RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy461
(507 letters)
>gnl|CDD|215646 pfam00001, 7tm_1, 7 transmembrane receptor (rhodopsin family).
This family contains, amongst other G-protein-coupled
receptors (GCPRs), members of the opsin family, which
have been considered to be typical members of the
rhodopsin superfamily. They share several motifs, mainly
the seven transmembrane helices, GCPRs of the rhodopsin
superfamily. All opsins bind a chromophore, such as
11-cis-retinal. The function of most opsins other than
the photoisomerases is split into two steps: light
absorption and G-protein activation. Photoisomerases, on
the other hand, are not coupled to G-proteins - they are
thought to generate and supply the chromophore that is
used by visual opsins.
Length = 251
Score = 156 bits (396), Expect = 2e-44
Identities = 62/173 (35%), Positives = 93/173 (53%), Gaps = 5/173 (2%)
Query: 71 VFTYKPLRIVQNFFIVSLAVADLTVAIFVLPLSLIYYLSGRWIFGIIICKIWLTSDVLCC 130
+ K LR N F+++LAVADL + + P +L Y + G W FG +CK+ V+
Sbjct: 3 ILRTKKLRTPTNIFLLNLAVADLLFLLTLPPWALYYLVGGDWPFGDALCKLVGFLFVVNG 62
Query: 131 TASILNLCAIALDRYWAITDPLVYAQQRTIKRVMMMIMYVWLLSALISSPPLIGWNDWPE 190
ASIL L AI++DRY AI PL Y + RT +R ++I+ VW+L+ L+S PPL+
Sbjct: 63 YASILLLTAISIDRYLAIVHPLRYRRIRTPRRAKVLILVVWVLALLLSLPPLLFSWLRTV 122
Query: 191 VFEADTPCQLT-----QQRGYVVYSSLGSFFIPLAIMTLVYVEIFLATKKRLR 238
T C + +R Y + S+L F +PL ++ + Y I +KR R
Sbjct: 123 EEGNVTTCLIDFPEESTKRSYTLLSTLLGFVLPLLVILVCYTLILRTLRKRAR 175
Score = 79.3 bits (196), Expect = 1e-16
Identities = 27/79 (34%), Positives = 43/79 (54%), Gaps = 2/79 (2%)
Query: 407 QVVKQFIEEKQKISLSKERRAARTLGIIMGVFVFCWLPFFLMYVSLPFCDTC--CMSDRL 464
+ + + K S SKER+AA+ L +++ VFV CWLP+ ++ + C +
Sbjct: 173 RARSGASQARAKRSSSKERKAAKMLLVVVVVFVLCWLPYHIVLLLDSLCPLSIWRLLPTA 232
Query: 465 INFITWLGYINSGINPIIY 483
+ WL Y+NS +NPIIY
Sbjct: 233 LLITLWLAYVNSCLNPIIY 251
>gnl|CDD|222976 PHA03087, PHA03087, G protein-coupled chemokine receptor-like
protein; Provisional.
Length = 335
Score = 69.4 bits (170), Expect = 7e-13
Identities = 40/170 (23%), Positives = 83/170 (48%), Gaps = 3/170 (1%)
Query: 15 TADISVCVEEEKQYYPSAFFNNIEYSVPEWEAIITMICL-STLIIGTIIGNIMVVISVFT 73
I + Y + + + ++ +I + ST+ ++GNI +VI V T
Sbjct: 8 NTTIENTTDYYYDTYYDEDYADCDLNIGYDTNSTILIVVYSTIFFFGLVGNI-IVIYVLT 66
Query: 74 YKPLRIVQNFFIVSLAVADLTVAIFVLPLSLIYYLSGRWIFGIIICKIWLTSDVLCCTAS 133
++ + ++++LAV+DL + + LP + YY+ +W FG CKI + S
Sbjct: 67 KTKIKTPMDIYLLNLAVSDL-LFVMTLPFQIYYYILFQWSFGEFACKIVSGLYYIGFYNS 125
Query: 134 ILNLCAIALDRYWAITDPLVYAQQRTIKRVMMMIMYVWLLSALISSPPLI 183
+ + +++DRY AI P+ + T+K ++ + +W++S + ++P L
Sbjct: 126 MNFITVMSVDRYIAIVHPVKSNKINTVKYGYIVSLVIWIISIIETTPILF 175
Score = 32.8 bits (75), Expect = 0.35
Identities = 23/84 (27%), Positives = 41/84 (48%), Gaps = 8/84 (9%)
Query: 423 KERRAARTLGIIMGVFVFCWLPF----FLMYVSLPFCDTCCMSDRLINFITWLGYI---- 474
K ++A + + II+ +FV WLPF F+ + + + C + + I + + I
Sbjct: 238 KNKKAIKLVLIIVILFVIFWLPFNVSVFVYSLHILHFKSGCKAVKYIQYALHVTEIISLS 297
Query: 475 NSGINPIIYTIFNLDFRKSFKRLL 498
+ INP+IY + F K K+ L
Sbjct: 298 HCCINPLIYAFVSEFFNKHKKKSL 321
>gnl|CDD|165021 PHA02638, PHA02638, CC chemokine receptor-like protein;
Provisional.
Length = 417
Score = 64.6 bits (157), Expect = 4e-11
Identities = 63/249 (25%), Positives = 113/249 (45%), Gaps = 34/249 (13%)
Query: 29 YPSAFFNNIEYSV---------PEWEAIITMICLSTLIIGTIIGNIMVVISVFTYKPLRI 79
Y + NNI Y + P I + + I+G + GN +++ +F K ++
Sbjct: 73 YDYEYENNITYELINIKNKCMYPSISEYIKIFYIIIFILG-LFGNAAIIMILF-CKKIKT 130
Query: 80 VQNFFIVSLAVADLTVAIFVLPLSLIYYLS-GRWIFGIIICKIWLTSDVLCCTASILNLC 138
+ + +I +LA++DL IFV+ I Y +WIFG +CK+ S + +++ +
Sbjct: 131 ITDIYIFNLAISDL---IFVIDFPFIIYNEFDQWIFGDFMCKVISASYYIGFFSNMFLIT 187
Query: 139 AIALDRYWAITDPLVYAQQRTIKRVMMMIMYVWLLSALISSPPLIGWNDWPEVFEADTP- 197
+++DRY+AI P+ + + RT +++ + W+LS +I+SP + +F A
Sbjct: 188 LMSIDRYFAILYPISFQKYRTFNIGIILCIISWILSLIITSPAYFIFEASNIIFSAQDSN 247
Query: 198 -------CQLTQQRGYVVYSSLG----------SFFIPLAIMTLVYVEIFLATKKRLRDR 240
C L + S LG FIP+ I Y++I L K+ L+
Sbjct: 248 ETISNYQCTLIEDNEKNNISFLGRILQFEINILGMFIPIIIFAFCYIKIILKLKQ-LKKS 306
Query: 241 AKASKLNIV 249
K + IV
Sbjct: 307 KKTKSIIIV 315
>gnl|CDD|165177 PHA02834, PHA02834, chemokine receptor-like protein; Provisional.
Length = 323
Score = 47.6 bits (113), Expect = 8e-06
Identities = 50/212 (23%), Positives = 100/212 (47%), Gaps = 24/212 (11%)
Query: 50 MICLSTLIIGTIIGNIMVVISVFTYKPLRIVQNFFIVSLAVADLTVAIFVLPLSLIYYLS 109
++ L I +IGN++V I+V K V + ++ ++A++DL + +F P +I+
Sbjct: 32 IVFYILLFIFGLIGNVLV-IAVLIVKRFMFVVDVYLFNIAMSDLML-VFSFPF-IIHNDL 88
Query: 110 GRWIFGIIICKIWLTSDVLCCTASILNLCAIALDRYWAITDPLVYAQQRTIKRVMMMIMY 169
WIFG +CK+ L + +++ + I++DRY + + + ++I +++ +
Sbjct: 89 NEWIFGEFMCKLVLGVYFVGFFSNMFFVTLISIDRYILVVNA-TKIKNKSISLSVLLSVA 147
Query: 170 VWLLSALISSPPLIGWNDWPEVFEADTPCQLTQQ--RGYVVYSSLGSFF----------I 217
W+ S ++S P ++ ++ D L Q Y S +FF I
Sbjct: 148 AWVCSVILSMPAMV-------LYYVDNTDNLKQCIFNDYHENFSWSAFFNFEINIFGIVI 200
Query: 218 PLAIMTLVYVEIFLATKKRLRDRAKASKLNIV 249
PL I+ Y +I L T K +++ K + I+
Sbjct: 201 PLIILIYCYSKI-LYTLKNCKNKNKTRSIKII 231
Score = 29.5 bits (66), Expect = 4.2
Identities = 22/92 (23%), Positives = 42/92 (45%), Gaps = 12/92 (13%)
Query: 423 KERRAARTLGIIMGVFVFC---WLPFFLMYV-----SLPFCDTCCMSDRLI----NFITW 470
K + R++ II+ V F W+PF ++ S+ D C + I +
Sbjct: 220 KNKNKTRSIKIILTVVTFTVVFWVPFNIVLFINSLQSVGLIDIGCYHFKKIVYSIDIAEL 279
Query: 471 LGYINSGINPIIYTIFNLDFRKSFKRLLNKVS 502
+ +++ +NPIIY +F+K FK + + +
Sbjct: 280 ISFVHCCVNPIIYAFVGKNFKKVFKNMFCRTN 311
>gnl|CDD|223017 PHA03235, PHA03235, DNA packaging protein UL33; Provisional.
Length = 409
Score = 39.0 bits (91), Expect = 0.004
Identities = 50/224 (22%), Positives = 82/224 (36%), Gaps = 28/224 (12%)
Query: 46 AIITMICLSTLIIGTIIGNIMVVISVFTYKPLRIVQNFFIVSLAVADLTVA----IFVLP 101
A T ++ LII +G + +I + T V F +L + +L +A +FVLP
Sbjct: 31 ARTTETFINLLII--SVGGPLNLIVLVTQLLANRVHGFSTPTLYMTNLYLANLLTVFVLP 88
Query: 102 LSLIYYLSGRWIFG--IIICKIWLTSDVLCCTASILNLCAIALDRYWAITDPLVYAQQRT 159
+ LS + + + CK CT + IA DRY I A+
Sbjct: 89 FIM---LSNQGLLSGSVAGCKFASLLYYASCTVGFATVALIAADRYRVI-HQRTRARSSA 144
Query: 160 IKRVMMMIMYVWLLSALISSPP-----LIGWNDWPEVFEADTPCQLTQQRGYVVYSSLGS 214
+ ++ W S + S P ++ +D C + R V + L +
Sbjct: 145 YRSTYKILGLTWFASLICSGPAPVYTTVVAHDDVDPEAPGYETC-VIYFRADQVKTVLST 203
Query: 215 F---------FIPLAIMTLVYVEIFLATKKRLRDRAKASKLNIV 249
F P+ +MT Y F T KR + ++ L V
Sbjct: 204 FKVLLTLVWGIAPVVMMTWFYT-FFYRTLKRASYKKRSRTLTFV 246
>gnl|CDD|220695 pfam10328, 7TM_GPCR_Srx, Serpentine type 7TM GPCR chemoreceptor
Srx. Chemoreception is mediated in Caenorhabditis
elegans by members of the seven-transmembrane
G-protein-coupled receptor class (7TM GPCRs) of proteins
which are of the serpentine type. Srx is part of the Srg
superfamily of chemoreceptors. Chemoperception is one of
the central senses of soil nematodes like C. elegans
which are otherwise 'blind' and 'deaf'.
Length = 275
Score = 37.6 bits (88), Expect = 0.009
Identities = 39/225 (17%), Positives = 85/225 (37%), Gaps = 42/225 (18%)
Query: 57 IIGTIIGNIMVVISVFTYKPLRIVQNFFIVSLAVAD----LTVAIFVLPLSLIYYLSG-- 110
+ G I+ N ++ L+ + A+++ +V+P++L+
Sbjct: 5 LFGIIL-NWLIFYIFLKLPSLKNSFGILCANKAISNAIICTIFLFYVVPMTLLDLSFLPE 63
Query: 111 ---RWIFGIIICKIWLTSDVLCCTASILNLCAIALDRYWAITDPLVYAQQRTIKRVMMMI 167
I G+I+ ++ S L I+L+R+ A+ P Y + +IK ++I
Sbjct: 64 LLNSHIGGLILLGLYE--------ISPLTHLLISLNRFCAVFFPFKYKKIFSIKNTKIII 115
Query: 168 MYVWLLSALIS-------------SPPLIGWNDWPEVFEADTPCQLTQQRGYVVYSSLGS 214
++W+++ +IS SP + W + + P +L
Sbjct: 116 TFIWIIAIIISTLFYFPLGCHFYYSPESLTW--SFD----EDPPCAEIGWYGDFLKNLVL 169
Query: 215 FFIPLAIMTLVYVEIFLATKKRLRDRAKASK-----LNIVKQTTL 254
I I + ++++ +KK ++ K +N KQT +
Sbjct: 170 VIITNIINVITFIKLRKFSKKSSLSSEESKKRRKKEINFFKQTVI 214
>gnl|CDD|240338 PTZ00262, PTZ00262, subtilisin-like protease; Provisional.
Length = 639
Score = 34.6 bits (79), Expect = 0.15
Identities = 26/126 (20%), Positives = 52/126 (41%), Gaps = 5/126 (3%)
Query: 259 KEVQSPLEPESISSENDTKSGKHKNKKRKKTKK-KNVQKNNNNNNNSFLRPVLINEDSMT 317
++ SP + + ++ + K K RKK K + + N+ + SF + L+ E+ ++
Sbjct: 93 QQESSPPQVSHLLQDDSHNMDEMKTKLRKKKKILRLIVSENHATSPSFFQESLLEENVVS 152
Query: 318 DIQDLSSSSNKIAARNDNMGEFVHINNNETTFTNKTISDDISLASIKSDKK--PNNGNGC 375
+ SN + + F I + E + + +L I+SDK + C
Sbjct: 153 FLGSKGRLSNLKNIHSYIIELFSDITDRELKNYIQLLESKGAL--IESDKLVHADEIGIC 210
Query: 376 HVKTPV 381
+K V
Sbjct: 211 GIKDAV 216
>gnl|CDD|192535 pfam10320, 7TM_GPCR_Srsx, Serpentine type 7TM GPCR chemoreceptor
Srsx. Chemoreception is mediated in Caenorhabditis
elegans by members of the seven-transmembrane
G-protein-coupled receptor class (7TM GPCRs) of proteins
which are of the serpentine type. Srsx is a solo family
amongst the superfamilies of chemoreceptors.
Chemoperception is one of the central senses of soil
nematodes like C. elegans which are otherwise 'blind'
and 'deaf'.
Length = 257
Score = 33.3 bits (77), Expect = 0.20
Identities = 41/201 (20%), Positives = 78/201 (38%), Gaps = 26/201 (12%)
Query: 56 LIIGTIIGNIMVVISVFTYKPLRIVQNFFIVSLAVADLTVAIFVLPLSLI----YYLSGR 111
+IG I GN++++I F K LR ++ I +ADL + ++ L+
Sbjct: 1 SVIG-IFGNVIMIILTFKKKKLRSKCSYLICVQCLADLLCLSGEIIFVVLLFTGTQLTRN 59
Query: 112 WIFGIIICKIWLTSDVLCCTASILNLCAIALDRYWAITDPLVYAQQRTIKRVMMMIMYVW 171
F III + TA + I +DR A+ P+ Y + K + + +++
Sbjct: 60 ECFLIII------PYIFGQTAQSPLMLMIGIDRLIAVKFPIFYRLLSSSKYLFIQLIFPV 113
Query: 172 LLSALISSPPLIGWNDWPEVFEADTPCQ------LTQQRGYVVYSSLGSFFIPLAIMTLV 225
+ S+ I + G+ E D L +L S I + ++ +
Sbjct: 114 IYSSFIL---VYGF------LERDDETIIVCAPPLALNGTAFRIFTLSSVIINVIVLIVY 164
Query: 226 YVEIFLATKKRLRDRAKASKL 246
+ I + KK + + K+
Sbjct: 165 IILIIIFKKKGQTTNSDSKKV 185
>gnl|CDD|206271 pfam14102, Caps_synth_CapC, Capsule biosynthesis CapC. This family
of proteins play a role in capsule biosynthesis. They
are essential for gamma-polyglutamic acid (PGA)
production.
Length = 121
Score = 31.0 bits (71), Expect = 0.44
Identities = 13/66 (19%), Positives = 27/66 (40%), Gaps = 13/66 (19%)
Query: 65 IMVVISVFTYKPLRIVQNFFI------------VSLAVADLTVAIFVLPLSLIYYLSGRW 112
+ ++IS+ TY +R++ F I + + + L + FV+ +Y
Sbjct: 39 VTLLISILTYLIVRLLSRFTILYGRRRFAAMLLIGVVLR-LLLDGFVIYPFPPFYQYELR 97
Query: 113 IFGIII 118
G I+
Sbjct: 98 SIGFIV 103
>gnl|CDD|218316 pfam04893, Yip1, Yip1 domain. The Yip1 integral membrane domain
contains four transmembrane alpha helices. The domain is
characterized by the motifs DLYGP and GY. The Yip1
protein is a golgi protein involved in vesicular
transport that interacts with GTPases.
Length = 171
Score = 31.6 bits (72), Expect = 0.56
Identities = 16/89 (17%), Positives = 36/89 (40%), Gaps = 4/89 (4%)
Query: 30 PSAFFNNIEYSVPE---WEAIITMICLSTLIIGTIIGNIMVVISVFTYKPLRIVQNFFIV 86
PS F I P W ++ + L TL++G ++ ++ + + +
Sbjct: 5 PSEAFRRIREEPPPRAPWLPLLLLALL-TLLLGLLLALLLGWLLGSGETIQGLTGGSALG 63
Query: 87 SLAVADLTVAIFVLPLSLIYYLSGRWIFG 115
S+ L + + + L+L+ +L + G
Sbjct: 64 SIIGGYLGLLLGLFLLALLLHLIAKLFGG 92
>gnl|CDD|215521 PLN02967, PLN02967, kinase.
Length = 581
Score = 32.3 bits (73), Expect = 0.60
Identities = 14/63 (22%), Positives = 25/63 (39%), Gaps = 3/63 (4%)
Query: 256 NVQKEVQSPLEPESISSENDTKSGKHKNKKRKKTKKKNVQKNNNNNNNSFLRPVLINEDS 315
+ +K + E EN S K + K+ KK V + + +++NED+
Sbjct: 48 SRKKIESALAVDEE-PDENGAVSKKKPTRSVKRATKKTVVEISEPLEEG--SELVVNEDA 104
Query: 316 MTD 318
D
Sbjct: 105 ALD 107
>gnl|CDD|223836 COG0765, HisM, ABC-type amino acid transport system, permease
component [Amino acid transport and metabolism].
Length = 222
Score = 31.7 bits (73), Expect = 0.72
Identities = 18/94 (19%), Positives = 41/94 (43%), Gaps = 9/94 (9%)
Query: 31 SAFFNNIEYSVPEWEAIITMICLS--TLIIGTIIGNIMVVISVFTYKPLRIVQNFFI--- 85
A N++Y + ++ + L+ ++++G ++G ++ ++ + KPLR + ++
Sbjct: 6 GALLLNLDYLPFLLKGLLVTLLLTLLSIVLGLVLGLLLALMRLSGNKPLRWLARAYVEIF 65
Query: 86 --VSLAVADLTVAIFVLPLSLIYYLSGRWIFGII 117
L V L F L L L + +I
Sbjct: 66 RGTPLLVQ-LFFIYFGLLPLLGIELD-PFTAAVI 97
>gnl|CDD|217502 pfam03343, SART-1, SART-1 family. SART-1 is a protein involved in
cell cycle arrest and pre-mRNA splicing. It has been
shown to be a component of U4/U6 x U5 tri-snRNP complex
in human, Schizosaccharomyces pombe and Saccharomyces
cerevisiae. SART-1 is a known tumour antigen in a range
of cancers recognised by T cells.
Length = 603
Score = 32.0 bits (73), Expect = 0.79
Identities = 25/128 (19%), Positives = 46/128 (35%), Gaps = 15/128 (11%)
Query: 231 LATKKRLRDRAKASKLNIVKQTTLHNVQKEVQSPLEPESISSENDTKSGKHKNKKRKKTK 290
L + D A+ + + K+ ++NV + S P +S+ S K KK KK K
Sbjct: 226 LDSGGSTDDEAEKKRQEVKKKLKINNVSLDDDSTETP---ASDYYDVSEMVKFKKPKK-K 281
Query: 291 KKNVQKNNNNNNNSFLRPVLINEDSMTDIQDLSSSSNKIAARNDNMGEFVHINNNETTFT 350
KK +K ++ + + S+ +R D E + ++
Sbjct: 282 KKKKKKRRK-----------DLDEDELEPEAEGLGSSDSGSRKDVEEENARLEDSPKKRK 330
Query: 351 NKTISDDI 358
+ DD
Sbjct: 331 EEQEDDDF 338
Score = 30.5 bits (69), Expect = 2.2
Identities = 31/183 (16%), Positives = 60/183 (32%), Gaps = 34/183 (18%)
Query: 280 KHKNKKRKKTKKKNVQKNNNNNNNSFLRPVL------INED------SMT-DIQDLSSSS 326
K K+KK + KKK + ++++ R +L I T D +
Sbjct: 176 KEKDKKNLELKKKKPDYDPDDDDKFNKRSILSKYDEEIEGKKKKSDNLFTLDSGGSTDDE 235
Query: 327 NKI---AARNDNMGEFVHINNNETTFTNKTISDDISLASIKSDKKPNNGNGCHVK----- 378
+ + V ++++ T D + K KK K
Sbjct: 236 AEKKRQEVKKKLKINNVSLDDDSTETPASDYYDVSEMVKFKKPKKKKKKKKKRRKDLDED 295
Query: 379 --TPVPHELNLKSTSVKSEV---SIVVIQAPSTQVVKQFI-------EEKQKISLSKERR 426
P L + + +V + + +P + +Q ++ Q SL+K+RR
Sbjct: 296 ELEPEAEGLGSSDSGSRKDVEEENARLEDSPKKRKEEQEDDDFVEDDDDLQA-SLAKQRR 354
Query: 427 AAR 429
A+
Sbjct: 355 LAQ 357
>gnl|CDD|233917 TIGR02544, III_secr_YscJ, type III secretion apparatus lipoprotein,
YscJ/HrcJ family. All members of this protein family
are predicted lipoproteins with a conserved Cys near the
N-terminus for cleavage and modification, and are part
of known or predicted type III secretion systems.
Members are found in both plant and animal pathogens,
including the obligately intracellular chlamydial
species and (non-pathogenic) root nodule bacteria. The
most closely related proteins outside this family are
examples of the flagellar M-ring protein FliF [Protein
fate, Protein and peptide secretion and trafficking,
Cellular processes, Pathogenesis].
Length = 193
Score = 31.1 bits (71), Expect = 0.93
Identities = 17/90 (18%), Positives = 32/90 (35%), Gaps = 13/90 (14%)
Query: 359 SLASIKSDKKPNNGNGCHVKTPVPHE--------LNLKSTSVKSEVSIVVIQA-PSTQVV 409
I ++K+ + G + V L + V++ + P +V
Sbjct: 39 MRHGIDAEKEGSGKGGYTIS--VEESDFARAVELLRQYGLPRQRFVNL--GELFPKDGLV 94
Query: 410 KQFIEEKQKISLSKERRAARTLGIIMGVFV 439
EE+ + + E+R +TL I GV
Sbjct: 95 SSPQEERARYLYAIEQRLEQTLSQIDGVIS 124
>gnl|CDD|150884 pfam10278, Med19, Mediator of RNA pol II transcription subunit 19.
Med19 represents a family of conserved proteins which
are members of the multi-protein co-activator Mediator
complex. Mediator is required for activation of RNA
polymerase II transcription by DNA binding
transactivators.
Length = 178
Score = 30.6 bits (69), Expect = 1.4
Identities = 13/42 (30%), Positives = 19/42 (45%), Gaps = 1/42 (2%)
Query: 255 HNVQKEVQSPLEPESISSENDTKSGKHKNKKRKKTKKKNVQK 296
H + Q PL E+ S K + K+KK+K K +K
Sbjct: 117 HKKHR-TQDPLPEETPSDSEGLKGHEKKHKKKKHEDDKERKK 157
>gnl|CDD|236304 PRK08581, PRK08581, N-acetylmuramoyl-L-alanine amidase; Validated.
Length = 619
Score = 31.3 bits (71), Expect = 1.4
Identities = 12/111 (10%), Positives = 41/111 (36%), Gaps = 7/111 (6%)
Query: 268 ESISSENDTKSGKHKNKKRKKTKKKNVQKNNNNNNNSFLRPV-------LINEDSMTDIQ 320
+ ++ + N +K + + ++NN + + + L+ ++ D
Sbjct: 58 KDTDKADNNNTSNQDNNDKKFSTIDSSTSDSNNIIDFIYKNLPQTNINQLLTKNKYDDNY 117
Query: 321 DLSSSSNKIAARNDNMGEFVHINNNETTFTNKTISDDISLASIKSDKKPNN 371
L++ + N ++ ++ N+E + + + D S+ + +
Sbjct: 118 SLTTLIQNLFNLNSDISDYEQPRNSEKSTNDSNKNSDSSIKNDTDTQSSKQ 168
>gnl|CDD|217401 pfam03169, OPT, OPT oligopeptide transporter protein. The OPT
family of oligopeptide transporters is distinct from the
ABC pfam00005 and PTR pfam00854 transporter families.
OPT transporters were first recognised in fungi (Candida
albicans and Schizosaccharomyces pombe), but this
alignment also includes orthologues from Arabidopsis
thaliana. OPT transporters are thought to have 12-14
transmembrane domains and contain the following motif:
SPYxEVRxxVxxxDDP.
Length = 619
Score = 31.1 bits (71), Expect = 1.4
Identities = 21/112 (18%), Positives = 38/112 (33%), Gaps = 23/112 (20%)
Query: 41 VPEWEAIITMICLSTLIIGTIIGNIMVVISVFTYKPLRIVQNFFIVSLAVADLTVAIFVL 100
VP W + G ++ ++ + V P ++ +++L +A +F +
Sbjct: 349 VPMW----------WYLAGLVLSLVLGIALVAALFPTQLPVWGLLLALLLA----FVFAI 394
Query: 101 PLSLIYYLSGRW------IFGIIICKIWLTSDV---LCCTASILNLCAIALD 143
P + I L+G I +I L L N A A D
Sbjct: 395 PSAYIAGLTGSSPVSGLGILTELIAGYVLPGRPLANLIFGGVGYNAAAQAGD 446
>gnl|CDD|219947 pfam08639, SLD3, DNA replication regulator SLD3. The SLD3 DNA
replication regulator is required for loading and
maintenance of Cdc45 on chromatin during DNA
replication.
Length = 437
Score = 30.6 bits (69), Expect = 2.0
Identities = 22/81 (27%), Positives = 35/81 (43%), Gaps = 18/81 (22%)
Query: 256 NVQKEVQSPLEPESISSENDTKSGKHKNKKRKKTKKKNVQKNNNNNNNSFLRPVLINE-- 313
+KE + L S+N +S + K +KRKK KK+++ PVL++
Sbjct: 125 KFEKEYKKKLLK---RSQNLDRSKRRKRRKRKKNKKQDL-------------PVLLDLHL 168
Query: 314 DSMTDIQDLSSSSNKIAARND 334
D + LSSS K +
Sbjct: 169 DRLCIWDALSSSETKAPDESS 189
>gnl|CDD|119394 cd06261, TM_PBP2, Transmembrane subunit (TM) found in Periplasmic
Binding Protein (PBP)-dependent ATP-Binding Cassette
(ABC) transporters which generally bind type 2 PBPs.
These types of transporters consist of a PBP, two TMs,
and two cytoplasmic ABC ATPase subunits, and are mainly
involved in importing solutes from the environment. The
solute is captured by the PBP which delivers it to a
gated translocation pathway formed by the two TMs. The
two ABCs bind and hydrolyze ATP and drive the transport
reaction. For these transporters the ABCs and TMs are on
independent polypeptide chains. These systems transport
a diverse range of substrates. Most are specific for a
single substrate or a group of related substrates;
however some transporters are more promiscuous,
transporting structurally diverse substrates such as the
histidine/lysine and arginine transporter in
Enterobacteriaceae. In the latter case, this is achieved
through binding different PBPs with different
specificities to the TMs. For other promiscuous
transporters such as the multiple-sugar transporter Msm
of Streptococcus mutans, the PBP has a wide substrate
specificity. These transporters include the
maltose-maltodextrin, phosphate and sulfate
transporters, among others.
Length = 190
Score = 29.9 bits (68), Expect = 2.4
Identities = 10/76 (13%), Positives = 31/76 (40%), Gaps = 1/76 (1%)
Query: 50 MICLSTLIIGTIIGNIMVVISVFTYKPL-RIVQNFFIVSLAVADLTVAIFVLPLSLIYYL 108
++ L ++ ++G ++ +I L R+++ + L++ L + + ++ L +
Sbjct: 6 LLALIATLLALVLGLLLGIILARKRGKLDRLLRRIIDLLLSLPSLVLGLLLVLLFGVLLG 65
Query: 109 SGRWIFGIIICKIWLT 124
G + I
Sbjct: 66 WGILPGLGLPALILAL 81
>gnl|CDD|100078 cd05709, S2P-M50, Site-2 protease (S2P) class of zinc
metalloproteases (MEROPS family M50) cleaves
transmembrane domains of substrate proteins, regulating
intramembrane proteolysis (RIP) of diverse signal
transduction mechanisms. Members of this family use
proteolytic activity within the membrane to transfer
information across membranes to integrate gene
expression with physiologic stresses occurring in
another cellular compartment. The domain core structure
appears to contain at least three transmembrane helices
with a catalytic zinc atom coordinated by three
conserved residues contained within the consensus
sequence HExxH, together with a conserved aspartate
residue. The S2P/M50 family of RIP proteases is widely
distributed; in eukaryotic cells, they regulate such
processes as sterol and lipid metabolism, and
endoplasmic reticulum (ER) stress responses. In
sterol-depleted mammalian cells, a two-step proteolytic
process releases the N-terminal domains of sterol
regulatory element-binding proteins (SREBPs) from
membranes of the ER. These domains translocate into the
nucleus, where they activate genes of cholesterol and
fatty acid biosynthesis. It is the second proteolytic
step that is carried out by the SREBP Site-2 protease
(S2P) which is present in this CD superfamily.
Prokaryotic S2P/M50 homologs have been shown to regulate
stress responses, sporulation, cell division, and cell
differentiation. In Escherichia coli, the S2P homolog
RseP is involved in the sigmaE pathway of
extracytoplasmic stress responses, and in Bacillus
subtilis, the S2P homolog SpoIVFB is involved in the
pro-sigmaK pathway of spore formation. Some of the
subfamilies within this hierarchy contain one or two PDZ
domain insertions, with putative regulatory roles, such
as the inhibition of substrate cleavage as seen by the
RseP PDZ domain.
Length = 180
Score = 29.5 bits (67), Expect = 2.7
Identities = 13/59 (22%), Positives = 21/59 (35%), Gaps = 7/59 (11%)
Query: 432 GIIMGVF--VFCWLPFFLMYVSLPFCDTCCMSDRLINFITWLGYINSGINPIIYTIFNL 488
G + + + L L+ P S L N + +L IN + +FNL
Sbjct: 82 GPLANLLLALLLLLLLLLLGGLPPAPVGQAASSGLANLLAFLALIN-----LNLAVFNL 135
>gnl|CDD|216782 pfam01914, MarC, MarC family integral membrane protein. Integral
membrane protein family that includes the antibiotic
resistance protein MarC. These proteins may be
transporters.
Length = 203
Score = 29.6 bits (67), Expect = 3.0
Identities = 19/69 (27%), Positives = 29/69 (42%), Gaps = 11/69 (15%)
Query: 53 LSTLIIGTIIGNIMVVISVFTYKPLRIVQNFFIVSLAVADLTVAIFVLPLSLIYYLSGRW 112
LS I IGN+ V IS+ P + + L +I + L++ + G+
Sbjct: 9 LSLFAIINPIGNVPVFISLTENYPAEERK-------RII-LRASIIAFLILLLFLVFGKL 60
Query: 113 I---FGIII 118
I FGI I
Sbjct: 61 ILKLFGISI 69
>gnl|CDD|227492 COG5163, NOP7, Protein required for biogenesis of the 60S ribosomal
subunit [Translation, ribosomal structure and
biogenesis].
Length = 591
Score = 30.0 bits (67), Expect = 3.0
Identities = 14/64 (21%), Positives = 30/64 (46%)
Query: 233 TKKRLRDRAKASKLNIVKQTTLHNVQKEVQSPLEPESISSENDTKSGKHKNKKRKKTKKK 292
+K + R + + +K + N QK++ ++ + E ++ K K K+ K KK
Sbjct: 528 SKNKKRKVDEEEEEKKLKMIMMSNKQKKLYKKMKYSNAKKEEQAENLKKKKKQIAKQKKL 587
Query: 293 NVQK 296
+ +K
Sbjct: 588 DSKK 591
>gnl|CDD|222420 pfam13858, DUF4199, Protein of unknown function (DUF4199). This
family of proteins is functionally uncharacterized. This
family of proteins is found in bacteria. Proteins in
this family are typically between 167 and 182 amino
acids in length.
Length = 162
Score = 29.1 bits (66), Expect = 3.2
Identities = 11/67 (16%), Positives = 21/67 (31%), Gaps = 13/67 (19%)
Query: 428 ARTLGIIMGVFVFCWLPFFLMYVSLPFCDTCCMSDRLINFITWLGYINSGINPIIYTIFN 487
G+I+ + + L Y+ + D I + LG + I +
Sbjct: 3 GLIFGLILILL------WLLSYL-------LGLHDLHIPTLPLLGLLLLVITIALIYYAI 49
Query: 488 LDFRKSF 494
+RK
Sbjct: 50 KRYRKKA 56
>gnl|CDD|213844 TIGR03657, IsdB, heme uptake protein IsdB. Isd proteins are
iron-regulated surface proteins found in Bacillus,
Staphylococcus and Listeria species and are responsible
for heme scavenging from hemoproteins. The IsdB protein
is only observed in Staphylococcus and consists of an
N-terminal hydrophobic signal sequence, a pair of tandem
NEAT (NEAr Transporter, pfam05031) domains which confers
the ability to bind heme and a C-terminal sortase
processing signal which targets the protein to the cell
wall. IsdB is believed to make a direct contact with
methemoglobin facilitating transfer of heme to IsdB. The
heme is then transferred to other cell wall-bound NEAT
domain proteins such as IsdA and IsdC.
Length = 644
Score = 30.3 bits (67), Expect = 3.2
Identities = 14/62 (22%), Positives = 31/62 (50%)
Query: 249 VKQTTLHNVQKEVQSPLEPESISSENDTKSGKHKNKKRKKTKKKNVQKNNNNNNNSFLRP 308
V QT+ + + + +PL+ +I + ND + NK ++ K K++ + +N P
Sbjct: 564 VVQTSAGSSEAKDSAPLQKANIKNTNDGHTQSQNNKNTQENKAKSLPQTGEESNKDMTLP 623
Query: 309 VL 310
++
Sbjct: 624 LM 625
>gnl|CDD|240274 PTZ00112, PTZ00112, origin recognition complex 1 protein;
Provisional.
Length = 1164
Score = 30.0 bits (67), Expect = 3.5
Identities = 19/79 (24%), Positives = 36/79 (45%), Gaps = 5/79 (6%)
Query: 229 IFLATKKRLRDRAKASKLNIVKQTTL---HNVQKEVQSPLEPESISSENDTKSGKHKNKK 285
+ +++ R++ ++K + KQT + K +SP +I + N K KNK+
Sbjct: 171 VNISSDNSPRNKEISNK-QLKKQTNVTHTTCYDKMRRSPRNTSTIKN-NTNDKNKEKNKE 228
Query: 286 RKKTKKKNVQKNNNNNNNS 304
+ K KK+ + NS
Sbjct: 229 KDKNIKKDRDGDKQTKRNS 247
>gnl|CDD|220700 pfam10337, DUF2422, Protein of unknown function (DUF2422). This is
a family of proteins conserved in fungi. The function is
not known. This family is the C-terminal half of some
member proteins which contain the DUF2421 pfam10334
domain at their N-terminus.
Length = 438
Score = 30.0 bits (68), Expect = 3.6
Identities = 10/52 (19%), Positives = 22/52 (42%), Gaps = 6/52 (11%)
Query: 57 IIGTIIGNIMVVISVF--TYKPLRIVQNFFI---VSLAVADLTVAIFVLPLS 103
I G I N+ + T+ P + + LA+ + V++ + P++
Sbjct: 158 IFGIIAANVFLTYGPLLPTFAPGTLGLTLLKPMGLGLALN-VVVSLLIFPVT 208
>gnl|CDD|220858 pfam10716, NdhL, NADH dehydrogenase transmembrane subunit. The
NdhL family is a component of the NDH-1L complex that is
one of the proton-pumping NADH:ubiquinone
oxidoreductases that catalyze the electron transfer from
NADH to ubiquinone linked with proton translocation
across the membrane. NDH-1L is essential for
photoheterotrophic cell growth. NdhL appears to contain
two transmembrane helices and it is necessary for the
functioning of though not the correct assembly of the
NDH-1 complex in Synechocystis 6803. The conservation
between cyanobacteria and green plants suggests that
chloroplast NDH-1 complexes contain related subunits.
Length = 77
Score = 27.6 bits (62), Expect = 3.6
Identities = 11/35 (31%), Positives = 18/35 (51%), Gaps = 1/35 (2%)
Query: 79 IVQNFFIVSLAVADLTVA-IFVLPLSLIYYLSGRW 112
I +V LA L + V+PL L ++++ RW
Sbjct: 5 IPSETLLVLLAYGALAGLYLLVVPLILYFWMNKRW 39
>gnl|CDD|214455 MTH00202, ND3, NADH dehydrogenase subunit 3; Provisional.
Length = 117
Score = 28.4 bits (64), Expect = 3.7
Identities = 8/16 (50%), Positives = 14/16 (87%)
Query: 164 MMMIMYVWLLSALISS 179
M++I+++ +LS LISS
Sbjct: 1 MLLILFMSILSILISS 16
>gnl|CDD|115057 pfam06375, BLVR, Bovine leukaemia virus receptor (BLVR). This
family consists of several bovine specific leukaemia
virus receptors which are thought to function as
transmembrane proteins, although their exact function is
unknown.
Length = 561
Score = 29.6 bits (66), Expect = 4.4
Identities = 17/58 (29%), Positives = 28/58 (48%), Gaps = 2/58 (3%)
Query: 241 AKASKLNIVKQTTLHNVQKEVQS--PLEPESISSENDTKSGKHKNKKRKKTKKKNVQK 296
+ AS + + + V P EP+ +E KS KHK KK++K K++ +K
Sbjct: 238 SAASVAEADEASLANTVSGTAPDSEPDEPKDAEAEETKKSPKHKKKKQRKEKEEKKKK 295
>gnl|CDD|114629 pfam05917, DUF874, Helicobacter pylori protein of unknown function
(DUF874). This family consists of several hypothetical
proteins specific to Helicobacter pylori. The function
of this family is unknown.
Length = 417
Score = 29.5 bits (65), Expect = 4.5
Identities = 18/67 (26%), Positives = 31/67 (46%), Gaps = 2/67 (2%)
Query: 238 RDRAKAS--KLNIVKQTTLHNVQKEVQSPLEPESISSENDTKSGKHKNKKRKKTKKKNVQ 295
RDRA S +L +Q T QK + +E + + + + K + +K+K ++K
Sbjct: 141 RDRANKSGIELEQEEQKTEQEKQKTEKEGIELANSQIKAEQEKQKTEQEKQKTEQEKQKT 200
Query: 296 KNNNNNN 302
N N N
Sbjct: 201 SNIANKN 207
>gnl|CDD|240419 PTZ00440, PTZ00440, reticulocyte binding protein 2-like protein;
Provisional.
Length = 2722
Score = 29.8 bits (67), Expect = 4.5
Identities = 18/106 (16%), Positives = 40/106 (37%), Gaps = 7/106 (6%)
Query: 224 LVYVEIFLATKKRLRDRAKASKLNIVKQTTLHNVQKEVQSPLEPESISSENDTKSGKHKN 283
L Y+ L K ++ N + + E +S ++ N+ + + +
Sbjct: 11 LCYILFILIEKSH-QNNIYKVNGN--NENFQFSHLNFYNEKNEEKSSNNNNNNYN--NSS 65
Query: 284 KKRKKTKKKNVQKNNNNNNNSFLRPVLINEDSMTDIQDLSSSSNKI 329
RKK K ++++ + S + L N + D D+S + +
Sbjct: 66 INRKKDNKNYMKRSLLQLSPSLVT--LNNSNDNLDYIDVSDDNGNL 109
Score = 29.4 bits (66), Expect = 6.1
Identities = 28/129 (21%), Positives = 51/129 (39%), Gaps = 10/129 (7%)
Query: 221 IMTLVYVEIFLATKKRLRDRAKASKLNIVKQTTLHNVQKEVQSPLEP-ESISSENDTKSG 279
+ V+ F + D K + N + + ++ + V S E +S +
Sbjct: 2440 TKRISNVDAFTNKILQDIDNEKNKENNNMNAEKIDDLIENVTSHNEKIKSELLIINDALR 2499
Query: 280 KHKNKKRKKTKKKNVQKNNNNNNNSFLRPVLINEDSMTDIQDLSSSSNKIAARNDNMGEF 339
+ K KK + K N NNNNNN+ + ++ N + I +L S +K + E
Sbjct: 2500 RVKEKKDEMNKLFNSLTENNNNNNNSAKNIVDNSTYI--INELESHVSK-------LNEL 2550
Query: 340 VHINNNETT 348
+ +NE
Sbjct: 2551 LSYIDNEIK 2559
>gnl|CDD|227015 COG4669, EscJ, Type III secretory pathway, lipoprotein EscJ
[Intracellular trafficking and secretion].
Length = 246
Score = 28.9 bits (65), Expect = 5.1
Identities = 11/36 (30%), Positives = 20/36 (55%)
Query: 404 PSTQVVKQFIEEKQKISLSKERRAARTLGIIMGVFV 439
P +V EEK +++ +KE++ +TL + GV
Sbjct: 91 PKDGLVSSPTEEKARLNYAKEQQLEQTLSKMDGVIS 126
>gnl|CDD|219746 pfam08208, RNA_polI_A34, DNA-directed RNA polymerase I subunit
RPA34.5. This is a family of proteins conserved from
yeasts to human. Subunit A34.5 of RNA polymerase I is a
non-essential subunit which is thought to help Pol I
overcome topological constraints imposed on ribosomal
DNA during the process of transcription.
Length = 193
Score = 28.5 bits (64), Expect = 5.8
Identities = 10/63 (15%), Positives = 22/63 (34%), Gaps = 2/63 (3%)
Query: 232 ATKKRLRDRAKASKLNIVKQTTLHNVQKEVQSPLEPESI--SSENDTKSGKHKNKKRKKT 289
+ + A + +K+ + ++ E + + +KK+KK
Sbjct: 130 SESETSEKETTAKVEKEAEVEEEEKKEKKKKKEVKKEKKEKKDKKEKMVEPKGSKKKKKK 189
Query: 290 KKK 292
KKK
Sbjct: 190 KKK 192
>gnl|CDD|219868 pfam08496, Peptidase_S49_N, Peptidase family S49 N-terminal. This
domain is found to the N-terminus of bacterial signal
peptidases of the S49 family (pfam01343).
Length = 154
Score = 28.3 bits (64), Expect = 5.9
Identities = 17/93 (18%), Positives = 35/93 (37%), Gaps = 13/93 (13%)
Query: 219 LAIMTLVYVEIFLATKKRLRDRAKASKLNIVKQTT-LHNVQKEVQSPLEPESISSENDTK 277
+AI+ +V I +K+ + K +L I ++++ +++ L + K
Sbjct: 19 VAIIAVV-GLIVALAQKK---KGKKGELEITDLNEEYKDLKESLEAALLDK--------K 66
Query: 278 SGKHKNKKRKKTKKKNVQKNNNNNNNSFLRPVL 310
K K KK +K + +P L
Sbjct: 67 ELKAWEKAEKKAEKAKAKAEKKKAKKEEPKPRL 99
>gnl|CDD|222436 pfam13886, DUF4203, Domain of unknown function (DUF4203). This is
the N-terminal region of 7tm proteins. The function is
not known.
Length = 210
Score = 28.8 bits (65), Expect = 6.2
Identities = 16/73 (21%), Positives = 26/73 (35%), Gaps = 5/73 (6%)
Query: 57 IIGTIIGNIMVVISVFTYKPLRIV---QNFFIVSLAVADLTVAIFVLP--LSLIYYLSGR 111
++G I+ +V Y+ + F SL V L I +L L L
Sbjct: 2 VLGIILILFGLVYCFIGYRCFKATMFLSGFLFGSLIVFLLITKITLLVTNARLGASLVAG 61
Query: 112 WIFGIIICKIWLT 124
+ G I+ +W
Sbjct: 62 VVGGAILGLLWWV 74
>gnl|CDD|240271 PTZ00108, PTZ00108, DNA topoisomerase 2-like protein; Provisional.
Length = 1388
Score = 29.2 bits (66), Expect = 6.2
Identities = 22/150 (14%), Positives = 48/150 (32%), Gaps = 4/150 (2%)
Query: 258 QKEVQSPLEPESISSENDTKSGKHKNKKRKKTKKKNVQKNNNNNNNSFLRPVLINEDSMT 317
+ E + + + + S GK ++ K KKK +K ++ + S + ++
Sbjct: 1146 EVEEKEIAKEQRLKS---KTKGKASKLRKPKLKKKEKKKKKSSADKS-KKASVVGNSKRV 1201
Query: 318 DIQDLSSSSNKIAARNDNMGEFVHINNNETTFTNKTISDDISLASIKSDKKPNNGNGCHV 377
D + +K + N ++ E K S + + K + N
Sbjct: 1202 DSDEKRKLDDKPDNKKSNSSGSDQEDDEEQKTKPKKSSVKRLKSKKNNSSKSSEDNDEFS 1261
Query: 378 KTPVPHELNLKSTSVKSEVSIVVIQAPSTQ 407
+ E K+ + PS +
Sbjct: 1262 SDDLSKEGKPKNAPKRVSAVQYSPPPPSKR 1291
>gnl|CDD|232787 TIGR00023, TIGR00023, acyl-phosphate glycerol 3-phosphate
acyltransferase. This model represents the full length
of acylphosphate:glycerol 3-phosphate acyltransferase,
and integral membrane protein about 200 amino acids in
length, called PlsY in Streptococcus pneumoniae, YneS in
Bacillus subtilis, and YgiH in E. coli. It is found in a
single copy in a large number of bacteria, including the
Mycoplasmas but not Mycobacteria or spirochetes, for
example. Its partner is PlsX (see TIGR00182), and the
pair can replace PlsB for synthesizing
1-acylglycerol-3-phosphate [Fatty acid and phospholipid
metabolism, Biosynthesis].
Length = 196
Score = 28.5 bits (64), Expect = 6.3
Identities = 10/33 (30%), Positives = 18/33 (54%)
Query: 95 VAIFVLPLSLIYYLSGRWIFGIIICKIWLTSDV 127
+++ ++ L LI YL G F ++ KI D+
Sbjct: 1 MSLLIVFLLLIGYLIGSIPFAYLVGKILKGIDI 33
>gnl|CDD|224628 COG1714, COG1714, Predicted membrane protein/domain [Function
unknown].
Length = 172
Score = 28.2 bits (63), Expect = 6.5
Identities = 17/148 (11%), Positives = 48/148 (32%), Gaps = 6/148 (4%)
Query: 43 EWEAIITMICLSTLIIGTIIGNIMVVISVFTYKPLRIVQNFFIVSLAVADLTVAIFVLPL 102
+I + LS L + + + + + F ++ + + +
Sbjct: 24 LLAFLIDGLILSLLALAFPL----DLAFLLLLTGALGLPLFLLILGFLLAF-LYFGLAET 78
Query: 103 SLIYYLSGRWIFGIIICKIWLTSDVLCCTASILNLCAIALDRYWAITDPLVYAQQRTIKR 162
+ G+ I+G+ + + A + L A +D + + LV +
Sbjct: 79 TRQGQTLGKRIWGLRVVAED-GDPISLFQALLRRLAAGVIDGFLLLGVGLVLLFSPRKRL 137
Query: 163 VMMMIMYVWLLSALISSPPLIGWNDWPE 190
+ ++ ++ A + +P +D
Sbjct: 138 LGDLLAGTIVVRAALYTPGRQTLHDEIA 165
>gnl|CDD|192488 pfam10228, DUF2228, Uncharacterized conserved protein (DUF2228).
This is a family of conserved proteins of approximately
700 residues found from worms to humans.
Length = 253
Score = 28.5 bits (64), Expect = 6.7
Identities = 38/181 (20%), Positives = 64/181 (35%), Gaps = 38/181 (20%)
Query: 180 PPLIGWNDWPEVFEADTPCQLTQQRGYVVYSSLGSFFIPLAIMTLVYVEIFLATKKRLRD 239
PPLI +ND A C+ T V IF A L
Sbjct: 63 PPLIAFND------AKKGCEFTV----------------------VGENIFDAILLFLTK 94
Query: 240 RAKASKLNIVKQTTLHNVQKEVQSPLEPESISSENDTKSGKHKNKK--RKKTKKKNVQKN 297
++K K + L +Q+ + + +S E TK K + KK K K +
Sbjct: 95 KSKEIPFKKKKISALKKIQELLTEWAKELGLSLEQKTKVMKQRKKKVVTKTFHKGGLVVP 154
Query: 298 NNNNNNSFLRPVLINEDSMTDI-QDLSSSSNKIAARNDNMGE------FVHINNNETTFT 350
+N + RP+ ++ ++ I + + + +K R+ E FV N+E +
Sbjct: 155 VDNKTDVGYRPLSESDANLKKILKTIEEAEDKE-ERDKAFDELQELMTFVQFANDECDYG 213
Query: 351 N 351
Sbjct: 214 M 214
>gnl|CDD|234767 PRK00448, polC, DNA polymerase III PolC; Validated.
Length = 1437
Score = 29.0 bits (66), Expect = 6.9
Identities = 7/49 (14%), Positives = 23/49 (46%)
Query: 282 KNKKRKKTKKKNVQKNNNNNNNSFLRPVLINEDSMTDIQDLSSSSNKIA 330
+ K+ + +KK KN + I+++ +T +++++ ++
Sbjct: 192 EAMKKLEAEKKKQSKNFDPKEGPVQIGKKIDKEEITPMKEINEEERRVV 240
>gnl|CDD|211317 cd00474, eIF1_SUI1_like, Eukaryotic initiation factor 1 and related
proteins. Members of the eIF1/SUI1 (eukaryotic
initiation factor 1) family are found in eukaryotes,
archaea, and some bacteria; eukaryotic members are
understood to play an important role in accurate
initiator codon recognition during translation
initiation. eIF1 interacts with 18S rRNA in the 40S
ribosomal subunit during eukaryotic translation
initiation. Point mutations in the yeast eIF1 implicate
the protein in maintaining accurate start-site selection
but its mechanism of action is unknown. The function of
non-eukaryotic family members is also unclear.
Length = 78
Score = 27.0 bits (60), Expect = 6.9
Identities = 9/28 (32%), Positives = 13/28 (46%)
Query: 389 STSVKSEVSIVVIQAPSTQVVKQFIEEK 416
SV+ E + IQ T + +EEK
Sbjct: 41 GGSVEGEKMEIEIQGDHTDQIIVALEEK 68
>gnl|CDD|240543 cd13138, MATE_yoeA_like, Subfamily of the multidrug and toxic
compound extrusion (MATE)-like proteins similar to
Bacillus subtilis yoeA. The integral membrane proteins
from the MATE family are involved in exporting
metabolites across the cell membrane and are responsible
for multidrug resistance (MDR) in many bacteria and
animals. A number of family members are involved in the
synthesis of peptidoglycan components in bacteria.
Length = 431
Score = 28.6 bits (65), Expect = 8.0
Identities = 27/142 (19%), Positives = 49/142 (34%), Gaps = 18/142 (12%)
Query: 51 ICLSTLIIGTIIGNIMVVISVFTYKPLRIVQNFFIVSLAVADLTVAIFVLPLSLIYYLSG 110
+ +II IIG I++++ F L F V ++ L Y
Sbjct: 303 GLRTGIIISLIIGLIIILLVFFFAPQL---LGLFTSDPEVIEIGAEY------LRIYSID 353
Query: 111 RWIFGIIICKIWLTSDVLC-CTASILNLCAIALDRYWAITDPLVYAQQRTIKRVMMMIMY 169
+FGI+ + + + + I++ R W + PL Y R + I
Sbjct: 354 YILFGILFV----FNGLFRGLGKTKFPM-IISILRLWLVRIPLAYLLSRLTGLGLFGIWL 408
Query: 170 VWLLSALISSPPLIG---WNDW 188
+S ++S+ I W
Sbjct: 409 AMPISNILSAIICIIYYRKGRW 430
>gnl|CDD|240380 PTZ00362, PTZ00362, hypothetical protein; Provisional.
Length = 479
Score = 28.6 bits (64), Expect = 8.1
Identities = 16/62 (25%), Positives = 26/62 (41%), Gaps = 10/62 (16%)
Query: 284 KKRKKTKKKNVQKNNNNNNNSFLRPVLIN----------EDSMTDIQDLSSSSNKIAARN 333
KK+KK KKK ++++N + NS + N E + + S S+ N
Sbjct: 9 KKKKKKKKKASKESSNGSQNSKKTIFMYNLSRRKKRHNEEGTFNNYGTNESQSSSTQNSN 68
Query: 334 DN 335
N
Sbjct: 69 KN 70
>gnl|CDD|177089 CHL00189, infB, translation initiation factor 2; Provisional.
Length = 742
Score = 28.6 bits (64), Expect = 8.4
Identities = 21/99 (21%), Positives = 36/99 (36%), Gaps = 9/99 (9%)
Query: 234 KKRLRDRAKASKLNIVKQTTLHNVQKEVQSPL--EPESIS----SENDTKSGKHKNKKRK 287
K +L+ + K K + + + S P +IS + T+ K K K
Sbjct: 74 KTKLKQKKKIKKKLHIDDDYDNFFDSKNNSKQFAGPLAISLMRKPKPKTEKLKKKITVNK 133
Query: 288 KTKKKNVQKNNNNNNNSFLRPVL---INEDSMTDIQDLS 323
T KK + ++ + I+ S IQ+LS
Sbjct: 134 STNKKKKKVLSSKDELIKYDNNKPKSISIHSPLTIQELS 172
>gnl|CDD|221791 pfam12822, DUF3816, Protein of unknown function (DUF3816). This
family of proteins is functionally uncharacterized but
are likely to be membrane transporters. This family of
proteins is found in bacteria and archaea. Proteins in
this family are typically between 177 and 208 amino
acids in length. A subset of this family is associated
with the TM1506 proteins. In this context, transport
through the channel is predicted to be regulated by the
TM1506 protein by either regulating redox potential or
modification of substrates.
Length = 168
Score = 28.0 bits (63), Expect = 8.4
Identities = 18/87 (20%), Positives = 35/87 (40%)
Query: 51 ICLSTLIIGTIIGNIMVVISVFTYKPLRIVQNFFIVSLAVADLTVAIFVLPLSLIYYLSG 110
+ L ++G + G ++ +++ L F +V L +F L LIY
Sbjct: 33 VLLGAFLLGPVAGALIGLLTSLLSFLLFGGGPFALVGPLANFLPRILFGLIAGLIYKKLR 92
Query: 111 RWIFGIIICKIWLTSDVLCCTASILNL 137
+ + I L + + A++LNL
Sbjct: 93 KKTKKRAVLAIILGTILGTLVATLLNL 119
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
0.322 0.135 0.403
Gapped
Lambda K H
0.267 0.0829 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 25,264,970
Number of extensions: 2463761
Number of successful extensions: 3443
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3376
Number of HSP's successfully gapped: 137
Length of query: 507
Length of database: 10,937,602
Length adjustment: 101
Effective length of query: 406
Effective length of database: 6,457,848
Effective search space: 2621886288
Effective search space used: 2621886288
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 61 (27.1 bits)