RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 016527
(388 letters)
>gnl|CDD|219619 pfam07885, Ion_trans_2, Ion channel. This family includes the two
membrane helix type ion channels found in bacteria.
Length = 74
Score = 64.5 bits (158), Expect = 2e-13
Identities = 29/75 (38%), Positives = 41/75 (54%), Gaps = 4/75 (5%)
Query: 107 VLLSIYLFVGVVIYSFNTDHFSGVETHPVVDALYFCIVTMCTIGYGDIAPLTPATKVFAC 166
+LL + L G V YS +DALYF VT+ TIGYGDI PLT A ++F
Sbjct: 1 ILLLLVLIFGTVYYSLE----EEGWGWDFLDALYFSFVTLTTIGYGDIVPLTDAGRLFTI 56
Query: 167 LFVLVGFGFIDILLS 181
+++L+G + L+
Sbjct: 57 IYILIGIPLFLLFLA 71
Score = 56.8 bits (138), Expect = 1e-10
Identities = 22/74 (29%), Positives = 37/74 (50%), Gaps = 4/74 (5%)
Query: 234 VVVLCIAIGALILFFLE----DLDWLDSFYLSVMSVTTVGYGDRAFKTLPGRFFAAIWLL 289
+++L + I + + LE D+LD+ Y S +++TT+GYGD T GR F I++L
Sbjct: 1 ILLLLVLIFGTVYYSLEEEGWGWDFLDALYFSFVTLTTIGYGDIVPLTDAGRLFTIIYIL 60
Query: 290 FSTLMVARAFLYLA 303
+ L
Sbjct: 61 IGIPLFLLFLAVLG 74
>gnl|CDD|236711 PRK10537, PRK10537, voltage-gated potassium channel; Provisional.
Length = 393
Score = 47.7 bits (114), Expect = 6e-06
Identities = 21/61 (34%), Positives = 30/61 (49%), Gaps = 4/61 (6%)
Query: 105 AFVLLSIYLFVGVVIYSFNTDHFSGVETHPVVDALYFCIVTMCTIGYGDIAPLTPATKVF 164
+ L Y G + D FS + A YF IVTM T+GYGDI P++ + ++F
Sbjct: 143 SITSLLFYSTFGALYLG---DGFSPP-IESLSTAFYFSIVTMSTVGYGDIVPVSESARLF 198
Query: 165 A 165
Sbjct: 199 T 199
Score = 31.9 bits (73), Expect = 0.51
Identities = 11/28 (39%), Positives = 17/28 (60%)
Query: 258 FYLSVMSVTTVGYGDRAFKTLPGRFFAA 285
FY S+++++TVGYGD + R F
Sbjct: 173 FYFSIVTMSTVGYGDIVPVSESARLFTI 200
>gnl|CDD|238008 cd00051, EFh, EF-hand, calcium binding motif; A diverse superfamily
of calcium sensors and calcium signal modulators; most
examples in this alignment model have 2 active canonical
EF hands. Ca2+ binding induces a conformational change
in the EF-hand motif, leading to the activation or
inactivation of target proteins. EF-hands tend to occur
in pairs or higher copy numbers.
Length = 63
Score = 36.4 bits (85), Expect = 0.002
Identities = 16/55 (29%), Positives = 27/55 (49%), Gaps = 5/55 (9%)
Query: 332 DMNHNGFISKSEYVIFKLKEMG-KIGEKDISQICNQFNRLDPNNCGKITLPDLLE 385
D + +G IS E LK +G + E++I ++ +D + GKI + LE
Sbjct: 10 DKDGDGTISADELKAA-LKSLGEGLSEEEIDEM---IREVDKDGDGKIDFEEFLE 60
>gnl|CDD|222177 pfam13499, EF_hand_5, EF-hand domain pair.
Length = 60
Score = 34.6 bits (80), Expect = 0.005
Identities = 12/57 (21%), Positives = 27/57 (47%), Gaps = 1/57 (1%)
Query: 330 AADMNHNGFISKSEYVIFKLKEMGKIGEKDISQICNQ-FNRLDPNNCGKITLPDLLE 385
D + +G+I E K+ ++++ ++ FN +D + G+I+ + LE
Sbjct: 2 LLDKDGDGYIDVEELRKLLKALGLKLTDEEVEELIEADFNEIDKDGDGRISFEEFLE 58
>gnl|CDD|215625 PLN03192, PLN03192, Voltage-dependent potassium channel;
Provisional.
Length = 823
Score = 37.2 bits (86), Expect = 0.016
Identities = 34/132 (25%), Positives = 54/132 (40%), Gaps = 28/132 (21%)
Query: 81 LRDVQQQTSQVPKPKSESSFIIRQAFVLLSIYLFV-----------------------GV 117
LR V+Q +++ K S F IR LLS+ LF+ G
Sbjct: 179 LRRVKQLFTRLEKDIRFSYFWIR-CARLLSVTLFLVHCAGCLYYLIADRYPHQGKTWIGA 237
Query: 118 VIYSFNTDHFSGVETHPVVDALYFCIVTMCTIGYGDIAPLTPATKVFACLFVLVGFGFID 177
VI +F + A+Y+ I TM T+GYGD+ + +F ++L G
Sbjct: 238 VIPNFRETSLW----IRYISAIYWSITTMTTVGYGDLHAVNTIEMIFIIFYMLFNLGLTA 293
Query: 178 ILLSGVVNYVLD 189
L+ + N V++
Sbjct: 294 YLIGNMTNLVVE 305
Score = 31.4 bits (71), Expect = 1.1
Identities = 19/54 (35%), Positives = 28/54 (51%), Gaps = 3/54 (5%)
Query: 241 IGALILFFLEDLDWL---DSFYLSVMSVTTVGYGDRAFKTLPGRFFAAIWLLFS 291
IGA+I F E W+ + Y S+ ++TTVGYGD F ++LF+
Sbjct: 235 IGAVIPNFRETSLWIRYISAIYWSITTMTTVGYGDLHAVNTIEMIFIIFYMLFN 288
>gnl|CDD|217009 pfam02386, TrkH, Cation transport protein. This family consists of
various cation transport proteins (Trk) and V-type
sodium ATP synthase subunit J or translocating ATPase J
EC:3.6.1.34. These proteins are involved in active
sodium up-take utilising ATP in the process. TrkH a
member of the family from E. coli is a hydrophobic
membrane protein and determines the specificity and
kinetics of cation transport by the TrK system in E.
coli.
Length = 334
Score = 34.6 bits (80), Expect = 0.079
Identities = 40/186 (21%), Positives = 70/186 (37%), Gaps = 18/186 (9%)
Query: 93 KPKSESSFII---RQAFVLLSIYLFVGVVIYSFNTDH--FSGVETHPVVDALYFCIVTMC 147
K K S F+ R+ F+LL L + I + + + +F + +
Sbjct: 114 KKKELSLFLKDHPRRTFLLL---LPGFITILLLEVLVVLLASLPLGSRILNAFFQVSSTR 170
Query: 148 TIGYG--DIAPLTPATKVFACLFVLVGF--GFIDILLSGVVNYVLDLQENMILTGIQMGK 203
T G+ D++ L+PATKV L + +G G + + V+ N I G
Sbjct: 171 TAGFSTIDLSQLSPATKVLLMLLMFIGGSPGSTAGGIKTITFAVILKALNWINRAFLPGA 230
Query: 204 VKEGFSARDYIVDVAKGRMRIRLKVGLALGVVVLCIAIGALILFFLEDLDWLDSFYLSVM 263
V+ + + ++ L ++CI G L+L + DS + V
Sbjct: 231 VE----PVKFGGRHLREQLIRDA-WAFFLLYFLICIFEG-LLLSLTGYDPFFDSLFEVVS 284
Query: 264 SVTTVG 269
+ TVG
Sbjct: 285 AFGTVG 290
>gnl|CDD|215968 pfam00520, Ion_trans, Ion transport protein. This family contains
Sodium, Potassium, Calcium ion channels. This family is
6 transmembrane helices in which the last two helices
flank a loop which determines ion selectivity. In some
sub-families (e.g. Na channels) the domain is repeated
four times, whereas in others (e.g. K channels) the
protein forms as a tetramer in the membrane. A bacterial
structure of the protein is known for the last two
helices but is not the Pfam family due to it lacking the
first four helices.
Length = 194
Score = 33.4 bits (77), Expect = 0.11
Identities = 20/81 (24%), Positives = 36/81 (44%), Gaps = 14/81 (17%)
Query: 106 FVLLSIYLFVGVVIYSFNTDHFSGVETHPVVD---------ALYFCIVTMCTIGYGDI-- 154
+LL I+ +GV ++ D +P+ AL + T+ T G+GD+
Sbjct: 102 LLLLFIFAIIGVQLFGGELDKCCDKNENPINGNSNFDSYGEALLWLFRTLTTEGWGDVMY 161
Query: 155 ---APLTPATKVFACLFVLVG 172
P T K+F +F+++G
Sbjct: 162 DTLVPGTVLGKIFFVIFIILG 182
Score = 29.2 bits (66), Expect = 2.9
Identities = 18/99 (18%), Positives = 34/99 (34%), Gaps = 18/99 (18%)
Query: 222 MRIRLKVGLALGVVVLCIAIGALILFFLEDLDW-----------------LDSFYLSVMS 264
++ L + L L +++ AI + LF E ++ +
Sbjct: 91 LKSLLNLLLLLLLLLFIFAIIGVQLFGGELDKCCDKNENPINGNSNFDSYGEALLWLFRT 150
Query: 265 VTTVGYGDRAFKTLPGRFFAAIWLLFSTLMVARAFLYLA 303
+TT G+GD + TL + F ++ L L
Sbjct: 151 LTTEGWGDVMYDTLVPGTVLG-KIFFVIFIILGGVLLLN 188
>gnl|CDD|182164 PRK09953, wcaD, putative colanic acid biosynthesis protein;
Provisional.
Length = 404
Score = 31.4 bits (71), Expect = 0.73
Identities = 22/82 (26%), Positives = 34/82 (41%), Gaps = 4/82 (4%)
Query: 227 KVGLALGVVVLCIAIGALILFFLEDLDWLDSFYLSVMSVTTVGY-GDRAFKTLPGRFFAA 285
K+ +ALG+ A L L+ ++ S L V V +G FKT+
Sbjct: 54 KLMIALGIGAGLTAFNYLFGQSLDASKYVTSTMLFVYIVIIIGMVWSIRFKTISPHNHRK 113
Query: 286 IWLLFS---TLMVARAFLYLAE 304
I F L+VA A + +A+
Sbjct: 114 ILRFFYLVVGLVVALAAVEMAQ 135
>gnl|CDD|215733 pfam00122, E1-E2_ATPase, E1-E2 ATPase.
Length = 222
Score = 30.6 bits (70), Expect = 0.92
Identities = 12/46 (26%), Positives = 25/46 (54%), Gaps = 1/46 (2%)
Query: 218 AKGRMRIRL-KVGLALGVVVLCIAIGALILFFLEDLDWLDSFYLSV 262
AK ++ L K+ L +VL +AI +++F D+L++ ++
Sbjct: 136 AKTPLQRLLDKLAKILVPIVLALAILVFLIWFFRGGDFLEALLRAL 181
>gnl|CDD|217493 pfam03324, Herpes_HEPA, Herpesvirus DNA helicase/primase complex
associated protein. This family includes HSV UL8, EHV-1
54, VZV 52 AND HCMV 102.
Length = 93
Score = 28.4 bits (64), Expect = 2.0
Identities = 15/50 (30%), Positives = 28/50 (56%), Gaps = 3/50 (6%)
Query: 202 GKVKEGFSARDYIVDVAKGRMRIRLKVGLALGVVVL---CIAIGALILFF 248
G++ + F RDY++ +A R+ +R+ V +V+ C+ AL+ FF
Sbjct: 1 GRILDIFEPRDYVLRLAGRRVTVRVLVPRGFDCLVVNDECLWNLALVAFF 50
>gnl|CDD|220617 pfam10177, DUF2371, Uncharacterized conserved protein (DUF2371).
This is a family of proteins conserved from nematodes to
humans. The function is not known.
Length = 142
Score = 29.0 bits (65), Expect = 2.2
Identities = 12/34 (35%), Positives = 20/34 (58%), Gaps = 2/34 (5%)
Query: 215 VDVAKGRMRIRLKVG--LALGVVVLCIAIGALIL 246
V V +G++R+ G L LGV++L + I +L
Sbjct: 28 VVVVRGKLRLVSASGRALILGVLILLVGIAMAVL 61
>gnl|CDD|217393 pfam03154, Atrophin-1, Atrophin-1 family. Atrophin-1 is the
protein product of the dentatorubral-pallidoluysian
atrophy (DRPLA) gene. DRPLA OMIM:125370 is a progressive
neurodegenerative disorder. It is caused by the
expansion of a CAG repeat in the DRPLA gene on
chromosome 12p. This results in an extended
polyglutamine region in atrophin-1, that is thought to
confer toxicity to the protein, possibly through
altering its interactions with other proteins. The
expansion of a CAG repeat is also the underlying defect
in six other neurodegenerative disorders, including
Huntington's disease. One interaction of expanded
polyglutamine repeats that is thought to be pathogenic
is that with the short glutamine repeat in the
transcriptional coactivator CREB binding protein, CBP.
This interaction draws CBP away from its usual nuclear
location to the expanded polyglutamine repeat protein
aggregates that are characteristic of the polyglutamine
neurodegenerative disorders. This interferes with
CBP-mediated transcription and causes cytotoxicity.
Length = 979
Score = 30.4 bits (68), Expect = 2.2
Identities = 19/98 (19%), Positives = 29/98 (29%), Gaps = 3/98 (3%)
Query: 4 EPFLGSQTRPQHQL-EAILEEEHDHDTLHTVPQSL--SSPHIFNEIENLDQPQSQAPPES 60
+P SQ PQ + + H +P +L + + N QP A +
Sbjct: 245 QPQTASQQSPQPPAPSSRHPQSSHHGPGPPMPHALQQGPVFLQHPSSNPPQPFGLAQSQV 304
Query: 61 STTWKPGSLHRSKTAPALVVLRDVQQQTSQVPKPKSES 98
P P QQ + P P + S
Sbjct: 305 PPLPLPSQAQPHSHTPPSQSALQPQQPPREQPLPPAPS 342
>gnl|CDD|222957 PHA02994, PHA02994, hypothetical protein; Provisional.
Length = 218
Score = 29.6 bits (67), Expect = 2.4
Identities = 6/26 (23%), Positives = 12/26 (46%)
Query: 346 IFKLKEMGKIGEKDISQICNQFNRLD 371
+ K+K++ + I ICN +
Sbjct: 192 VNKIKKLKTLKNSSIDNICNDMKSIS 217
>gnl|CDD|205383 pfam13202, EF_hand_3, EF hand.
Length = 25
Score = 26.1 bits (59), Expect = 2.4
Identities = 9/21 (42%), Positives = 11/21 (52%), Gaps = 1/21 (4%)
Query: 325 IDDLL-AADMNHNGFISKSEY 344
+ DL D N +G ISK E
Sbjct: 1 LKDLFRQFDTNGDGKISKEEL 21
>gnl|CDD|219656 pfam07947, YhhN, YhhN-like protein. The members of this family are
similar to the hypothetical protein yhhN expressed by E.
coli. Many of the members of this family are annotated
as being possible transmembrane proteins, and in fact
they all have a high proportion of hydrophobic residues.
Length = 182
Score = 29.1 bits (66), Expect = 2.8
Identities = 20/87 (22%), Positives = 38/87 (43%), Gaps = 3/87 (3%)
Query: 213 YIVDVAKGRMRIRLKVGLALGVVVLCIAIGALILFFLEDLDWLDSFY---LSVMSVTTVG 269
YIV + ++ L+ LAL ++V A+ AL+ L +L + Y +S M+ +
Sbjct: 66 YIVAFLRRQLSSPLRWPLALLLLVAGAALFALLWPRLGELKVPVAAYILVISAMAWAALE 125
Query: 270 YGDRAFKTLPGRFFAAIWLLFSTLMVA 296
+ A+ + S L++A
Sbjct: 126 RYLLSTLAGLLAALGALLFVLSDLLLA 152
>gnl|CDD|233196 TIGR00933, 2a38, potassium uptake protein, TrkH family. The
proteins of the Trk family are derived from
Gram-negative and Gram-positive bacteria, yeast and
wheat. The proteins of E. coli K12 TrkH and TrkG as well
as several yeast proteins have been functionally
characterized.The E. coli TrkH and TrkG proteins are
complexed to two peripheral membrane proteins, TrkA, an
NAD-binding protein, and TrkE, an ATP-binding protein.
This complex forms the potassium uptake system
[Transport and binding proteins, Cations and iron
carrying compounds].
Length = 390
Score = 29.5 bits (67), Expect = 3.2
Identities = 31/184 (16%), Positives = 58/184 (31%), Gaps = 37/184 (20%)
Query: 107 VLLSIYLFVGVVIYSFNTDHFSGVETHPVVD---ALYFCIVTMCTIGYG--DIAPLTPAT 161
+ ++ L I + + + ++ + +F T+ T G+ D A L AT
Sbjct: 201 LFVTFLLLAIGFILFLLLERGNTLYSYSFGALLLSAFFQSSTLRTAGFSTIDFAALPTAT 260
Query: 162 KVFACLFVLVG------------FGFIDILLSGVVNYVLDLQENMILTGIQMGKVKEGFS 209
V L + +G F ILL V + I+ ++
Sbjct: 261 LVLLLLLMFIGGCSGSTAGGIKTTTFA-ILLKQVYREIRRGIHPRIIFSR---RIGGKTI 316
Query: 210 ARDYIVDVAKGRMRIRLKVGLALGVVVLCIAIGALILFFL--EDLDWLDSFYLSVMSVTT 267
+ ++ V ++ I L + L D+L S + V + T
Sbjct: 317 DKAILISV--------------WSFFLVFALIFLLSILELISSGYDFLTSLFEVVSAFGT 362
Query: 268 VGYG 271
VG
Sbjct: 363 VGLS 366
>gnl|CDD|215685 pfam00060, Lig_chan, Ligand-gated ion channel. This family
includes the four transmembrane regions of the
ionotropic glutamate receptors and NMDA receptors.
Length = 268
Score = 29.2 bits (66), Expect = 3.2
Identities = 12/79 (15%), Positives = 28/79 (35%), Gaps = 17/79 (21%)
Query: 234 VVVLCIAIG-ALILFFLEDL---DW------------LDSFYLSVMSVTTVGYGDRAFKT 277
+ +L + ++LF LE +W +S + ++
Sbjct: 4 LCILAAYLLVGVVLFLLERFSPYEWRGPPEEPNQFTLSNSLWF-SFGALVQQGHRELPRS 62
Query: 278 LPGRFFAAIWLLFSTLMVA 296
L GR +W F+ ++++
Sbjct: 63 LSGRILVGVWWFFALILLS 81
>gnl|CDD|185503 PTZ00183, PTZ00183, centrin; Provisional.
Length = 158
Score = 28.5 bits (64), Expect = 3.6
Identities = 12/31 (38%), Positives = 18/31 (58%), Gaps = 1/31 (3%)
Query: 354 KIGEKDI-SQICNQFNRLDPNNCGKITLPDL 383
K+GE+D +I F D + GKI+L +L
Sbjct: 82 KLGERDPREEILKAFRLFDDDKTGKISLKNL 112
>gnl|CDD|225451 COG2898, COG2898, Uncharacterized conserved protein [Function
unknown].
Length = 538
Score = 29.2 bits (66), Expect = 3.9
Identities = 17/73 (23%), Positives = 32/73 (43%), Gaps = 4/73 (5%)
Query: 231 ALGVVVLCIAIGALILFFLEDLDWLDSFYLSVMSVTTVGYGDRAF---KTLPGRFFAAIW 287
+ L + I L+L + L W+++ L +++V + G RAF L + + W
Sbjct: 80 RAWIAALIVLILGLVLSLAKGLAWIEAAVLFLIAVLLLA-GRRAFYRKSLLLVQSISPGW 138
Query: 288 LLFSTLMVARAFL 300
L + +A A
Sbjct: 139 LAAFIVALAAANW 151
>gnl|CDD|237240 PRK12870, ubiA, 4-hydroxybenzoate polyprenyltransferase; Reviewed.
Length = 290
Score = 28.8 bits (65), Expect = 4.2
Identities = 17/43 (39%), Positives = 25/43 (58%), Gaps = 6/43 (13%)
Query: 223 RIRLKVGLALGVVVLCIAIGALILFFLEDLDWLDSFYLSVMSV 265
R+ +KVG+ + +V L A A + FFL L SF+L V +V
Sbjct: 89 RLSVKVGIVIAIVALLCA--AGLAFFLNPL----SFWLCVAAV 125
>gnl|CDD|237253 PRK12898, secA, preprotein translocase subunit SecA; Reviewed.
Length = 656
Score = 28.8 bits (65), Expect = 5.3
Identities = 22/82 (26%), Positives = 31/82 (37%), Gaps = 16/82 (19%)
Query: 249 LEDLDWLDSFYLSVMSVTTVGYGDRAFKTLPGRFFAAIWLLFSTLMVARAFLYLAEARID 308
LED D L SF S G R + L R + L A+ R +
Sbjct: 585 LED-DLLQSFLGSR------GLAIRRMELLGPRGGR---------ALGALLLRRAQRRAE 628
Query: 309 KRHRRIAKWVLQREITIDDLLA 330
+ H R + +L + +D LLA
Sbjct: 629 RLHARARRALLHADEQLDKLLA 650
>gnl|CDD|223551 COG0475, KefB, Kef-type K+ transport systems, membrane components
[Inorganic ion transport and metabolism].
Length = 397
Score = 28.7 bits (65), Expect = 5.3
Identities = 7/50 (14%), Positives = 25/50 (50%), Gaps = 1/50 (2%)
Query: 221 RMRIRLKVGLALGVVVLCIAIGALILFFLEDLDWLDSFYL-SVMSVTTVG 269
++ + +G+A + +G L+L + L + + +L + +++++
Sbjct: 84 KVGRSVGLGVAQVGLTAPFLLGLLLLLGILGLSLIAALFLGAALALSSTA 133
>gnl|CDD|203842 pfam08032, SpoU_sub_bind, RNA 2'-O ribose methyltransferase
substrate binding. This domain is a RNA 2'-O ribose
methyltransferase substrate binding domain.
Length = 74
Score = 26.8 bits (60), Expect = 5.4
Identities = 14/47 (29%), Positives = 22/47 (46%), Gaps = 7/47 (14%)
Query: 300 LYLAEARIDKRHRRIAKWVLQREITID-------DLLAADMNHNGFI 339
LY+ E R D R + + K +R I + D L+ +NH G +
Sbjct: 21 LYVTEGRRDPRLKELLKLAKKRGIKVIEVSEKVLDKLSGTVNHQGVV 67
>gnl|CDD|100080 cd06159, S2P-M50_PDZ_Arch, Uncharacterized Archaeal homologs of
Site-2 protease (S2P), zinc metalloproteases (MEROPS
family M50) which cleave transmembrane domains of
substrate proteins, regulating intramembrane proteolysis
(RIP) of diverse signal transduction mechanisms. Members
of the S2P/M50 family of RIP proteases use proteolytic
activity within the membrane to transfer information
across membranes to integrate gene expression with
physiologic stresses occurring in another cellular
compartment. In eukaryotic cells they regulate such
processes as sterol and lipid metabolism, and
endoplasmic reticulum stress responses. In prokaryotes
they regulate such processes as sporulation, cell
division, stress response, and cell differentiation.
This group appears to be limited to Archaeal S2P/M50s
homologs with additional putative N-terminal
transmembrane spanning regions, relative to the core
protein, and either one or two PDZ domains present.
Length = 263
Score = 28.0 bits (63), Expect = 7.1
Identities = 17/49 (34%), Positives = 27/49 (55%), Gaps = 3/49 (6%)
Query: 216 DVAKGRMRIRLKVGLALGVVV-LCIAIGALILFFLEDLDWLDSFYLSVM 263
++ K RIRL++ A GV +A+ A LFFL + W++ F L +
Sbjct: 161 ELNKADRRIRLRI-FAAGVTANFVVALIAFALFFLYWIFWIN-FLLGLF 207
>gnl|CDD|217678 pfam03699, UPF0182, Uncharacterized protein family (UPF0182). This
family contains uncharacterized integral membrane
proteins.
Length = 771
Score = 28.3 bits (64), Expect = 8.2
Identities = 22/85 (25%), Positives = 31/85 (36%), Gaps = 18/85 (21%)
Query: 225 RLKVGLALGVVVLCIAIGALILFFLEDLDWLDSF-YLSVMSVTTVGYGDRAFKTLPGRFF 283
R KV + L +VVL + + +L+ D W YLSV T R
Sbjct: 2 RSKVLIILAIVVLLLLLISLLADLYTDWLWFKELGYLSV--FWT-------------RLL 46
Query: 284 A--AIWLLFSTLMVARAFLYLAEAR 306
++LL + FL L A
Sbjct: 47 TRIGLFLLVFLIFFLFLFLNLLLAY 71
>gnl|CDD|227171 COG4834, COG4834, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 334
Score = 28.0 bits (62), Expect = 8.4
Identities = 11/31 (35%), Positives = 14/31 (45%)
Query: 293 LMVARAFLYLAEARIDKRHRRIAKWVLQREI 323
L+ R YL R D + I +VLQ I
Sbjct: 221 LLPGRVMNYLVSTRSDNSDKTILHYVLQNNI 251
>gnl|CDD|217495 pfam03326, Herpes_TAF50, Herpesvirus transcription activation
factor (transactivator). This family includes EBV BRLF1
and similar ORF 50 proteins from other herpesviruses.
Length = 500
Score = 28.2 bits (63), Expect = 8.9
Identities = 24/102 (23%), Positives = 37/102 (36%), Gaps = 5/102 (4%)
Query: 4 EPFLGSQTRPQHQLEAILEEEHDHDTLHTVPQSLSSPHIFNEIENLDQPQSQAPPESSTT 63
EP L + + L +L+ + L T LS H F +L QPQS P S+
Sbjct: 181 EPGLLAASDAD--LSELLQN--PEEILETRASPLSQFHGFTPHPSLPQPQSPLKPSPSSA 236
Query: 64 WKPGSLHRSKTAPALVVLRDVQQQTSQVPKPKSESSFIIRQA 105
+P ++ +++ P S SS A
Sbjct: 237 -RPQQSESFSDVWPASTQSPREETSAEPLAPASPSSRRPSTA 277
>gnl|CDD|223802 COG0730, COG0730, Predicted permeases [General function prediction
only].
Length = 258
Score = 27.7 bits (62), Expect = 9.4
Identities = 19/89 (21%), Positives = 33/89 (37%), Gaps = 3/89 (3%)
Query: 228 VGLALGVVVLCIAIGALILFFLEDLDWLDSFYLSVMSVTTVGYGDRAFKTLPGRFFAAIW 287
+G +L V+ AL ++DW + L + ++ G LP +
Sbjct: 47 LGTSLLAVLFTSLSSALAYLKRGNVDWKLALILLLGALIGAFLGALLALLLPAELLKLL- 105
Query: 288 LLFSTLMVARAFLYLAEARIDKRHRRIAK 316
F L++ A L R+ K R A+
Sbjct: 106 --FGLLLLLLALYMLLGPRLAKAEDRAAR 132
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
0.325 0.140 0.418
Gapped
Lambda K H
0.267 0.0718 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 20,614,647
Number of extensions: 2086075
Number of successful extensions: 3275
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3255
Number of HSP's successfully gapped: 95
Length of query: 388
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 289
Effective length of database: 6,546,556
Effective search space: 1891954684
Effective search space used: 1891954684
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 60 (26.9 bits)