/58 (24%), Positives = 29/58 (50%)
Query: 44 ALKLVGLYVAQSVFTCVYISLLSGLGERIAAKLRCQLFESILKQDIAFFDSTRTGELV 101
AL ++ + + + + L + L RI +L +L+ +L + +F+S R G+ V
Sbjct: 182 ALAMLAVAIFEPALGGLRTYLFAHLTSRIDVELGARLYRHLLGLPLGYFESRRVGDTV 239
>gnl|CDD|130261 TIGR01193, bacteriocin_ABC, ABC-type bacteriocin transporter. This
model describes ABC-type bacteriocin transporter. The
amino terminal domain (pfam03412) processes the
N-terminal leader peptide from the bacteriocin while
C-terminal domains resemble ABC transporter membrane
protein and ATP-binding cassette domain. In general,
bacteriocins are agents which are responsible for
killing or inhibiting the closely related species or
even different strains of the same species. Bacteriocins
are usually encoded by bacterial plasmids. Bacteriocins
are named after the species and hence in literature one
encounters various names e.g., leucocin from Leuconostic
geldium; pedicocin from Pedicoccus acidilactici; sakacin
from Lactobacillus sake etc [Protein fate, Protein and
peptide secretion and trafficking, Protein fate, Protein
modification and repair, Transport and binding proteins,
Other].
Length = 708
Score = 42.4 bits (100), Expect = 3e-04
Identities = 27/101 (26%), Positives = 50/101 (49%), Gaps = 8/101 (7%)
Query: 1 AALLVAFINIQLPLYLGNIINILAKFTQDSTAQLSFMSEMKEPALKLVGLYVAQSVFTCV 60
AA++V I+I YL II+ L +S + L+ Y+ Q + + +
Sbjct: 164 AAIIVTLISIAGSYYLQKIIDTY--IPHKMMGTLGIIS------IGLIIAYIIQQILSYI 215
Query: 61 YISLLSGLGERIAAKLRCQLFESILKQDIAFFDSTRTGELV 101
I LL+ LG+R++ + + + + ++FF + RTGE+V
Sbjct: 216 QIFLLNVLGQRLSIDIILSYIKHLFELPMSFFSTRRTGEIV 256
>gnl|CDD|182733 PRK10790, PRK10790, putative multidrug transporter
membrane\ATP-binding components; Provisional.
Length = 592
Score = 39.3 bits (92), Expect = 0.003
Identities = 45/158 (28%), Positives = 79/158 (50%), Gaps = 24/158 (15%)
Query: 135 IHAESMVLGTL---YFGGHLMASNTL----TAGDLMSFLVSTQMIQRSM--AQMSLLFGS 185
+ A + V G L YF +++A L AG +++ Q++ + AQ SLLF
Sbjct: 34 VAAAAEVSGPLLISYFIDNMVAKGNLPLGLVAGLAAAYVG-LQLLAAGLHYAQ-SLLFNR 91
Query: 186 YIKGLSSGARIFQLRCQLFESILKQDIAFFDSTRTGELVDRLTTDVQEFKSSFKLVVSQG 245
G+ + QLR + ++ L+Q ++ FD+ G+L+ R+T D + + + VV+
Sbjct: 92 AAVGV-----VQQLRTDVMDAALRQPLSAFDTQPVGQLISRVTNDTEVIRDLYVTVVATV 146
Query: 246 LRNGAQVIGAVSSLLIISPSLTLGM----LGIVPIVII 279
LR+ A +IGA +L+ SL M + I P V++
Sbjct: 147 LRSAA-LIGA---MLVAMFSLDWRMALVAIMIFPAVLV 180
>gnl|CDD|233335 TIGR01271, CFTR_protein, cystic fibrosis transmembrane conductor
regulator (CFTR). The model describes the cystis
fibrosis transmembrane conductor regulator (CFTR) in
eukaryotes. The principal role of this protein is
chloride ion conductance. The protein is predicted to
consist of 12 transmembrane domains. Mutations or lesions
in the genetic loci have been linked to the aetiology of
asthma, bronchiectasis, chronic obstructive pulmonary
disease etc. Disease-causing mutations have been studied
by 36Cl efflux assays in vitro cell cultures and
electrophysiology, all of which point to the impairment
of chloride channel stability and not the biosynthetic
processing per se [Transport and binding proteins,
Anions].
Length = 1490
Score = 39.1 bits (91), Expect = 0.004
Identities = 28/134 (20%), Positives = 62/134 (46%), Gaps = 6/134 (4%)
Query: 199 LRCQLFESILKQDIAFFDSTRTGELVDRLTTDVQEFKSSFKLVVSQGLRNGAQVIGAVSS 258
L Q+ S+L+ +A ++ + G +++R T D+ L + ++ V+GA+
Sbjct: 960 LHEQMLHSVLQAPMAVLNTMKAGRILNRFTKDMAIIDDMLPLTLFDFIQLTLIVLGAIFV 1019
Query: 259 LLIISPSLTLGMLGIVPIVIISGTFIGSLLRSLSREAQNQAAKAVTIGEEAISNIR---T 315
+ ++ P + + +P+ +I LR+ + Q ++ I I++++ T
Sbjct: 1020 VSVLQPYI---FIAAIPVAVIFIMLRAYFLRTSQQLKQLESEARSPIFSHLITSLKGLWT 1076
Query: 316 VRAFAMEPYEVRLF 329
+RAF + Y LF
Sbjct: 1077 IRAFGRQSYFETLF 1090
Score = 31.0 bits (70), Expect = 1.2
Identities = 37/152 (24%), Positives = 62/152 (40%), Gaps = 17/152 (11%)
Query: 198 QLRCQLFESILKQDIAF----FDSTRTGELVDRLTTDVQEFKSSFKLV--VSQGLRNGAQ 251
Q+R LF I K+ + D TG+LV L+ ++ +F L V
Sbjct: 152 QMRIALFSLIYKKTLKLSSRVLDKISTGQLVSLLSNNLNKFDEGLALAHFVWIAPLQVIL 211
Query: 252 VIGAVSSLLIISPSLTLGMLGIVPIVIISGTFIGSLLRSLSREAQNQAAKA---VTIGEE 308
++G + LL ++ LG L I+ F L + + +A K + I E
Sbjct: 212 LMGLIWELLEVNGFCGLGFL------ILLALFQACLGQKMMPYRDKRAGKISERLAITSE 265
Query: 309 AISNIRTVRAFAMEPYEVRLFTD--QVSLSCT 338
I NI++V+A+ E ++ + Q L T
Sbjct: 266 IIENIQSVKAYCWEEAMEKIIKNIRQDELKLT 297
>gnl|CDD|188098 TIGR00957, MRP_assoc_pro, multi drug resistance-associated protein
(MRP). This model describes multi drug
resistance-associated protein (MRP) in eukaryotes. The
multidrug resistance-associated protein is an integral
membrane protein that causes multidrug resistance when
overexpressed in mammalian cells. It belongs to ABC
transporter superfamily. The protein topology and
function was experimentally demonstrated by epitope
tagging and immunofluorescence. Insertion of tags in the
critical regions associated with drug efflux, abrogated
its function. The C-terminal domain seem to highly
conserved [Transport and binding proteins, Other].
Length = 1522
Score = 38.8 bits (90), Expect = 0.004
Identities = 33/147 (22%), Positives = 63/147 (42%), Gaps = 5/147 (3%)
Query: 176 MAQMSLLFGSYIKGLSSGARIFQLRC---QLFESILKQDIAFFDSTRTGELVDRLTTDVQ 232
+ Q +FG Y +S G I R L + L+ ++FF+ T +G LV+R + ++
Sbjct: 1016 ILQGFAVFG-YSMAVSIGG-IQASRVLHQDLLHNKLRSPMSFFERTPSGNLVNRFSKELD 1073
Query: 233 EFKSSFKLVVSQGLRNGAQVIGAVSSLLIISPSLTLGMLGIVPIVIISGTFIGSLLRSLS 292
S V+ + + VIGA+ +L+ +P + + + + F + R L
Sbjct: 1074 TVDSMIPPVIKMFMGSLFNVIGALIVILLATPIAAVIIPPLGLLYFFVQRFYVASSRQLK 1133
Query: 293 REAQNQAAKAVTIGEEAISNIRTVRAF 319
R + + E + + +RAF
Sbjct: 1134 RLESVSRSPVYSHFNETLLGVSVIRAF 1160
>gnl|CDD|182732 PRK10789, PRK10789, putative multidrug transporter
membrane\ATP-binding components; Provisional.
Length = 569
Score = 38.2 bits (89), Expect = 0.007
Identities = 39/143 (27%), Positives = 63/143 (44%), Gaps = 21/143 (14%)
Query: 198 QLRCQLFESILKQDIAFFDSTRTGELVDRLTTDVQEFKSSFKLVVSQGLRNGAQVIGAVS 257
+LR + + +Q F+ RTG+L+ R T DV VV G V+ V
Sbjct: 70 ELREDFYRQLSRQHPEFYLRHRTGDLMARATNDVDR-------VV---FAAGEGVLTLVD 119
Query: 258 SLLI-----------ISPSLTLGMLGIVPIVIISGTFIGSLLRSLSREAQNQAAKAVTIG 306
SL++ IS LTL L +P++ I G L + AQ +
Sbjct: 120 SLVMGCAVLIVMSTQISWQLTLLALLPMPVMAIMIKRYGDQLHERFKLAQAAFSSLNDRT 179
Query: 307 EEAISNIRTVRAFAMEPYEVRLF 329
+E++++IR ++AF +E + LF
Sbjct: 180 QESLTSIRMIKAFGLEDRQSALF 202
>gnl|CDD|240327 PTZ00243, PTZ00243, ABC transporter; Provisional.
Length = 1560
Score = 35.5 bits (82), Expect = 0.055
Identities = 27/124 (21%), Positives = 55/124 (44%), Gaps = 6/124 (4%)
Query: 199 LRCQLFESILKQDIAFFDSTRTGELVDRLTTDVQEFKSSFKLVVSQGLRNGAQVIGAVSS 258
+ L S+ + ++FFD+T G +++R + D+ ++ + L+ + SS
Sbjct: 1033 MHRDLLRSVSRGTMSFFDTTPLGRILNRFSRDIDILDNTLPMSYLYLLQ---CLFSICSS 1089
Query: 259 LLIISPSLTLGMLGIVPIVIIS---GTFIGSLLRSLSREAQNQAAKAVTIGEEAISNIRT 315
+L+ S S ++ +VP + F S R + R + T+ EEA+ T
Sbjct: 1090 ILVTSASQPFVLVALVPCGYLYYRLMQFYNSANREIRRIKSVAKSPVFTLLEEALQGSAT 1149
Query: 316 VRAF 319
+ A+
Sbjct: 1150 ITAY 1153
>gnl|CDD|226968 COG4615, PvdE, ABC-type siderophore export system, fused ATPase and
permease components [Secondary metabolites biosynthesis,
transport, and catabolism / Inorganic ion transport and
metabolism].
Length = 546
Score = 34.0 bits (78), Expect = 0.11
Identities = 21/97 (21%), Positives = 42/97 (43%), Gaps = 9/97 (9%)
Query: 196 IFQLRCQLFESILKQDIAFFDSTRTGELVDRLTTDVQ--EFKSSFKLVVSQGLRNGAQVI 253
I++LR + + IL + + + L+ LT+DV+ F S + Q +
Sbjct: 80 IYKLRSEFIKKILDTPLERIERLGSARLLAGLTSDVRNISFAFSRLPELVQA---IILTL 136
Query: 254 GAVSSLLIISPSLTLGMLGIVPIVIISGTFIGSLLRS 290
G+ + L +SP M + + I+ + G +L +
Sbjct: 137 GSAAYLAYLSPK----MFLLTVVWIVVTIWGGFVLMA 169
>gnl|CDD|240339 PTZ00265, PTZ00265, multidrug resistance protein (mdr1); Provisional.
Length = 1466
Score = 33.8 bits (77), Expect = 0.15
Identities = 43/189 (22%), Positives = 70/189 (37%), Gaps = 36/189 (19%)
Query: 199 LRCQLFESILKQDIAFFD--STRTGELVDRLTTDVQEFKSSFKLVVSQGLRNGAQVIGAV 256
++ +LFE+IL Q+I+FFD G L + DV K+ GL N +
Sbjct: 901 MKRRLFENILYQEISFFDQDKHAPGLLSAHINRDVHLLKT--------GLVNNIVIFTHF 952
Query: 257 SSLLIISPSLTLGMLGIVPIVIISGTFIG----------SLLRSLSREAQNQAAKAVTIG 306
L ++S ++ IV V+ FI + + + ++ NQ
Sbjct: 953 IVLFLVSMVMSFYFCPIVAAVLTGTYFIFMRVFAIRARLTANKDVEKKEINQPGTVFAYN 1012
Query: 307 -------------EEAISNIRTVRAFAMEPYEVRLFTDQVSLSCTLQERLGVGVGM---F 350
+EA N+ TV + +E Y L + S Q+R + M F
Sbjct: 1013 SDDEIFKDPSFLIQEAFYNMNTVIIYGLEDYFCNLIEKAIDYSNKGQKRKTLVNSMLWGF 1072
Query: 351 QAGTNLFLN 359
LF+N
Sbjct: 1073 SQSAQLFIN 1081
Score = 32.7 bits (74), Expect = 0.42
Identities = 15/40 (37%), Positives = 26/40 (65%)
Query: 68 LGERIAAKLRCQLFESILKQDIAFFDSTRTGELVDSAKPN 107
+GE++ ++ +LFE+IL Q+I+FFD + + SA N
Sbjct: 893 IGEKVEKTMKRRLFENILYQEISFFDQDKHAPGLLSAHIN 932
>gnl|CDD|163508 TIGR03796, NHLM_micro_ABC1, NHLM bacteriocin system ABC
transporter, peptidase/ATP-binding protein. This
protein describes a multidomain ABC transporter subunit
that is one of three protein families associated with
some regularity with a distinctive family of putative
bacteriocins. It includes a bacteriocin-processing
peptidase domain at the N-terminus. Model TIGR03793
describes a conserved propeptide region for this
bacteriocin family, unusual because it shows obvious
homology a region of the enzyme nitrile hydratase up to
the classic Gly-Gly cleavage motif. This family is
therefore predicted to be a subunit of a bacteriocin
processing and export system characteristic to this
system that we designate NHLM, Nitrile Hydratase Leader
Microcin [Transport and binding proteins, Amino acids,
peptides and amines, Cellular processes, Biosynthesis of
natural products].
Length = 710
Score = 33.0 bits (76), Expect = 0.25
Identities = 29/149 (19%), Positives = 55/149 (36%), Gaps = 11/149 (7%)
Query: 202 QLFESILKQDIAFFDSTRTGELVDRLTTD--VQEFKSSFKLVVSQGLRNGAQVIGAVSSL 259
+ IL+ + FF G++ R+ + V EF + Q + V
Sbjct: 232 RFLWHILRLPVRFFAQRHAGDIASRVQLNDQVAEF------LSGQLATTALDAVMLVFYA 285
Query: 260 LII---SPSLTLGMLGIVPIVIISGTFIGSLLRSLSREAQNQAAKAVTIGEEAISNIRTV 316
L++ P LTL + I +++ + +R Q A K + + +I T+
Sbjct: 286 LLMLLYDPVLTLIGIAFAAINVLALQLVSRRRVDANRRLQQDAGKLTGVAISGLQSIETL 345
Query: 317 RAFAMEPYEVRLFTDQVSLSCTLQERLGV 345
+A +E + + Q+ LGV
Sbjct: 346 KASGLESDFFSRWAGYQAKLLNAQQELGV 374
>gnl|CDD|227320 COG4987, CydC, ABC-type transport system involved in cytochrome bd
biosynthesis, fused ATPase and permease components
[Energy production and conversion / Posttranslational
modification, protein turnover, chaperones].
Length = 573
Score = 32.3 bits (74), Expect = 0.43
Identities = 25/116 (21%), Positives = 49/116 (42%), Gaps = 11/116 (9%)
Query: 199 LRCQLFESILKQDIAFFDSTRTGELVDRLTTDVQEFKSSFKLVVSQGLRNGAQVIGAVSS 258
LR +LFE + A R+G+L++RL DV + + LR A + A+
Sbjct: 93 LRVRLFEKLEPLSPALLLRYRSGDLLNRLVADVDALDNLY-------LRVIAPAVVAL-- 143
Query: 259 LLIISPSLTLGMLGIVPIVIISGT--FIGSLLRSLSREAQNQAAKAVTIGEEAISN 312
+LI ++ L I +++ + ++ +L A + + G A+ +
Sbjct: 144 VLIAVVTIGLSFFSIPLALLLGLILLLLLLIIPTLFYRAGRKFGAHLAQGRAALRS 199
>gnl|CDD|215640 PLN03232, PLN03232, ABC transporter C family member; Provisional.
Length = 1495
Score = 32.3 bits (73), Expect = 0.46
Identities = 26/123 (21%), Positives = 64/123 (52%), Gaps = 12/123 (9%)
Query: 203 LFESILKQDIAFFDSTRTGELVDRLTTDVQEFKSSFKLVVSQGLRNGAQVIGAVSSLLII 262
+ SIL+ + FF + TG +++R + D+ + + +++ + Q++ S+ +I
Sbjct: 989 MLNSILRAPMLFFHTNPTGRVINRFSKDIGDIDRNVANLMNMFMNQLWQLL---STFALI 1045
Query: 263 SPSLTLGMLGIVPIVIISGTFIGSLL--RSLSREAQ--NQAAKAVTIGE--EAISNIRTV 316
T+ + I+P++I+ F + L +S SRE + + ++ + EA++ + ++
Sbjct: 1046 GTVSTISLWAIMPLLIL---FYAAYLYYQSTSREVRRLDSVTRSPIYAQFGEALNGLSSI 1102
Query: 317 RAF 319
RA+
Sbjct: 1103 RAY 1105
>gnl|CDD|183957 PRK13294, PRK13294, F420-0--gamma-glutamyl ligase; Provisional.
Length = 448
Score = 31.1 bits (71), Expect = 0.97
Identities = 20/64 (31%), Positives = 31/64 (48%), Gaps = 9/64 (14%)
Query: 269 GMLGIVPIVIISG---TFIGSLLRSLSREAQNQ-----AAKAVTIGE-EAISNIRTVRAF 319
G L VP+ ++ G GS R L R + A+A+ +G EA+ R+VR F
Sbjct: 207 GKLTGVPVAVVRGLGLLDDGSTARDLVRPGEEDLFRLGTAEALELGRREAVLLRRSVREF 266
Query: 320 AMEP 323
+ +P
Sbjct: 267 SDDP 270
>gnl|CDD|234189 TIGR03375, type_I_sec_LssB, type I secretion system ATPase, LssB
family. Type I protein secretion is a system in some
Gram-negative bacteria to export proteins (often
proteases) across both inner and outer membranes to the
extracellular medium. This is one of three proteins of
the type I secretion apparatus. Targeted proteins are
not cleaved at the N-terminus, but rather carry signals
located toward the extreme C-terminus to direct type I
secretion. This model is related to models TIGR01842 and
TIGR01846, and to bacteriocin ABC transporters that
cleave their substrates during export [Protein fate,
Protein and peptide secretion and trafficking, Cellular
processes, Pathogenesis].
Length = 694
Score = 31.0 bits (71), Expect = 1.1
Identities = 19/85 (22%), Positives = 39/85 (45%), Gaps = 4/85 (4%)
Query: 261 IISPSLTLGMLGIVPIVIISGTFIGSLLRSLSREAQNQAAK--AVTIGEEAISNIRTVRA 318
II L L +P++++ G + L L+ E+ ++A+ AV + E++S + T++A
Sbjct: 282 IIGGPLVWVPLVAIPLILLPGLLLQRPLSRLAEESMRESAQRNAVLV--ESLSGLETIKA 339
Query: 319 FAMEPYEVRLFTDQVSLSCTLQERL 343
E R + V+ +
Sbjct: 340 LNAEGRFQRRWEQTVAALARSGLKS 364
>gnl|CDD|234041 TIGR02868, CydC, thiol reductant ABC exporter, CydC subunit. The
gene pair cydCD encodes an ABC-family transporter in
which each gene contains an N-terminal membrane-spanning
domain (pfam00664) and a C-terminal ATP-binding domain
(pfam00005). In E. coli these genes were discovered as
mutants which caused the terminal heme-copper oxidase
complex cytochrome bd to fail to assemble. Recent work
has shown that the transporter is involved in export of
redox-active thiol compounds such as cysteine and
glutathione. The linkage to assembly of the cytochrome
bd complex is further supported by the conserved operon
structure found outside the gammaproteobacteria
(cydABCD) containing both the transporter and oxidase
genes components. The genes used as the seed members for
this model are all either found in the
gammproteobacterial context or the CydABCD context. All
members of this family scoring above trusted at the time
of its creation were from genomes which encode a
cytochrome bd complex.
Length = 530
Score = 29.3 bits (66), Expect = 3.3
Identities = 24/104 (23%), Positives = 46/104 (44%), Gaps = 4/104 (3%)
Query: 199 LRCQLFESILKQDIAFFDSTRTGELVDRLTTDVQEFKSSFKLVVSQGLRNGAQVIGAVSS 258
LR +++E + +Q +A R G+L+ RL DV + + V+ A V+GA +
Sbjct: 88 LRVRVYERLARQALAGRRRLRRGDLLGRLGADVDALQDLYVRVIVPAG--VALVVGAAAV 145
Query: 259 LLIISPSLTLGMLGIVPIVIISGTFIGSLLRSLSREAQNQAAKA 302
I S+ ++ +++ F+ L+ + A QA
Sbjct: 146 AAIAVLSVPAALILAAGLLLAG--FVAPLVSLRAARAAEQALAR 187
>gnl|CDD|226969 COG4618, ArpD, ABC-type protease/lipase transport system, ATPase
and permease components [General function prediction
only].
Length = 580
Score = 29.6 bits (67), Expect = 3.3
Identities = 16/92 (17%), Positives = 35/92 (38%), Gaps = 2/92 (2%)
Query: 268 LGMLGIV-PIVIISGTFIGSLL-RSLSREAQNQAAKAVTIGEEAISNIRTVRAFAMEPYE 325
LG++ + I+++ + R +EA + +A + + + N + A M
Sbjct: 161 LGLIALAGAIILVVLALLNERATRKPLKEASEASIRANQLADATLRNAEVIEAMGMLGNL 220
Query: 326 VRLFTDQVSLSCTLQERLGVGVGMFQAGTNLF 357
+ + + + QER G F A +
Sbjct: 221 AKRWGRFNAAYLSAQERASDRNGAFGALSRAL 252
>gnl|CDD|234357 TIGR03797, NHLM_micro_ABC2, NHLM bacteriocin system ABC
transporter, ATP-binding protein. Members of this
protein family are ABC transporter ATP-binding subunits,
part of a three-gene putative bacteriocin transport
operon. The other subunits include another ATP-binding
subunit (TIGR03796), which has an N-terminal leader
sequence cleavage domain, and an HlyD homolog
(TIGR03794). In a number of genomes, members of protein
families related to nitrile hydratase alpha subunit or
to nif11 have undergone paralogous family expansions,
with members possessing a putative bacteriocin cleavage
region ending with a classic Gly-Gly motif. Those sets
of putative bacteriocins, members of this protein family
and its partners TIGR03794 and TIGR03796, and
cyclodehydratase/docking scaffold fusion proteins of
thiazole/oxazole biosynthesis frequently show correlated
species distribution and co-clustering within many of
those genomes [Transport and binding proteins, Amino
acids, peptides and amines, Cellular processes,
Biosynthesis of natural products].
Length = 686
Score = 29.2 bits (66), Expect = 4.6
Identities = 33/155 (21%), Positives = 55/155 (35%), Gaps = 18/155 (11%)
Query: 213 AFFDSTRTGELVDRLTTDVQEFKSSFKLVVSQGLRNGAQVIGAVSSL---LIISPSLTLG 269
+FF TG+L R +++ L I A+ +L S L L
Sbjct: 225 SFFRQYSTGDLASR----AMGISQIRRILSGSTLTTLLSGIFALLNLGLMFYYSWKLALV 280
Query: 270 MLGIVPIVIISGTFIGSLLRSLSREAQNQAAKAVTIGEE---AISNIRT----VRAFAME 322
+ + + I +G L R + K + + IS +R RAFA
Sbjct: 281 AVALALVAIAVTLVLGLLQVRKERRLLELSGKISGLTVQLINGISKLRVAGAENRAFA-- 338
Query: 323 PYEVRLFTDQVSLSCTLQERLGVGVGMFQAGTNLF 357
+LF+ Q L + Q R+ + +F A +
Sbjct: 339 -RWAKLFSRQRKLELSAQ-RIENLLTVFNAVLPVL 371
>gnl|CDD|236443 PRK09274, PRK09274, peptide synthase; Provisional.
Length = 552
Score = 28.7 bits (65), Expect = 6.3
Identities = 18/62 (29%), Positives = 30/62 (48%), Gaps = 14/62 (22%)
Query: 245 GLRNGAQVIGAVSSLLIISPS-----LTLGML--GIVPIVIISGTFIGSLLRSLSREAQN 297
G+ G + +L+++PS LT + G VP+++ G I +L + L EAQ
Sbjct: 62 GIGRGMRA------VLMVTPSLEFFALTFALFKAGAVPVLVDPGMGIKNLKQCL-AEAQP 114
Query: 298 QA 299
A
Sbjct: 115 DA 116
>gnl|CDD|227590 COG5265, ATM1, ABC-type transport system involved in Fe-S cluster
assembly, permease and ATPase components
[Posttranslational modification, protein turnover,
chaperones].
Length = 497
Score = 28.5 bits (64), Expect = 6.5
Identities = 35/154 (22%), Positives = 50/154 (32%), Gaps = 43/154 (27%)
Query: 198 QLRCQLFESILKQDIAFFDSTRTGELVDRLTTDVQEFKSSFKLVVSQGLRNGAQVIGAVS 257
L F + + F RTG L S+ + G + I +
Sbjct: 16 VLAYVTFFHLHSLSLRFHLERRTGGL-------------------SRAIERGTKGIETIL 56
Query: 258 S--LLIISP-----SLTLGMLGIVP------------IVIISGTFIGSLLRSLSREAQNQ 298
L I P SL +L V I+ + T I S R+ R N
Sbjct: 57 RWILFNILPTLVEISLVAVILWRVYGWWFALTTLVTVILYLLFTVIVSDWRTDFRRLMNN 116
Query: 299 A---AKAVTIGEEAISNIRTVRAFAMEPYEVRLF 329
A A A I +++ N TV+ F E YE +
Sbjct: 117 ADSDANAKAI--DSLLNFETVKYFGNEEYEAVRY 148
>gnl|CDD|133167 cd05035, PTKc_Axl_like, Catalytic Domain of Axl-like Protein
Tyrosine Kinases. Protein Tyrosine Kinase (PTK) family;
Axl subfamily; catalytic (c) domain. The PTKc family is
part of a larger superfamily that includes the catalytic
domains of other kinases such as protein
serine/threonine kinases, RIO kinases, and
phosphoinositide 3-kinase (PI3K). The Axl subfamily
consists of Axl, Tyro3 (or Sky), Mer (or Mertk), and
similar proteins. PTKs catalyze the transfer of the
gamma-phosphoryl group from ATP to tyrosine (tyr)
residues in protein substrates. Axl subfamily members
are receptor tyr kinases (RTKs) containing an
extracellular ligand-binding region with two
immunoglobulin-like domains followed by two fibronectin
type III repeats, a transmembrane segment, and an
intracellular catalytic domain. Binding to their
ligands, Gas6 and protein S, leads to receptor
dimerization, autophosphorylation, activation, and
intracellular signaling. Axl subfamily members are
implicated in a variety of cellular effects including
survival, proliferation, migration, and phagocytosis.
They are also associated with several types of cancer as
well as inflammatory, autoimmune, vascular, and kidney
diseases. Mer is named after its original reported
expression pattern (monocytes, epithelial, and
reproductive tissues). It is required for the ingestion
of apoptotic cells by phagocytes such as macrophages,
retinal pigment epithelial cells, and dendritic cells.
Mer is also important in maintaining immune homeostasis.
Length = 273
Score = 27.9 bits (62), Expect = 7.4
Identities = 21/71 (29%), Positives = 32/71 (45%), Gaps = 15/71 (21%)
Query: 116 HNHVIRMITGAFRSSPLNSIHAESMVLGTLYFGGHLMASNTLTAGDLMSFLVSTQMIQRS 175
H +V+++I F +S L I + MV+ L F H GDL SFL+ +++
Sbjct: 60 HPNVMKLIGVCFEASSLQKI-PKPMVI--LPFMKH---------GDLHSFLLYSRLGGLP 107
Query: 176 M---AQMSLLF 183
Q L F
Sbjct: 108 EKLPLQTLLKF 118
>gnl|CDD|215595 PLN03130, PLN03130, ABC transporter C family member; Provisional.
Length = 1622
Score = 28.6 bits (64), Expect = 7.4
Identities = 31/134 (23%), Positives = 64/134 (47%), Gaps = 13/134 (9%)
Query: 197 FQLRCQLFESILKQDIAFFDSTR----TGELVDRLTTD---VQEFKSSFKLVVSQGLRNG 249
F+LR L ++ ++ + R +G++ + +TTD +Q+ + S R
Sbjct: 370 FRLRSTLVAAVFRKSLRLTHEGRKKFTSGKITNLMTTDAEALQQICQQLHTLWSAPFR-- 427
Query: 250 AQVIGAVSSLLI-ISPSLTLGMLGIVPIVIISGTFIGSLLRSLSREAQNQAAKAVTIGEE 308
+I A+ L + + +G L +V + I TFI S ++ L++E + K + + E
Sbjct: 428 --IIIAMVLLYQQLGVASLIGSLMLVLMFPIQ-TFIISKMQKLTKEGLQRTDKRIGLMNE 484
Query: 309 AISNIRTVRAFAME 322
++ + TV+ +A E
Sbjct: 485 VLAAMDTVKCYAWE 498
>gnl|CDD|185337 PRK15440, PRK15440, L-rhamnonate dehydratase; Provisional.
Length = 394
Score = 28.2 bits (63), Expect = 7.9
Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 2/48 (4%)
Query: 115 IHNHVIRMITGAFRSSPLNSIHAESMVLGTLYFGGHLMASNTLTAGDL 162
+ H+ R I G S + I + M+ TLY+G + NT++ DL
Sbjct: 85 VEKHLNRFIEGK-CVSDIELIW-DQMLNATLYYGRKGLVMNTISCVDL 130
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
0.323 0.136 0.376
Gapped
Lambda K H
0.267 0.0854 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 18,002,834
Number of extensions: 1738648
Number of successful extensions: 1727
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1710
Number of HSP's successfully gapped: 73
Length of query: 365
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 267
Effective length of database: 6,590,910
Effective search space: 1759772970
Effective search space used: 1759772970
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 60 (26.7 bits)