RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11774
(304 letters)
>gnl|CDD|224557 COG1643, HrpA, HrpA-like helicases [DNA replication, recombination,
and repair].
Length = 845
Score = 227 bits (582), Expect = 1e-68
Identities = 89/229 (38%), Positives = 132/229 (57%), Gaps = 12/229 (5%)
Query: 25 PGAILCFLPGWQDIIQVSRVLSAI---PGLLVTMAHSKLDTEVQGAIFGHPPPGMRKVVL 81
G+IL FLPG ++I + + L L + + L E Q +F P G RKVVL
Sbjct: 259 SGSILVFLPGQREIERTAEWLEKAELGDDLEILPLYGALSAEEQVRVFEPAPGGKRKVVL 318
Query: 82 STNVAETSITIDDVAYVVDTGCHKETRYNSKDDLVSLDNQWISRASVNQRAGRAGRTKPG 141
+TN+AETS+TI + YV+D+G KE RY+ + L L+ + IS+AS +QRAGRAGRT PG
Sbjct: 319 ATNIAETSLTIPGIRYVIDSGLAKEKRYDPRTGLTRLETEPISKASADQRAGRAGRTGPG 378
Query: 142 ESFHLYSEDRYRRMAEYSLPEIFRKPLEQILLTCKVGESLYSTERCSSFLSQLP--EPPD 199
+ LYSE+ + E++LPEI R L ++L K SL ++ P +PP
Sbjct: 379 ICYRLYSEEDFLAFPEFTLPEILRTDLSGLVLQLK---SL----GIGQDIAPFPFLDPPP 431
Query: 200 PASITSAATELKLMGVFDQEENLTPLGKRIAAMPCHPKLSKALVESVIY 248
A+I +A T L+ +G D LTPLGK+++ +P P+L++ L+ +
Sbjct: 432 EAAIQAALTLLQELGALDDSGKLTPLGKQMSLLPLDPRLARMLLTAPEG 480
>gnl|CDD|233660 TIGR01970, DEAH_box_HrpB, ATP-dependent helicase HrpB. This model
represents HrpB, one of two related but uncharacterized
DEAH-box ATP-dependent helicases in many Proteobacteria,
but also in a few species of other lineages. The member
from Rhizobium meliloti has been designated HelO. HrpB
is typically about 800 residues in length, while its
paralog HrpA (TIGR01967), also uncharacterized, is about
1300 amino acids long. Related characterized eukarotic
proteins are RNA helicases associated with pre-mRNA
processing [Unknown function, Enzymes of unknown
specificity].
Length = 819
Score = 157 bits (398), Expect = 4e-43
Identities = 77/221 (34%), Positives = 120/221 (54%), Gaps = 8/221 (3%)
Query: 25 PGAILCFLPGWQDIIQVSRVLSAI--PGLLVTMAHSKLDTEVQGAIFGHPPPGMRKVVLS 82
G+IL FLPG +I +V L+ +L+ + +L Q P G RKVVL+
Sbjct: 209 TGSILVFLPGQAEIRRVQEQLAERLDSDVLICPLYGELSLAAQDRAIKPDPQGRRKVVLA 268
Query: 83 TNVAETSITIDDVAYVVDTGCHKETRYNSKDDLVSLDNQWISRASVNQRAGRAGRTKPGE 142
TN+AETS+TI+ + V+D+G + R++ K + L+ IS+AS QRAGRAGR +PG
Sbjct: 269 TNIAETSLTIEGIRVVIDSGLARVARFDPKTGITRLETVRISQASATQRAGRAGRLEPGV 328
Query: 143 SFHLYSEDRYRRMAEYSLPEIFRKPLEQILLTCKVGESLYSTERCSSFLSQLPEPPDPAS 202
+ L+SE++++R+ PEI + L + L + S L L PP +
Sbjct: 329 CYRLWSEEQHQRLPAQDEPEILQADLSGLALEL-----AQWGAKDPSDLRWLDAPP-SVA 382
Query: 203 ITSAATELKLMGVFDQEENLTPLGKRIAAMPCHPKLSKALV 243
+ +A L+ +G D + LT GK +AA+ CHP+L+ L+
Sbjct: 383 LAAARQLLQRLGALDAQGRLTAHGKAMAALGCHPRLAAMLL 423
>gnl|CDD|236950 PRK11664, PRK11664, ATP-dependent RNA helicase HrpB; Provisional.
Length = 812
Score = 144 bits (366), Expect = 1e-38
Identities = 88/223 (39%), Positives = 126/223 (56%), Gaps = 12/223 (5%)
Query: 25 PGAILCFLPGWQDIIQVSRVLSAIPG--LLVTMAHSKLD-TEVQGAIFGHP-PPGMRKVV 80
G++L FLPG +I +V L++ +L+ + L E Q AI P P G RKVV
Sbjct: 212 SGSLLLFLPGVGEIQRVQEQLASRVASDVLLCPLYGALSLAEQQKAIL--PAPAGRRKVV 269
Query: 81 LSTNVAETSITIDDVAYVVDTGCHKETRYNSKDDLVSLDNQWISRASVNQRAGRAGRTKP 140
L+TN+AETS+TI+ + VVD+G + R++ K L L Q IS+AS+ QRAGRAGR +P
Sbjct: 270 LATNIAETSLTIEGIRLVVDSGLERVARFDPKTGLTRLVTQRISQASMTQRAGRAGRLEP 329
Query: 141 GESFHLYSEDRYRRMAEYSLPEIFRKPLEQILLTCKVGESLYSTERCSSFLSQLPEPPDP 200
G HLYS+++ R A S PEI L +LL E L + LS L +PP
Sbjct: 330 GICLHLYSKEQAERAAAQSEPEILHSDLSGLLL-----ELLQWGCHDPAQLSWLDQPPAA 384
Query: 201 ASITSAATELKLMGVFDQEENLTPLGKRIAAMPCHPKLSKALV 243
A + +A L+ +G D + LT G+++AA+ P+L+ LV
Sbjct: 385 A-LAAAKRLLQQLGALDGQGRLTARGRKMAALGNDPRLAAMLV 426
>gnl|CDD|233659 TIGR01967, DEAH_box_HrpA, ATP-dependent helicase HrpA. This model
represents HrpA, one of two related but uncharacterized
DEAH-box ATP-dependent helicases in many Proteobacteria
and a few high-GC Gram-positive bacteria. HrpA is about
1300 amino acids long, while its paralog HrpB, also
uncharacterized, is about 800 amino acids long. Related
characterized eukarotic proteins are RNA helicases
associated with pre-mRNA processing [Unknown function,
Enzymes of unknown specificity].
Length = 1283
Score = 134 bits (339), Expect = 4e-35
Identities = 78/231 (33%), Positives = 128/231 (55%), Gaps = 23/231 (9%)
Query: 25 PGAILCFLPGWQDIIQVSRVLSA--IPGLLVTMAHSKLDTEVQGAIFGHPPPGMRKVVLS 82
PG IL FLPG ++I + +L + + +++L + Q +F P R++VL+
Sbjct: 279 PGDILIFLPGEREIRDAAEILRKRNLRHTEILPLYARLSNKEQQRVFQ--PHSGRRIVLA 336
Query: 83 TNVAETSITIDDVAYVVDTGCHKETRYNSKDDLVSLDNQWISRASVNQRAGRAGRTKPGE 142
TNVAETS+T+ + YV+DTG + +RY+ + + L + IS+AS NQR GR GR PG
Sbjct: 337 TNVAETSLTVPGIHYVIDTGTARISRYSYRTKVQRLPIEPISQASANQRKGRCGRVAPGI 396
Query: 143 SFHLYSEDRYRRMAEYSLPEIFRKPLEQILLT---CKVGESLYSTERCSSFLSQLP--EP 197
LYSE+ + E++ PEI R L ++L ++G+ ++ P E
Sbjct: 397 CIRLYSEEDFNSRPEFTDPEILRTNLASVILQMLALRLGD-----------IAAFPFIEA 445
Query: 198 PDPASITSAATELKLMGVFDQEE---NLTPLGKRIAAMPCHPKLSKALVES 245
PDP +I L+ +G D +E LTP+G+++A +P P+L++ L+E+
Sbjct: 446 PDPRAIRDGFRLLEELGALDDDEAEPQLTPIGRQLAQLPVDPRLARMLLEA 496
>gnl|CDD|182986 PRK11131, PRK11131, ATP-dependent RNA helicase HrpA; Provisional.
Length = 1294
Score = 110 bits (276), Expect = 7e-27
Identities = 74/237 (31%), Positives = 120/237 (50%), Gaps = 21/237 (8%)
Query: 25 PGAILCFLPGWQDIIQVSRVLSA--IPGLLVTMAHSKLDTEVQGAIFGHPPPGMRKVVLS 82
PG IL F+ G ++I + L+ + + +++L Q +F R++VL+
Sbjct: 286 PGDILIFMSGEREIRDTADALNKLNLRHTEILPLYARLSNSEQNRVF--QSHSGRRIVLA 343
Query: 83 TNVAETSITIDDVAYVVDTGCHKETRYNSKDDLVSLDNQWISRASVNQRAGRAGRTKPGE 142
TNVAETS+T+ + YV+D G + +RY+ + + L + IS+AS NQR GR GR G
Sbjct: 344 TNVAETSLTVPGIKYVIDPGTARISRYSYRTKVQRLPIEPISQASANQRKGRCGRVSEGI 403
Query: 143 SFHLYSEDRYRRMAEYSLPEIFRKPLEQILLTCKVGESLYSTERCSSFLSQLP--EPPDP 200
LYSED + E++ PEI R L ++L T ++ P E PD
Sbjct: 404 CIRLYSEDDFLSRPEFTDPEILRTNLASVILQM--------TALGLGDIAAFPFVEAPDK 455
Query: 201 ASITSAATELKLMGVFDQEEN-----LTPLGKRIAAMPCHPKLSKALVESVIYKGNC 252
+I L+ +G +E LTPLG+++A +P P+L++ ++E+ K C
Sbjct: 456 RNIQDGVRLLEELGAITTDEQASAYKLTPLGRQLAQLPVDPRLARMVLEAQ--KHGC 510
>gnl|CDD|197757 smart00490, HELICc, helicase superfamily c-terminal domain.
Length = 82
Score = 59.1 bits (144), Expect = 1e-11
Identities = 25/88 (28%), Positives = 34/88 (38%), Gaps = 18/88 (20%)
Query: 50 GLLVTMAHSKLDTEVQGAIFGHPPPGMRKVVLSTNVAETSITIDDVAYVVDTGCHKETRY 109
G+ V H L E + I G KV+++T+VAE + + V V+
Sbjct: 11 GIKVARLHGGLSQEEREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVIIYDL------ 64
Query: 110 NSKDDLVSLDNQWISRASVNQRAGRAGR 137
S AS QR GRAGR
Sbjct: 65 ------------PWSPASYIQRIGRAGR 80
>gnl|CDD|218070 pfam04408, HA2, Helicase associated domain (HA2). This presumed
domain is about 90 amino acid residues in length. It is
found is a diverse set of RNA helicases. Its function is
unknown, however it seems likely to be involved in
nucleic acid binding.
Length = 91
Score = 56.8 bits (138), Expect = 1e-10
Identities = 17/48 (35%), Positives = 26/48 (54%), Gaps = 2/48 (4%)
Query: 205 SAATELKLMGVFDQEENLTPLGKRIAAMPCHPKLSKALVESVIYKGNC 252
A L +G D + LTPLG+++A +P P+L K L+ S + C
Sbjct: 1 KALELLYELGALDDDGELTPLGRQMAELPLDPRLGKMLLLSAEF--GC 46
>gnl|CDD|214852 smart00847, HA2, Helicase associated domain (HA2) Add an
annotation. This presumed domain is about 90 amino acid
residues in length. It is found is a diverse set of RNA
helicases. Its function is unknown, however it seems
likely to be involved in nucleic acid binding.
Length = 82
Score = 53.0 bits (128), Expect = 2e-09
Identities = 21/70 (30%), Positives = 34/70 (48%), Gaps = 12/70 (17%)
Query: 213 MGVFDQEENLTPLGKRIAAMPCHPKLSKALVESVIYKGNCNCYGLIV----------PKS 262
+G D + LTPLG+++A +P P+L+K L+ + + C L + PK
Sbjct: 2 LGALDDDGRLTPLGRKMAELPLDPRLAKMLLAAAEF--GCLDEILTIVAMLSVGDPRPKE 59
Query: 263 KREGRQDRRK 272
KRE R+
Sbjct: 60 KREDADAARR 69
>gnl|CDD|201125 pfam00271, Helicase_C, Helicase conserved C-terminal domain. The
Prosite family is restricted to DEAD/H helicases,
whereas this domain family is found in a wide variety of
helicases and helicase related proteins. It may be that
this is not an autonomously folding unit, but an
integral part of the helicase.
Length = 78
Score = 52.5 bits (127), Expect = 3e-09
Identities = 26/89 (29%), Positives = 36/89 (40%), Gaps = 18/89 (20%)
Query: 49 PGLLVTMAHSKLDTEVQGAIFGHPPPGMRKVVLSTNVAETSITIDDVAYVVDTGCHKETR 108
PG+ V H L E + I G KV+++T+VA I + DV V++
Sbjct: 6 PGIKVARLHGGLSQEEREEILEDFRNGKSKVLVATDVAGRGIDLPDVNLVINYDL----- 60
Query: 109 YNSKDDLVSLDNQWISRASVNQRAGRAGR 137
+ AS QR GRAGR
Sbjct: 61 -------------PWNPASYIQRIGRAGR 76
>gnl|CDD|177443 PHA02653, PHA02653, RNA helicase NPH-II; Provisional.
Length = 675
Score = 49.2 bits (118), Expect = 1e-06
Identities = 29/116 (25%), Positives = 46/116 (39%), Gaps = 27/116 (23%)
Query: 46 SAIPGLLVTMAHSKLD--TEVQGAIFGHPPPGMRKVVLSTNVAETSITIDDVAYVVDTG- 102
+P + H K+ E+ ++ P +++ST E+S+TI + +V DTG
Sbjct: 417 KRLPIYDFYIIHGKVPNIDEILEKVYSSKNP---SIIISTPYLESSVTIRNATHVYDTGR 473
Query: 103 -------CHKETRYNSKDDLVSLDNQWISRASVNQRAGRAGRTKPGESFHLYSEDR 151
KE +IS++ QR GR GR PG + Y D
Sbjct: 474 VYVPEPFGGKEM--------------FISKSMRTQRKGRVGRVSPGTYVYFYDLDL 515
>gnl|CDD|238034 cd00079, HELICc, Helicase superfamily c-terminal domain; associated
with DEXDc-, DEAD-, and DEAH-box proteins, yeast
initiation factor 4A, Ski2p, and Hepatitis C virus NS3
helicases; this domain is found in a wide variety of
helicases and helicase related proteins; may not be an
autonomously folding unit, but an integral part of the
helicase; 4 helicase superfamilies at present according
to the organization of their signature motifs; all
helicases share the ability to unwind nucleic acid
duplexes with a distinct directional polarity; they
utilize the free energy from nucleoside triphosphate
hydrolysis to fuel their translocation along DNA,
unwinding the duplex in the process.
Length = 131
Score = 43.4 bits (103), Expect = 2e-05
Identities = 28/123 (22%), Positives = 51/123 (41%), Gaps = 20/123 (16%)
Query: 25 PGAILCFLPGWQDIIQVSRVLSAIPGLLVTMAHSKLDTEVQGAIFGHPPPGMRKVVLSTN 84
G +L F P + + +++ +L PG+ V H E + + G V+++T+
Sbjct: 28 GGKVLIFCPSKKMLDELAELLRK-PGIKVAALHGDGSQEEREEVLKDFREGEIVVLVATD 86
Query: 85 VAETSITIDDVAYVVDTGCHKETRYNSKDDLVSLDNQWISRASVNQRAGRAGRT-KPGES 143
V I + +V+ V++ + S +S QR GRAGR + G +
Sbjct: 87 VIARGIDLPNVSVVINY------------------DLPWSPSSYLQRIGRAGRAGQKGTA 128
Query: 144 FHL 146
L
Sbjct: 129 ILL 131
>gnl|CDD|236125 PRK07896, PRK07896, nicotinate-nucleotide pyrophosphorylase;
Provisional.
Length = 289
Score = 32.0 bits (73), Expect = 0.33
Identities = 12/51 (23%), Positives = 22/51 (43%), Gaps = 12/51 (23%)
Query: 91 TIDDVAYVVDTGCHKETRYNSKDDLVSLDN--QWISRASVNQRAGRAGRTK 139
+++ + V+ G +LV LDN W ++ +V +R RA
Sbjct: 208 SLEQLDEVLAEGA----------ELVLLDNFPVWQTQEAVQRRDARAPTVL 248
>gnl|CDD|224123 COG1202, COG1202, Superfamily II helicase, archaea-specific
[General function prediction only].
Length = 830
Score = 31.3 bits (71), Expect = 0.74
Identities = 32/140 (22%), Positives = 52/140 (37%), Gaps = 37/140 (26%)
Query: 120 NQWISRASVNQRAGRAGR------------TKPGESFHLYSEDRYRRMA----------- 156
+W+S Q GRAGR +PG+ +H E+ +A
Sbjct: 520 IEWLSVREFQQMLGRAGRPDYHDRGKVYLLVEPGKKYHASMEETEDEVAFKLLESEPEPV 579
Query: 157 --EYSLPEIFRKPLEQILLTCKVGESLYSTERCSSFLSQLPEPPDPASITSAATELKLMG 214
EY + E +L + V SL ER +S + P A ++L+ G
Sbjct: 580 IVEYDEEDE----EENVLASAGVTNSLSVIERVNSLMLGAAFDPK-----KALSKLEEYG 630
Query: 215 VFDQEEN---LTPLGKRIAA 231
+ ++ N TP G+ +A
Sbjct: 631 MIKKKGNIVRPTPYGRAVAM 650
>gnl|CDD|224036 COG1111, MPH1, ERCC4-like helicases [DNA replication,
recombination, and repair].
Length = 542
Score = 30.0 bits (68), Expect = 1.8
Identities = 21/81 (25%), Positives = 34/81 (41%), Gaps = 19/81 (23%)
Query: 78 KVVLSTNVAETSITIDDVAYVVDTGCHKETRYNSKDDLVSLDNQWISRASVNQRAGRAGR 137
V+++T+V E + I +V V+ + + V + + I QR GR GR
Sbjct: 427 NVLVATSVGEEGLDIPEVDLVI---FY---------EPVPSEIRSI------QRKGRTGR 468
Query: 138 TKPGESFHLYSEDRYRRMAEY 158
+ G L +E R A Y
Sbjct: 469 KRKGRVVVLVTEGT-RDEAYY 488
>gnl|CDD|224126 COG1205, COG1205, Distinct helicase family with a unique C-terminal
domain including a metal-binding cysteine cluster
[General function prediction only].
Length = 851
Score = 29.3 bits (66), Expect = 3.3
Identities = 26/98 (26%), Positives = 31/98 (31%), Gaps = 28/98 (28%)
Query: 78 KVVLSTNVAETSITIDDVAYVVDTG--CHKETRYNSKDDLVSLDNQWISRASVNQRAGRA 135
V++TN E I I + V+ G S S QRAGRA
Sbjct: 366 LGVIATNALELGIDIGSLDAVIAYGYPGV-------------------SVLSFRQRAGRA 406
Query: 136 GRTKPGESFHLYSEDR------YRRMAEYSLPEIFRKP 167
GR + ES L Y R E L F
Sbjct: 407 GR-RGQESLVLVVLRSDPLDSYYLRHPEELLETGFGPV 443
>gnl|CDD|219355 pfam07267, Nucleo_P87, Nucleopolyhedrovirus capsid protein P87.
This family consists of several Nucleopolyhedrovirus
capsid protein P87 sequences. P87 is expressed late in
infection and concentrated in infected cell nuclei.
Length = 606
Score = 28.7 bits (64), Expect = 4.2
Identities = 25/131 (19%), Positives = 44/131 (33%), Gaps = 20/131 (15%)
Query: 174 TCKVGESLYSTERCSSFLSQLPEPPDPASITSAATELKLMGVFDQEENLTPLGKRIAAMP 233
T S TE S+ + L P +S A + + P + A+
Sbjct: 283 TPARRISTPMTEEIKSWQTPLQTPAMYSSDYQAPKPEPIYTWEELLRERFPS--DLFAIS 340
Query: 234 CHPKLSKALVESVIYKGNCNCYGLIVPKSKREGRQDRRKPAAPLFQFYSSKIDETRNEKM 293
P + P KR +R+ PL ++ S + ++ +E
Sbjct: 341 SLPDSDSEASD-------------SGPTRKR-----KRRRVPPLPEYSSDEDEDDSDEDE 382
Query: 294 REEDEEEKRRR 304
+ ++E KRRR
Sbjct: 383 VDYEKERKRRR 393
>gnl|CDD|234336 TIGR03734, PRTRC_parB, PRTRC system ParB family protein. A novel
genetic system characterized by six major proteins,
included a ParB homolog and a ThiF homolog, is
designated PRTRC, or ParB-Related,ThiF-Related Cassette.
It is often found on plasmids. This protein family the
member related to ParB, and is designated PRTRC system
ParB family protein.
Length = 554
Score = 28.5 bits (64), Expect = 5.4
Identities = 18/62 (29%), Positives = 27/62 (43%), Gaps = 7/62 (11%)
Query: 196 EPPDPASITSAATELKLMGVFDQEE-----NLTP--LGKRIAAMPCHPKLSKALVESVIY 248
PA AA L D+EE +P L +R+A M C ++ +AL++ I
Sbjct: 90 ADMSPAEEAEAAARLLGRCKGDREEAARRLGWSPATLDRRLALMNCTDEVRQALIDRKIL 149
Query: 249 KG 250
G
Sbjct: 150 LG 151
>gnl|CDD|234187 TIGR03369, cellulose_bcsE, cellulose biosynthesis protein BcsE.
This protein, called BcsE (bacterial cellulose synthase
E) or YhjS, is required for cellulose biosynthesis in
Salmonella enteritidis. Its role is this process across
multiple bacterial species is implied by the partial
phylogenetic profiling algorithm. Members are found in
the vicinity of other cellulose biosynthesis genes. The
model does not include a much less well-conserved
N-terminal region about 150 amino acids in length for
most members. Solano, et al. suggest this protein acts
as a protease [Cell envelope, Biosynthesis and
degradation of surface polysaccharides and
lipopolysaccharides].
Length = 322
Score = 28.0 bits (63), Expect = 6.0
Identities = 15/63 (23%), Positives = 21/63 (33%), Gaps = 10/63 (15%)
Query: 162 EIFRKPLEQILLTCKVGESLYSTERCSSFLSQL----------PEPPDPASITSAATELK 211
E R+ E++LL + S LS + P P D S+ SA
Sbjct: 151 ECLRQQDERLLLQLGANLVVPRNTPFSRMLSLIESLQGQVFSRPIPADYESLLSAVLPTA 210
Query: 212 LMG 214
G
Sbjct: 211 AKG 213
>gnl|CDD|224125 COG1204, COG1204, Superfamily II helicase [General function
prediction only].
Length = 766
Score = 28.1 bits (63), Expect = 7.1
Identities = 31/150 (20%), Positives = 45/150 (30%), Gaps = 33/150 (22%)
Query: 107 TRYNSKDDLVSLDNQWISRASVNQRAGRAGRTKPGESFHLYS-------EDRYRRMAEY- 158
RY+ K +V I V Q AGRAGR PG + + ++ Y
Sbjct: 367 RRYDPKGGIVD-----IPVLDVLQMAGRAGR--PGYDDYGEAIILATSHDELEYLAELYI 419
Query: 159 -SLPEIFRKPL------EQILLTCKVGESLYSTERCSSFL------SQLPEPPDPASITS 205
S PE L LL S + F Q
Sbjct: 420 QSEPEPIESKLGDELNLRTFLLGVISVGDAVSWLELTDFYERTFYNPQTYGEGMLREEIL 479
Query: 206 AATE--LKLMGVFDQEE---NLTPLGKRIA 230
A+ + + D + + T LGK ++
Sbjct: 480 ASLRYLEENGLILDADWEALHATELGKLVS 509
>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional.
Length = 413
Score = 28.0 bits (62), Expect = 7.7
Identities = 15/62 (24%), Positives = 22/62 (35%), Gaps = 7/62 (11%)
Query: 249 KGNCNCYGLIVPKSKREGRQDRR--KPAAPL-----FQFYSSKIDETRNEKMREEDEEEK 301
+G+C +G ++ R R KPA P Q + R + E EE
Sbjct: 20 RGHCKRHGGTREQAGRRRGTAARAAKPAPPAPTTSGPQVRAVAEQGHRQTESDTETAEES 79
Query: 302 RR 303
R
Sbjct: 80 RH 81
>gnl|CDD|225271 COG2407, FucI, L-fucose isomerase and related proteins
[Carbohydrate transport and metabolism].
Length = 470
Score = 27.8 bits (62), Expect = 8.2
Identities = 16/73 (21%), Positives = 32/73 (43%), Gaps = 4/73 (5%)
Query: 158 YSLPEIFRKPLEQILLTCKVGESLYSTERCSSFLSQLPEPPDPASITSAATELKLMGVFD 217
+ E + LE+ + + +SL R S +LS AS+ + L+ +GV
Sbjct: 141 DDISEDVERKLERFVRAGRAVKSL----RGSRYLSIGARSMGFASVRDSEKLLERLGVEV 196
Query: 218 QEENLTPLGKRIA 230
+ +L + +R+
Sbjct: 197 EAVDLEEIFRRVD 209
>gnl|CDD|113290 pfam04514, BTV_NS2, Bluetongue virus non-structural protein NS2.
This family includes NS2 proteins from other members of
the Orbivirus genus. NS2 is a non-specific
single-stranded RNA-binding protein that forms large
homomultimers and accumulates in viral inclusion bodies
of infected cells. Three RNA binding regions have been
identified in Bluetongue virus serotype 17 at residues
2-11, 153-166 and 274-286. NS2 multimers also possess
nucleotidyl phosphatase activity. The precise function
of NS2 is not known, but it may be involved in the
transport and condensation of viral mRNAs.
Length = 363
Score = 27.5 bits (61), Expect = 8.4
Identities = 16/46 (34%), Positives = 20/46 (43%), Gaps = 1/46 (2%)
Query: 258 IVPKSKREGRQDRRKPAAPLFQFYSSKIDETRNEKMREEDEEEKRR 303
IVP R R P P + E R +K+REE E+EK
Sbjct: 127 IVPPYTRNDFDRREMPELPGVTRSDYDVRELR-QKIREEREKEKEE 171
>gnl|CDD|214371 CHL00122, secA, preprotein translocase subunit SecA; Validated.
Length = 870
Score = 27.6 bits (62), Expect = 8.8
Identities = 20/55 (36%), Positives = 25/55 (45%), Gaps = 9/55 (16%)
Query: 129 NQRAGRAGRT-KPGES-FHLYSEDRYRRMA-EYSLPEIFRK------PLEQILLT 174
NQ GRAGR PG S F L ED R+ + + + PLE LL+
Sbjct: 609 NQLRGRAGRQGDPGSSRFFLSLEDNLLRIFGGDKIQNLMQTLNLDDEPLESKLLS 663
>gnl|CDD|233212 TIGR00963, secA, preprotein translocase, SecA subunit. The
proteins SecA-F and SecY, not all of which are
necessary, comprise the standard prokaryotic protein
translocation apparatus. Other, specialized
translocation systems also exist but are not as broadly
distributed. This model describes SecA, an essential
member of the apparatus. This model excludes SecA2 of
the accessory secretory system [Protein fate, Protein
and peptide secretion and trafficking].
Length = 745
Score = 27.6 bits (62), Expect = 9.2
Identities = 26/82 (31%), Positives = 35/82 (42%), Gaps = 27/82 (32%)
Query: 79 VVLSTNVAE--TSITIDDVA-----YVVDTGCHKETRYNSKDDLVSLDNQWISRASVNQR 131
V ++TN+A T I +++V YV+ T H+ SR NQ
Sbjct: 456 VTIATNMAGRGTDIKLEEVKELGGLYVIGTERHE------------------SRRIDNQL 497
Query: 132 AGRAGRT-KPGES-FHLYSEDR 151
GR+GR PG S F L ED
Sbjct: 498 RGRSGRQGDPGSSRFFLSLEDN 519
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
0.319 0.135 0.409
Gapped
Lambda K H
0.267 0.0751 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 15,339,362
Number of extensions: 1416844
Number of successful extensions: 1314
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1296
Number of HSP's successfully gapped: 31
Length of query: 304
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 208
Effective length of database: 6,679,618
Effective search space: 1389360544
Effective search space used: 1389360544
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 (21.8 bits)
S2: 59 (26.5 bits)