RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16653
(301 letters)
>gnl|CDD|215702 pfam00083, Sugar_tr, Sugar (and other) transporter.
Length = 449
Score = 87.0 bits (216), Expect = 3e-19
Identities = 64/256 (25%), Positives = 106/256 (41%), Gaps = 44/256 (17%)
Query: 55 GDAPTYLS---------ALGSFFQMFLTLGILYLYCLGLSTYTV-------IAIGCLAVP 98
P Y+S ALGS +Q+ +T GIL +GL I +G VP
Sbjct: 120 VLVPMYISEIAPKKLRGALGSLYQLGITFGILVAAIIGLGLNKYSNSDGWRIPLGLQFVP 179
Query: 99 ILLLVLFFLVVPETPIYLMKSGNNKKAEVSLRFYRGSRYDVPLELAAIQREIDAA-ARKK 157
+LL++ L +PE+P +L+ G ++A L RG DV E+ + ++ + +K
Sbjct: 180 AILLLIGLLFLPESPRWLVLKGKLEEARAVLAKLRGVS-DVDQEIQEEKDSLERSVEAEK 238
Query: 158 ASFSDLVSSRANLRALIISLGLMVFQQFSGVNAVIFYSNDIFKSAGSTLDPGFSYIQDSL 217
AS+ +L + + L++ + L +FQQ +G+NA+ +YS IF++ G L
Sbjct: 239 ASWLELFRGKTVRQRLLMGVMLQIFQQLTGINAIFYYSPTIFETLG--LSDSL------- 289
Query: 218 ISMFDCIPFQVKGIATGIAVAVNWIGAFLVTLCFGFLVRHFGSAATFWIFTVCCVVGTVF 277
+ T I VN F+ T FLV FG + + +
Sbjct: 290 -------------LVTIIVGVVN----FVFTFIAIFLVDRFGRRPLLLLGAAGMAICFLV 332
Query: 278 TFMVVPETKGKTLAQI 293
+ + A I
Sbjct: 333 LGVALLGVAKSKGAGI 348
Score = 66.5 bits (163), Expect = 3e-12
Identities = 25/73 (34%), Positives = 34/73 (46%), Gaps = 1/73 (1%)
Query: 225 PFQVKGIATGIAVAVNWIGAFLVTLCFGFLVRHFGSAATFWIFTVCCVVGTVFTFMVVPE 284
P V+ A IA A NW+ FL+ F + F +F V+ +F F VPE
Sbjct: 378 PLGVRPKAMAIATAANWLANFLIGFLFPIIT-GAIGGYVFLVFAGLLVLFILFVFFFVPE 436
Query: 285 TKGKTLAQIQREL 297
TKG+TL +I
Sbjct: 437 TKGRTLEEIDELF 449
>gnl|CDD|233165 TIGR00879, SP, MFS transporter, sugar porter (SP) family. This
model represent the sugar porter subfamily of the major
facilitator superfamily (pfam00083) [Transport and
binding proteins, Carbohydrates, organic alcohols, and
acids].
Length = 481
Score = 85.9 bits (213), Expect = 8e-19
Identities = 71/257 (27%), Positives = 107/257 (41%), Gaps = 46/257 (17%)
Query: 57 APTYLS---------ALGSFFQMFLTLGILYLYCLGLST----YTV---IAIGCLAVPIL 100
P YLS AL S +Q+ +T GIL Y G T+ I +G +P
Sbjct: 148 VPMYLSEIAPKALRGALTSLYQLAITFGILVAYGFGSGKVSLNNTLGWRIPLGLQLIPAG 207
Query: 101 LLVLFFLVVPETPIYLMKSGNNKKAEVSLRFYRGS-----RYDVPLELAAIQREIDAAAR 155
LL L +PE+P +L+ G ++A SL RG+ LEL I+R I+ +
Sbjct: 208 LLFLGLFFLPESPRWLVGKGRVEEARKSLARLRGTSGEDKELLDELELIDIKRSIEKRSV 267
Query: 156 KKASFSDLVSSRANLRALIISLGLMVFQQFSGVNAVIFYSNDIFKSAGSTLDPGFSYIQD 215
+ + S S+R R L + + L FQQF+G+NA+++YS IF++AG + D F
Sbjct: 268 QPSWGSLFSSTRRIRRRLFLGVVLQWFQQFTGINAIMYYSPTIFENAGVSTDHAF----- 322
Query: 216 SLISMFDCIPFQVKGIATGIAVAVNWIGAFLVTLCFGFLVRHFGSAATFWI-FTVCCVVG 274
+ + I AVN+ T FLV FG I +
Sbjct: 323 ---------------LVSIIVGAVNFAF----TFVAIFLVDRFGRRPLLLIGAAGMAICL 363
Query: 275 TVFTFMVVPETKGKTLA 291
V + G + +
Sbjct: 364 FVLGILGASFVTGSSKS 380
Score = 65.8 bits (161), Expect = 5e-12
Identities = 24/69 (34%), Positives = 36/69 (52%)
Query: 225 PFQVKGIATGIAVAVNWIGAFLVTLCFGFLVRHFGSAATFWIFTVCCVVGTVFTFMVVPE 284
P ++ IAVA NW+ F+V F ++ G F F V+G +F + +PE
Sbjct: 413 PLSLRPKGISIAVAANWLANFIVGFLFPTMLESIGVGGVFIFFGGLNVLGLIFVYFFLPE 472
Query: 285 TKGKTLAQI 293
TKG+TL +I
Sbjct: 473 TKGRTLEEI 481
>gnl|CDD|182225 PRK10077, xylE, D-xylose transporter XylE; Provisional.
Length = 479
Score = 70.1 bits (172), Expect = 2e-13
Identities = 52/176 (29%), Positives = 77/176 (43%), Gaps = 35/176 (19%)
Query: 96 AVPILLLVLFFLVVPETPIYLMKSGNNKKAEVSLRFYRGSRYDVPLELAAIQREIDAAAR 155
A+P LL ++ VPETP YLM G ++AE LR G+ +EI
Sbjct: 201 AIPALLFLMLLYFVPETPRYLMSRGKQEQAEGILRKIMGNT-----LATQALQEI----- 250
Query: 156 KKASFSDLVSSRANL---RALIISLGLM--VFQQFSGVNAVIFYSNDIFKSAGSTLDPG- 209
K S + L +I +G+M VFQQF G+N V++Y+ +IFK+ G++ D
Sbjct: 251 -KHSLDHGRKTGGKLLMFGVGVIVIGVMLSVFQQFVGINVVLYYAPEIFKTLGASTDIAL 309
Query: 210 ------------FSYIQDSLISMFDCIPFQVKGIATGIAVAVNWIGAFLVTLCFGF 253
F+ + + F P Q+ G A G+A IG F + F
Sbjct: 310 LQTIIVGVINLTFTVLAIMTVDKFGRKPLQIIG-ALGMA-----IGMFSLGTAFYT 359
Score = 62.4 bits (152), Expect = 6e-11
Identities = 39/126 (30%), Positives = 63/126 (50%), Gaps = 13/126 (10%)
Query: 176 SLGLMVFQQFSGVNAVIFYSNDIFKSAGSTLDPGFSYIQDSLISMFDCIPFQVKGIATGI 235
SLG + Q G+ A++ +F A + G + L+S + P ++G A I
Sbjct: 352 SLGTAFYTQAPGIVALLSM---LFYVAAFAMSWG--PVCWVLLS--EIFPNAIRGKALAI 404
Query: 236 AVAVNWIGAFLVTLCF------GFLVRHFGSAATFWIFTVCCVVGTVFTFMVVPETKGKT 289
AVA WI + V+ F +LV HF + ++WI+ V+ +F + VPETKGKT
Sbjct: 405 AVAAQWIANYFVSWTFPMMDKNSWLVAHFHNGFSYWIYGCMGVLAALFMWKFVPETKGKT 464
Query: 290 LAQIQR 295
L +++
Sbjct: 465 LEEMEA 470
>gnl|CDD|129965 TIGR00887, 2A0109, phosphate:H+ symporter. This model represents
the phosphate uptake symporter subfamily of the major
facilitator superfamily (pfam00083) [Transport and
binding proteins, Anions].
Length = 502
Score = 47.8 bits (114), Expect = 4e-06
Identities = 23/85 (27%), Positives = 39/85 (45%), Gaps = 11/85 (12%)
Query: 222 DCIPFQVKGIATGIAVAVNWIGAFLVTLCFGFLVRHFGSAATF----------WIFTVCC 271
+ P + + A GI+ A GA + F +L +H + IF +
Sbjct: 419 EVFPTRYRSTAHGISAASGKAGAIIGQFGFLYLAQHGDPTKGYPTGIWMGHVLEIFALFM 478
Query: 272 VVGTVFTFMVVPETKGKTLAQIQRE 296
+G +FT ++ PETKGK+L ++ E
Sbjct: 479 FLGILFTLLI-PETKGKSLEELSGE 502
Score = 28.2 bits (63), Expect = 6.6
Identities = 23/76 (30%), Positives = 32/76 (42%), Gaps = 1/76 (1%)
Query: 90 IAIGCLAVPILLLVLFFLVVPETPIYLMKSGNNKKAEVSLRFYRGSRYDVPLELAAIQRE 149
I IG AVP LL + F L +PETP Y + + S E +++
Sbjct: 205 ILIGFGAVPALLALYFRLTIPETPRYTADVAKDVEQAASDMSAVLQVKIEA-EPDEVEKA 263
Query: 150 IDAAARKKASFSDLVS 165
A KAS+SD +
Sbjct: 264 STAVEVPKASWSDFFT 279
>gnl|CDD|119392 cd06174, MFS, The Major Facilitator Superfamily (MFS) is a large
and diverse group of secondary transporters that
includes uniporters, symporters, and antiporters. MFS
proteins facilitate the transport across cytoplasmic or
internal membranes of a variety of substrates including
ions, sugar phosphates, drugs, neurotransmitters,
nucleosides, amino acids, and peptides. They do so using
the electrochemical potential of the transported
substrates. Uniporters transport a single substrate,
while symporters and antiporters transport two
substrates in the same or in opposite directions,
respectively, across membranes. MFS proteins are
typically 400 to 600 amino acids in length, and the
majority contain 12 transmembrane alpha helices (TMs)
connected by hydrophilic loops. The N- and C-terminal
halves of these proteins display weak similarity and may
be the result of a gene duplication/fusion event. Based
on kinetic studies and the structures of a few bacterial
superfamily members, GlpT (glycerol-3-phosphate
transporter), LacY (lactose permease), and EmrD
(multidrug transporter), MFS proteins are thought to
function through a single substrate binding site,
alternating-access mechanism involving a rocker-switch
type of movement. Bacterial members function primarily
for nutrient uptake, and as drug-efflux pumps to confer
antibiotic resistance. Some MFS proteins have medical
significance in humans such as the glucose transporter
Glut4, which is impaired in type II diabetes, and
glucose-6-phosphate transporter (G6PT), which causes
glycogen storage disease when mutated.
Length = 352
Score = 42.7 bits (101), Expect = 1e-04
Identities = 13/66 (19%), Positives = 25/66 (37%)
Query: 217 LISMFDCIPFQVKGIATGIAVAVNWIGAFLVTLCFGFLVRHFGSAATFWIFTVCCVVGTV 276
L + P + +G A+G+ +G L L G L+ G F I ++ +
Sbjct: 287 LTLASELAPPEARGTASGLFNTFGSLGGALGPLLAGLLLDTGGYGGVFLILAALALLAAL 346
Query: 277 FTFMVV 282
++
Sbjct: 347 LLLLLP 352
Score = 28.0 bits (63), Expect = 7.1
Identities = 14/62 (22%), Positives = 25/62 (40%)
Query: 222 DCIPFQVKGIATGIAVAVNWIGAFLVTLCFGFLVRHFGSAATFWIFTVCCVVGTVFTFMV 281
+ P + +G A G+ A +GA L L G L G F I + ++ + +
Sbjct: 114 EWFPPKERGRALGLFSAGFGLGALLGPLLGGLLAESLGWRWLFLILAILGLLLALLLLFL 173
Query: 282 VP 283
+
Sbjct: 174 LR 175
>gnl|CDD|233176 TIGR00898, 2A0119, cation transport protein. [Transport and
binding proteins, Cations and iron carrying compounds].
Length = 505
Score = 38.8 bits (91), Expect = 0.003
Identities = 28/103 (27%), Positives = 51/103 (49%), Gaps = 8/103 (7%)
Query: 95 LAVPILLLVLFFLVVPETPIYLMKSGNNKKAEVSL-RFYRGSRYDVPLELAAIQREIDAA 153
+++P L L VPE+P +L+ G ++A L R + + +P E+ ++ E D +
Sbjct: 249 VSLPTFLFFLLSWFVPESPRWLISQGRIEEALKILQRIAKINGKKLPAEVLSLSLEKDLS 308
Query: 154 -ARKKASFSDLVSSRANLRALIISLGLMVFQQFSGVNAVIFYS 195
++K+ SF DL + NLR + L ++ F A +Y
Sbjct: 309 SSKKQYSFLDLFRTP-NLRKTTLCLMMLWF-----TTAFSYYG 345
>gnl|CDD|225133 COG2223, NarK, Nitrate/nitrite transporter [Inorganic ion transport
and metabolism].
Length = 417
Score = 35.7 bits (83), Expect = 0.024
Identities = 16/51 (31%), Positives = 23/51 (45%), Gaps = 1/51 (1%)
Query: 230 GIATGIAVAVNWIGAFLVTLCFGFLVRHFGSAAT-FWIFTVCCVVGTVFTF 279
G TGI A+ +G F + L FG + GS F + +V V T+
Sbjct: 348 GAVTGIVGAIGGLGGFFLPLAFGVSLDLTGSYTGAFMLLLAFYLVALVLTW 398
>gnl|CDD|236315 PRK08633, PRK08633, 2-acyl-glycerophospho-ethanolamine
acyltransferase; Validated.
Length = 1146
Score = 32.6 bits (75), Expect = 0.26
Identities = 11/49 (22%), Positives = 25/49 (51%), Gaps = 3/49 (6%)
Query: 239 VNWIGAFLVTLCFGFLVRHFG--SAATFWIFTVCCVVGTVFTFMVVPET 285
+ +G L L L G A F++ + ++GT++T +++P++
Sbjct: 366 LQNVGMLLF-LALTTLFSGLGLSPAGLFYLIALVTLIGTLYTLLLLPDS 413
>gnl|CDD|184957 PRK14995, PRK14995, methyl viologen resistance protein SmvA;
Provisional.
Length = 495
Score = 31.6 bits (72), Expect = 0.53
Identities = 18/61 (29%), Positives = 25/61 (40%)
Query: 229 KGIATGIAVAVNWIGAFLVTLCFGFLVRHFGSAATFWIFTVCCVVGTVFTFMVVPETKGK 288
+ +A G+ AV GA L G L+ HF + F I +V T VP G+
Sbjct: 129 RNMALGVWAAVGSGGAAFGPLVGGILLEHFYWGSVFLINVPIVLVVMGLTARYVPRQAGR 188
Query: 289 T 289
Sbjct: 189 R 189
>gnl|CDD|222345 pfam13727, CoA_binding_3, CoA-binding domain.
Length = 175
Score = 30.3 bits (69), Expect = 0.83
Identities = 9/46 (19%), Positives = 17/46 (36%)
Query: 237 VAVNWIGAFLVTLCFGFLVRHFGSAATFWIFTVCCVVGTVFTFMVV 282
V W L+ L F + S + V +V V + +++
Sbjct: 21 VLQAWTLVLLLLLLLSFSLGDAFSRLWLAYWFVLGLVLLVLSRLLL 66
>gnl|CDD|225180 COG2271, UhpC, Sugar phosphate permease [Carbohydrate transport and
metabolism].
Length = 448
Score = 30.7 bits (70), Expect = 0.94
Identities = 31/148 (20%), Positives = 52/148 (35%), Gaps = 25/148 (16%)
Query: 161 SDLV-SSRANLRALIISLGLMVFQQFSGVNAVIFY----SNDIFKSAGSTLDPGFS-YIQ 214
SD + R ALI L + +++ Y + A GF Y
Sbjct: 312 SDKLFKGRRGPMALIFMLLITA--------SLVLYWLAPNGSYLLDAILLFIIGFLIYGP 363
Query: 215 DSLISM--FDCIPFQVKGIATGIAVAVNW----IGAFLVTLCFGFLVRHFGSAATFWIFT 268
LI + + +P + G ATG V IGA L L G++ +G F + +
Sbjct: 364 QMLIGLAAAEFVPKKAAGTATGF---VGLFAYLIGAALAGLPLGYIADTWGWDGGFIVLS 420
Query: 269 VCCVVGTVF--TFMVVPETKGKTLAQIQ 294
+ ++ + E K + + Q
Sbjct: 421 IAALLAILLLLPVWNAEERKIRDEKKAQ 448
>gnl|CDD|219516 pfam07690, MFS_1, Major Facilitator Superfamily.
Length = 346
Score = 30.5 bits (69), Expect = 0.94
Identities = 18/71 (25%), Positives = 29/71 (40%)
Query: 229 KGIATGIAVAVNWIGAFLVTLCFGFLVRHFGSAATFWIFTVCCVVGTVFTFMVVPETKGK 288
+G A G+ A +GA L L G L FG A F I + ++ V +++P +
Sbjct: 119 RGRALGLLSAGFGLGAALGPLLGGLLASLFGWRAAFLILAILALLAAVLAALLLPRPPPE 178
Query: 289 TLAQIQRELGG 299
+ E
Sbjct: 179 SKRPKPAEEAP 189
>gnl|CDD|129977 TIGR00899, 2A0120, sugar efflux transporter. This family of
proteins is an efflux system for lactose, glucose,
aromatic glucosides and galactosides, cellobiose,
maltose, a-methyl glucoside and other sugar compounds.
They are found in both gram-negative and gram-postitive
bacteria [Transport and binding proteins, Carbohydrates,
organic alcohols, and acids].
Length = 375
Score = 30.1 bits (68), Expect = 1.4
Identities = 12/60 (20%), Positives = 22/60 (36%), Gaps = 1/60 (1%)
Query: 222 DCIPFQVKGIATGIAVAVNWIGAFLVTLCFGFLVRHFGSAATFWIFTVCCVVGTVFTFMV 281
D +P + G AT + +G + G L + A +W V +V ++
Sbjct: 315 DLMPGRA-GAATTLYTNTGRVGWIIAGSVGGILAERWSYHAVYWFAIVMLIVALFCLLLI 373
>gnl|CDD|222629 pfam14257, DUF4349, Domain of unknown function (DUF4349). This
family of proteins is found in bacteria and archaea.
Proteins in this family are typically between 282 and
353 amino acids in length. There is a single completely
conserved residue D that may be functionally important.
Length = 262
Score = 29.1 bits (66), Expect = 2.2
Identities = 22/116 (18%), Positives = 39/116 (33%), Gaps = 23/116 (19%)
Query: 142 ELAAIQREIDAAARKKASFSDLVSSRANLRALIISLGLMVFQQFSGVNAVIFYSNDIFKS 201
EL+ +Q EI++ + D V+ +S + V Y +
Sbjct: 170 ELSRVQAEIESLEAQLRYLDDRVA-------------------YSTIT-VTLYEPEALTP 209
Query: 202 AGSTLDPGFSYIQDSLISMFDCIPFQVKGIATGIAVAVNWIGAFLVTLCFGFLVRH 257
A GF D+L +D + + G+ + + W+ LV VR
Sbjct: 210 AEPGFGSGF---GDALREGWDALVAFLAGLLVFLGALLPWLPLLLVLALLVRWVRR 262
>gnl|CDD|215251 PLN02457, PLN02457, phenylalanine ammonia-lyase.
Length = 706
Score = 29.7 bits (67), Expect = 2.3
Identities = 29/85 (34%), Positives = 43/85 (50%), Gaps = 21/85 (24%)
Query: 145 AIQREIDA--------AARKKA----SF--SDLVSSRANLRALIISLGLMVFQQFSG-VN 189
+I+REI++ AR KA +F + + S N R I ++G ++F QFS VN
Sbjct: 363 SIEREINSVNDNPLIDVARDKALHGGNFQGTPIGVSMDNTRLAIAAIGKLMFAQFSELVN 422
Query: 190 AVIFYSNDIFK--SAG--STLDPGF 210
FY+N + S G +LD GF
Sbjct: 423 D--FYNNGLPSNLSGGRNPSLDYGF 445
>gnl|CDD|222228 pfam13567, DUF4131, Domain of unknown function (DUF4131). This
domain is frequently found to the N-terminus of the
Competence domain, pfam03772.
Length = 173
Score = 28.9 bits (65), Expect = 2.3
Identities = 8/57 (14%), Positives = 20/57 (35%), Gaps = 3/57 (5%)
Query: 230 GIATGIAVAVN---WIGAFLVTLCFGFLVRHFGSAATFWIFTVCCVVGTVFTFMVVP 283
GI +++ W+ L+ L L+ T + + ++G + +
Sbjct: 3 GILLADLLSLPLPLWLLLALLALLLLLLLYRRKRRRTLLLLLLLLLLGGLGLGLRAY 59
>gnl|CDD|213801 TIGR03350, type_VI_ompA, type VI secretion system OmpA/MotB family
protein. The flagellar motor protein MotB and the
Gram-negative bacterial outer membrane protein OmpA
share a region of sequence homology. This model
describes a domain found fused to type VI secretion
system homologs of the type IV system protein DotU (see
model TIGR03349), with OmpA/MotB homology [Protein fate,
Protein and peptide secretion and trafficking, Cellular
processes, Pathogenesis].
Length = 137
Score = 28.4 bits (64), Expect = 2.3
Identities = 13/63 (20%), Positives = 28/63 (44%), Gaps = 3/63 (4%)
Query: 170 LRALI---ISLGLMVFQQFSGVNAVIFYSNDIFKSAGSTLDPGFSYIQDSLISMFDCIPF 226
LRAL+ I+ GL+ + + V +++F S + + F + D + +P
Sbjct: 2 LRALLAPEIAAGLLTVDEDGDRSVVRLRGDELFASGSAEVRADFEPLLDRIAKALAAVPG 61
Query: 227 QVK 229
++
Sbjct: 62 RIT 64
>gnl|CDD|222060 pfam13347, MFS_2, MFS/sugar transport protein. This family is part
of the major facilitator superfamily of membrane
transport proteins.
Length = 425
Score = 29.1 bits (66), Expect = 2.9
Identities = 23/139 (16%), Positives = 46/139 (33%), Gaps = 31/139 (22%)
Query: 149 EIDAAARKKASFSDLVSSRANLRALIISLGLMVFQQFSGV---NAVIFYSNDIFKSAGST 205
+ ++K S D+ + R L+I L L + + +++Y + +AG
Sbjct: 200 SVPPEQKEKVSLRDMFKALFKNRPLLILLLLYLLNALAMAVRNGLLLYYFTYVLGNAG-- 257
Query: 206 LDPGFSYIQDSLISMFDCIPFQVKGIATGIAVAVNWIGAFLVTLCFGFLVRHFGSAATFW 265
+ + + I A L + +L + FG TF
Sbjct: 258 --------------------------LFSVLLLIGTIAAILGAPLWPWLAKRFGKKRTFL 291
Query: 266 IFTVCCVVGTVFTFMVVPE 284
+ + +G V F + P
Sbjct: 292 LGMLLAAIGLVLLFFLPPG 310
>gnl|CDD|214414 MTH00063, ND5, NADH dehydrogenase subunit 5; Provisional.
Length = 522
Score = 29.1 bits (66), Expect = 3.3
Identities = 22/108 (20%), Positives = 46/108 (42%), Gaps = 10/108 (9%)
Query: 175 ISLGLMVFQQFSGVNAVIFYSNDIFKSAGSTLDPGFSYIQDSLISMFDCIPFQVKGIATG 234
ISL L++ Q + V+FY +++F + S+L + D+L+ +F + + + + +
Sbjct: 422 ISLVLLLVQLLGLLVGVLFYDSNLFSNWSSSL-----FGCDNLVELFYELFYSILDLVS- 475
Query: 235 IAVAVNWIGAFLVTLCFGFLVRHFGSAATFWIFTVCCVVGTVFTFMVV 282
W +L+ L G V S W ++ F + +
Sbjct: 476 -LFFFRW-EIYLIELLCG--VGSSSSLLYSWFSLNLLLLSLFFLLIYL 519
>gnl|CDD|178937 PRK00227, glnD, PII uridylyl-transferase; Provisional.
Length = 693
Score = 29.0 bits (65), Expect = 3.4
Identities = 12/48 (25%), Positives = 19/48 (39%), Gaps = 1/48 (2%)
Query: 125 AEVSLRFYRGSRYDVPLELAAIQREIDAA-ARKKASFSDLVSSRANLR 171
+++L RY + E+A R ID A A+ + R R
Sbjct: 215 VDIALDLGFVDRYHLSREIADAARAIDDALTAALATARGALPRRTAFR 262
>gnl|CDD|191473 pfam06214, SLAM, Signaling lymphocytic activation molecule (SLAM)
protein. This family consists of several mammalian
signaling lymphocytic activation molecule (SLAM)
proteins. Optimal T cell activation and expansion
require engagement of the TCR plus co-stimulatory
signals delivered through accessory molecules. SLAM, a
70-kDa co-stimulatory molecule belonging to the Ig
superfamily, is defined as a human cell surface molecule
that mediates CD28-independent proliferation of human T
cells and IFN-gamma production by human Th1 and Th2
clones. SLAM has also been recognised as a receptor for
measles virus.
Length = 126
Score = 27.5 bits (61), Expect = 4.3
Identities = 17/59 (28%), Positives = 30/59 (50%), Gaps = 1/59 (1%)
Query: 19 EINFKETRTVSIIVTPAQNMASDERDNITLNMLQKEGDAPTYLSALGSFFQMFLTLGIL 77
IN +++ I+VT A++ + + I +++ EG +P YL F L+L IL
Sbjct: 51 RINKSMNKSIHILVTMAESPGNSVKKKI-VSLDLSEGGSPRYLEDGYKFHLENLSLRIL 108
>gnl|CDD|213357 cd12823, Mrs2_Mfm1p-like, Saccharomyces cerevisiae inner
mitochondrial membrane Mg2+ transporters Mfm1p and
Mrs2p-like family. A eukaryotic subfamily belonging to
the Escherichia coli CorA-Salmonella typhimurium
ZntB_like family (EcCorA_ZntB-like) family of the MIT
superfamily of essential membrane proteins involved in
transporting divalent cations (uptake or efflux) across
membranes. This functionally diverse subfamily includes
the inner mitochondrial membrane Mg2+ transporters
Saccharomyces cerevisiae Mfm1p/Lpe10p, Mrs2p, and human
MRS2/ MRS2L. It also includes a family of Arabidopsis
thaliana proteins (AtMGTs) some of which are localized
to distinct tissues, and not all of which can transport
Mg2+. Structures of the intracellular domain of two
EcCorA_ZntB-like family transporters: Vibrio
parahaemolyticus and Salmonella typhimurium ZntB form
funnel-shaped homopentamers, the tip of the funnel is
formed from two C-terminal transmembrane (TM) helices
from each monomer, and the large opening of the funnel
from the N-terminal cytoplasmic domains. The GMN
signature motif of the MIT superfamily occurs just after
TM1, mutation within this motif is known to abolish Mg2+
transport through Salmonella typhimurium CorA, and
Mrs2p. Natural variants such as GVN and GIN, as in some
ZntB family proteins, may be associated with the
transport of different divalent cations, such as zinc
and cadmium. The functional diversity of MIT
transporters may also be due to minor structural
differences regulating gating, substrate selection, and
transport.
Length = 323
Score = 28.4 bits (64), Expect = 4.5
Identities = 10/19 (52%), Positives = 13/19 (68%)
Query: 264 FWIFTVCCVVGTVFTFMVV 282
FWI T VVG++ F+VV
Sbjct: 296 FWIVTGGSVVGSILIFIVV 314
>gnl|CDD|225906 COG3371, COG3371, Predicted membrane protein [Function unknown].
Length = 181
Score = 28.1 bits (63), Expect = 4.8
Identities = 16/64 (25%), Positives = 26/64 (40%), Gaps = 5/64 (7%)
Query: 54 EGDAPTYLSALGSFFQMFLTLGILYL--YCLGLSTYTVIAIGCLAVPILLLVLFF---LV 108
EG P ++ F F+ + I + S + +IAI + L +L +
Sbjct: 97 EGTPPHVFVSILFFLLSFIAMLIYSIGRLLRNRSGFGLIAISIGIFSLALFILIKWVGVA 156
Query: 109 VPET 112
VPET
Sbjct: 157 VPET 160
>gnl|CDD|182964 PRK11102, PRK11102, bicyclomycin/multidrug efflux system;
Provisional.
Length = 377
Score = 28.3 bits (64), Expect = 4.9
Identities = 10/34 (29%), Positives = 17/34 (50%)
Query: 252 GFLVRHFGSAATFWIFTVCCVVGTVFTFMVVPET 285
G+L+ F A FW+ + ++ F +PET
Sbjct: 136 GWLLVWFSWHAIFWVLALAAILAAALVFFFIPET 169
>gnl|CDD|238431 cd00851, MTH1175, This uncharacterized conserved protein belongs to
a family of iron-molybdenum cluster-binding proteins
that includes NifX, NifB, and NifY, all of which are
involved in the synthesis of an iron-molybdenum cofactor
(FeMo-co) that binds the active site of the
dinitrogenase enzyme. This domain is a predicted
small-molecule-binding domain (SMBD) with an alpha/beta
fold that is present either as a stand-alone domain
(e.g. NifX and NifY) or fused to another conserved
domain (e.g. NifB) however, its function is still
undetermined.The SCOP database suggests that this domain
is most similar to structures within the ribonuclease H
superfamily. This conserved domain is represented in
two of the three major divisions of life (bacteria and
archaea).
Length = 103
Score = 26.9 bits (60), Expect = 5.2
Identities = 8/18 (44%), Positives = 10/18 (55%)
Query: 252 GFLVRHFGSAATFWIFTV 269
G + HFG A F I+ V
Sbjct: 12 GKVSPHFGRAPYFLIYDV 29
>gnl|CDD|233167 TIGR00881, 2A0104, phosphoglycerate transporter family protein.
[Transport and binding proteins, Carbohydrates, organic
alcohols, and acids].
Length = 379
Score = 28.1 bits (63), Expect = 6.1
Identities = 16/57 (28%), Positives = 22/57 (38%), Gaps = 2/57 (3%)
Query: 210 FSYIQDSLISMF--DCIPFQVKGIATGIAVAVNWIGAFLVTLCFGFLVRHFGSAATF 264
Y LI + + P + G A G ++G L L G+L FG A F
Sbjct: 323 LVYGPQMLIGVIASELAPKKAAGTAAGFVGFFAYLGGILAGLPLGYLADGFGWAGAF 379
>gnl|CDD|223809 COG0738, FucP, Fucose permease [Carbohydrate transport and
metabolism].
Length = 422
Score = 28.0 bits (63), Expect = 6.1
Identities = 12/66 (18%), Positives = 28/66 (42%), Gaps = 2/66 (3%)
Query: 222 DCIPFQVKGIATGIAVAVNWIGAFLVTLCFGFLVRHFGSAATFWIFTVCCVVGTVFTFMV 281
+ + + +A+ +G ++ G + FG TF I + C + +F ++
Sbjct: 351 KNLGEHTSVGSGLLVMAI--VGGAIIPPLQGVIADMFGIQLTFLIVPLLCYLYVLFFALI 408
Query: 282 VPETKG 287
++KG
Sbjct: 409 GKKSKG 414
>gnl|CDD|184134 PRK13549, PRK13549, xylose transporter ATP-binding subunit;
Provisional.
Length = 506
Score = 28.0 bits (63), Expect = 6.8
Identities = 16/44 (36%), Positives = 17/44 (38%)
Query: 116 LMKSGNNKKAEVSLRFYRGSRYDVPLELAAIQREIDAAARKKAS 159
+M G N RF GSR D EL I I K AS
Sbjct: 355 VMGVGKNITLAALDRFTGGSRIDDAAELKTILESIQRLKVKTAS 398
>gnl|CDD|202474 pfam02932, Neur_chan_memb, Neurotransmitter-gated ion-channel
transmembrane region. This family includes the four
transmembrane helices that form the ion channel.
Length = 228
Score = 27.6 bits (62), Expect = 7.0
Identities = 6/16 (37%), Positives = 10/16 (62%)
Query: 264 FWIFTVCCVVGTVFTF 279
WIF + V+GT+ +
Sbjct: 213 RWIFPIAFVLGTLVYW 228
>gnl|CDD|238315 cd00562, NifX_NifB, This CD represents a family of iron-molybdenum
cluster-binding proteins that includes NifB, NifX, and
NifY, all of which are involved in the synthesis of an
iron-molybdenum cofactor (FeMo-co) that binds the active
site of the dinitrogenase enzyme. This domain is a
predicted small-molecule-binding domain (SMBD) with an
alpha/beta fold that is present either as a stand-alone
domain (e.g. NifX and NifY) or fused to another
conserved domain (e.g. NifB) however, its function is
still undetermined.The SCOP database suggests that this
domain is most similar to structures within the
ribonuclease H superfamily. This conserved domain is
represented in two of the three major divisions of life
(bacteria and archaea).
Length = 102
Score = 26.4 bits (59), Expect = 7.4
Identities = 8/18 (44%), Positives = 11/18 (61%)
Query: 252 GFLVRHFGSAATFWIFTV 269
G + +HFG A F I+ V
Sbjct: 10 GRVDQHFGRAPEFLIYEV 27
>gnl|CDD|235503 PRK05561, PRK05561, DNA topoisomerase IV subunit A; Validated.
Length = 742
Score = 28.1 bits (64), Expect = 7.6
Identities = 16/53 (30%), Positives = 26/53 (49%), Gaps = 6/53 (11%)
Query: 125 AE--VSLRFYRGSRYDVPLELAAIQREIDAAARKKASFSDLVSSRANLRALII 175
AE + LR R ++ LE I++E D ++ A +++S LR LI
Sbjct: 423 AEAILELRLRRLAK----LEEIEIRKEQDELRKEIAELEAILASERKLRKLIK 471
>gnl|CDD|216973 pfam02324, Glyco_hydro_70, Glycosyl hydrolase family 70. Members
of this family belong to glycosyl hydrolase family 70
Glucosyltransferases or sucrose 6-glycosyl transferases
(GTF-S) catalyze the transfer of D-glucopyramnosyl units
from sucrose onto acceptor molecules, EC:2.4.1.5. This
family roughly corresponds to the N-terminal catalytic
domain of the enzyme. Members of this family also
contain the Putative cell wall binding domain pfam01473,
which corresponds with the C-terminal glucan-binding
domain.
Length = 808
Score = 27.8 bits (62), Expect = 8.7
Identities = 22/68 (32%), Positives = 32/68 (47%), Gaps = 6/68 (8%)
Query: 144 AAIQREIDAAARKKASFSDLV-SSRANLRALIISLGLMVFQQFSG-----VNAVIFYSND 197
A+ +++ AA A+ V S A L + +I G FQ F+ N VI + D
Sbjct: 534 ASDNQDVRVAASTTANTDGKVYHSNAALDSQVIYEGFSNFQDFATKPSQYTNKVIAQNVD 593
Query: 198 IFKSAGST 205
+FKS G T
Sbjct: 594 LFKSWGIT 601
>gnl|CDD|182876 PRK10974, PRK10974, glycerol-3-phosphate transporter periplasmic
binding protein; Provisional.
Length = 438
Score = 27.8 bits (62), Expect = 8.8
Identities = 13/31 (41%), Positives = 19/31 (61%), Gaps = 2/31 (6%)
Query: 178 GLMVFQQFSGVNAVIFYSNDIFKSAGSTLDP 208
G ++ Q F+ V++Y+ D FK AG LDP
Sbjct: 135 GHLLSQPFNSSTPVLYYNKDAFKKAG--LDP 163
>gnl|CDD|234092 TIGR03023, WcaJ_sugtrans, Undecaprenyl-phosphate glucose
phosphotransferase. This family of proteins encompasses
the E. coli WcaJ protein involved in colanic acid
biosynthesis , the Methylobacillus EpsB protein involved
in methanolan biosynthesis , as well as the GumD protein
involved in the biosynthesis of xanthan. All of these
are closely related to the well-characterized WbaP
(formerly RfbP) protein which is the first enzyme in
O-antigen biosynthesis in Salmonella typhimurium. The
enzyme transfers galactose from UDP-galactose (NOTE: not
glucose) to a polyprenyl carrier (utilizing the highly
conserved C-terminal sugar transferase domain,
pfam02397) a reaction which takes place at the
cytoplasmic face of the inner membrane. The N-terminal
hydrophobic domain is then believed to facilitate the
"flippase" function of transferring the liposaccharide
unit from the cytoplasmic face to the periplasmic face
of the inner membrane. Most of these genes are found
within large operons dedicated to the production of
complex exopolysaccharides such as the enterobacterial
O-antigen. Colanic acid biosynthesis utilizes a
glucose-undecaprenyl carrier , knockout of EpsB
abolishes incorporation of UDP-glucose into the lipid
phase and the C-terminal portion of GumD has been shown
to be responsible for the glucosyl-1-transferase
activity.
Length = 451
Score = 27.5 bits (62), Expect = 9.1
Identities = 6/54 (11%), Positives = 23/54 (42%), Gaps = 6/54 (11%)
Query: 235 IAVAVNWIGAFLVTLCFGFLVRHFGS-----AATFWIFTVC-CVVGTVFTFMVV 282
+ + + W FL+ FL+++ +++ + ++G + +++
Sbjct: 65 LRILLAWTLTFLILALLAFLLKYGTEFSRLWLLLWFLLALALLLLGRLILRLLL 118
>gnl|CDD|224223 COG1304, idi, Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and
related proteins) [Coenzyme transport and metabolism].
Length = 360
Score = 27.6 bits (62), Expect = 9.4
Identities = 8/35 (22%), Positives = 10/35 (28%)
Query: 135 SRYDVPLELAAIQREIDAAARKKASFSDLVSSRAN 169
+ PL L I DAA + S
Sbjct: 215 KEWAGPLVLKGILAPEDAAGAGGTGADGIEVSNHG 249
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
0.326 0.141 0.415
Gapped
Lambda K H
0.267 0.0765 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 15,468,275
Number of extensions: 1516870
Number of successful extensions: 2724
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2698
Number of HSP's successfully gapped: 127
Length of query: 301
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 205
Effective length of database: 6,679,618
Effective search space: 1369321690
Effective search space used: 1369321690
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 (21.7 bits)
S2: 59 (26.4 bits)