RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1866
(235 letters)
>gnl|CDD|147195 pfam04904, NCD1, NAB conserved region 1 (NCD1). Nab1 and Nab2
are co-repressors that specifically interact with and
repress transcription mediated by the three members of
the NGFI-A (Egr-1, Krox24, zif/268) family of
transcription factors. This region consists of the
N-terminal NAB conserved region 1, which interacts with
the EGR1 inhibitory domain (R1). It may also mediate
multimerisation.
Length = 82
Score = 150 bits (380), Expect = 5e-47
Identities = 65/81 (80%), Positives = 68/81 (83%)
Query: 5 TSTPNNEAELQLYRVMQRASLLAYYDTLLEMGGDDVQQLCEAGEEEFLEIMALVGMASKP 64
TP ELQLYRV+QRA+LL YYDT + GGDDVQQLCEAGEEEFLEIMALVGMASKP
Sbjct: 1 MPTPTTLGELQLYRVLQRANLLQYYDTFIAQGGDDVQQLCEAGEEEFLEIMALVGMASKP 60
Query: 65 LHVRRLQKALQEWTTNPAMFQ 85
LHVRRLQKALQEW TNP FQ
Sbjct: 61 LHVRRLQKALQEWVTNPTAFQ 81
>gnl|CDD|218320 pfam04905, NCD2, NAB conserved region 2 (NCD2). Nab1 and Nab2 are
co-repressors that specifically interact with and
repress transcription mediated by the three members of
the NGFI-A (Egr-1, Krox24, zif/268) family of
transcription factors. This family consists of NAB
conserved region 2, near the C-terminus of the protein.
It is necessary for transcriptional repression by the
Nab proteins. It is also required for transcription
activation by Nab proteins at Nab-activated promoters.
Length = 166
Score = 43.8 bits (103), Expect = 1e-05
Identities = 15/73 (20%), Positives = 34/73 (46%), Gaps = 5/73 (6%)
Query: 139 SQNFSPGQSPAEVSSPLQLTPVLDDSQIAKLADIAQQLVRALPHLE----PKAQNSKKKI 194
+ + +P P L +Q++++ + A++ R LP L+ P+ + KK+
Sbjct: 16 GSPYGNDFGDFDSGNP-SENPTLSTAQVSRVVECAERASRTLPRLDLGEVPRLLKNNKKL 74
Query: 195 CKDLEAVFQMSDE 207
K + + +MS+
Sbjct: 75 AKMVGHILEMSEA 87
>gnl|CDD|215562 PLN03078, PLN03078, Putative tRNA pseudouridine synthase;
Provisional.
Length = 513
Score = 34.1 bits (78), Expect = 0.061
Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 4/47 (8%)
Query: 95 STNFLTRSLPSFLGTTPPLVTSLSSPSVSSNVPLPSSPPPVESTSQN 141
ST+ L R P L T+ S SS S+++ PSS PP+ S
Sbjct: 17 STSLLRRVNPRILRTSS----SASSSPSSTSLSPPSSDPPLTDNSDQ 59
>gnl|CDD|165099 PHA02732, PHA02732, hypothetical protein; Provisional.
Length = 1467
Score = 34.0 bits (77), Expect = 0.063
Identities = 19/68 (27%), Positives = 27/68 (39%), Gaps = 5/68 (7%)
Query: 79 TNPAMFQTPLVSPGLPSTNFLTRSLPSFLGTTPPLVTSLSSPSVSSNVPLPSSPPPVEST 138
+P P G+ TN T F L + S P+ ++ P PSS +
Sbjct: 1199 QDPIFTYIPPGIIGMSGTNTFT-----FKAAQLQLSAASSPPAATTPTPPPSSSSSSSAQ 1253
Query: 139 SQNFSPGQ 146
S + SPGQ
Sbjct: 1254 SISTSPGQ 1261
>gnl|CDD|225304 COG2502, AsnA, Asparagine synthetase A [Amino acid transport and
metabolism].
Length = 330
Score = 32.8 bits (75), Expect = 0.13
Identities = 21/56 (37%), Positives = 30/56 (53%), Gaps = 5/56 (8%)
Query: 149 AEVSSPLQLTPVLDDSQIAKLADIAQQLVRALPHLEPKAQNSKKKICKDLEAVFQM 204
VS+ L P L D QI + +Q+LV P L+PK ++ I K+L AVF +
Sbjct: 149 LAVSAEFGLAPFLPD-QITFIH--SQELVARYPDLDPK--GRERAIAKELGAVFLI 199
>gnl|CDD|112409 pfam03590, AsnA, Aspartate-ammonia ligase.
Length = 244
Score = 30.9 bits (70), Expect = 0.44
Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 5/54 (9%)
Query: 149 AEVSSPLQLTPVLDDSQIAKLADIAQQLVRALPHLEPKAQNSKKKICKDLEAVF 202
VS L +L D QI + +++LV P L PK + + ICK+ AVF
Sbjct: 147 LAVSERFGLAIILPD-QITFVH--SEELVDRYPDLSPKER--ENAICKEHGAVF 195
>gnl|CDD|238350 cd00645, AsnA, Asparagine synthetase (aspartate-ammonia ligase)
(AsnA) catalyses the conversion of L-aspartate to
L-asparagine in the presence of ATP and ammonia. AsnA
is a homodimeric enzyme which is structurally similiar
to the catalytic core domain of class II aminoacyl-tRNA
synthetases. Ammonia-dependent AsnA is not homologous to
the glutamine-dependent asparagine synthetase AsnB.
Length = 309
Score = 30.8 bits (70), Expect = 0.49
Identities = 12/31 (38%), Positives = 17/31 (54%), Gaps = 2/31 (6%)
Query: 174 QQLVRALPHLEPKAQNSKKKICKDLEAVFQM 204
Q+L P L PK + + ICK+ AVF +
Sbjct: 163 QELEDRYPDLTPKER--EDAICKEHGAVFII 191
>gnl|CDD|215130 PLN02217, PLN02217, probable pectinesterase/pectinesterase
inhibitor.
Length = 670
Score = 30.8 bits (69), Expect = 0.64
Identities = 19/85 (22%), Positives = 32/85 (37%), Gaps = 6/85 (7%)
Query: 77 WTTNPAMFQTPLVSPGLPSTNFLTRSLPSFL---GTTPPLVTSLSSPSVSSNVPLPSSPP 133
+ NP + S + PS + T+PP S P+ S + PS+ P
Sbjct: 562 FAGNPGSTNSTPTGSAASSNTTFSSDSPSTVVAPSTSPPAGHLGSPPATPSKIVSPSTSP 621
Query: 134 PVESTSQNFSPGQSPAEVSSPLQLT 158
P SP +P+ S +++
Sbjct: 622 PASHLG---SPSTTPSSPESSIKVA 643
>gnl|CDD|129752 TIGR00669, asnA, aspartate--ammonia ligase, AsnA-type. This model
represents one of two non-homologous forms of
aspartate--ammonia ligase (asparagine synthetase) found
in E. coli. This type is also found in Haemophilus
influenzae, Treponema pallidum and Lactobacillus
delbrueckii, but appears to have a very limited
distribution. The fact that the protein from the H.
influenzae is more than 70 % identical to that from the
spirochete Treponema pallidum, but less than 65 %
identical to that from the closely related E. coli,
strongly suggests lateral transfer [Amino acid
biosynthesis, Aspartate family].
Length = 330
Score = 30.3 bits (68), Expect = 0.88
Identities = 21/56 (37%), Positives = 31/56 (55%), Gaps = 5/56 (8%)
Query: 147 SPAEVSSPLQLTPVLDDSQIAKLADIAQQLVRALPHLEPKAQNSKKKICKDLEAVF 202
+ A VS L P L D QI + +++LV P L+ K + ++ ICK+L AVF
Sbjct: 147 TEAAVSERFGLAPFLPD-QIHFVH--SEELVSRYPDLDSKGR--ERAICKELGAVF 197
>gnl|CDD|215418 PLN02782, PLN02782, Branched-chain amino acid aminotransferase.
Length = 403
Score = 30.2 bits (68), Expect = 0.88
Identities = 18/69 (26%), Positives = 29/69 (42%), Gaps = 3/69 (4%)
Query: 106 FLGTTPPLVTSLSSPSVSSNVPLPSSPPPVESTSQNFSPGQSPAEVSSPLQLTPVLDDS- 164
L + T L S S N P PSS + ++ + S ++ S + V S
Sbjct: 3 LLCPSRAFSTRLHSSSRRLNFPPPSS-LSLRHSNSSVSSNPISSKAISLTRCDAVSSSSY 61
Query: 165 -QIAKLADI 172
++ +LADI
Sbjct: 62 TEVTELADI 70
>gnl|CDD|216434 pfam01326, PPDK_N, Pyruvate phosphate dikinase, PEP/pyruvate
binding domain. This enzyme catalyzes the reversible
conversion of ATP to AMP, pyrophosphate and
phosphoenolpyruvate (PEP).
Length = 324
Score = 30.1 bits (68), Expect = 0.93
Identities = 11/33 (33%), Positives = 18/33 (54%)
Query: 150 EVSSPLQLTPVLDDSQIAKLADIAQQLVRALPH 182
V + PVL D+Q+ +LAD+A++L
Sbjct: 247 PVPEERRSAPVLTDAQLQELADLAKRLEAHFGS 279
>gnl|CDD|183181 PRK11534, PRK11534, DNA-binding transcriptional regulator CsiR;
Provisional.
Length = 224
Score = 29.5 bits (66), Expect = 1.1
Identities = 21/77 (27%), Positives = 31/77 (40%), Gaps = 3/77 (3%)
Query: 17 YRV--MQRASLLAYYDTLLEMGGDDVQQLCEAGEEEF-LEIMALVGMASKPLHVRRLQKA 73
YRV M LL +D M V G +E+ +++A + SK +K
Sbjct: 68 YRVASMSEQELLDIFDARANMEAMLVSLAIARGGDEWEADVLAKAHLLSKLEACDASEKM 127
Query: 74 LQEWTTNPAMFQTPLVS 90
L EW F T +V+
Sbjct: 128 LDEWDLRHQAFHTAIVA 144
>gnl|CDD|218191 pfam04652, DUF605, Vta1 like. Vta1 (VPS20-associated protein 1) is
a positive regulator of Vps4. Vps4 is an ATPase that is
required in the multivesicular body (MVB) sorting
pathway to dissociate the endosomal sorting complex
required for transport (ESCRT). Vta1 promotes correct
assembly of Vps4 and stimulates its ATPase activity
through its conserved Vta1/SBP1/LIP5 region.
Length = 315
Score = 29.3 bits (66), Expect = 1.5
Identities = 21/91 (23%), Positives = 29/91 (31%), Gaps = 10/91 (10%)
Query: 81 PAMFQTPLVSPGLPSTNFLTRSLPSFLGT--TPPLVTSLSSPSVSSNVPLPSSPPPVEST 138
P + LP PS + PP S ++PS P PP +
Sbjct: 200 PPEDPSSPSDSSLPPA-------PSSFQSDTPPPSPESPTNPSPPPGPAAPPPPPVQQVP 252
Query: 139 SQNFS-PGQSPAEVSSPLQLTPVLDDSQIAK 168
+ + P A + LDD IAK
Sbjct: 253 PLSTAKPTPPSASATPAPIGGITLDDDAIAK 283
>gnl|CDD|237862 PRK14948, PRK14948, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 620
Score = 29.5 bits (67), Expect = 1.6
Identities = 18/71 (25%), Positives = 30/71 (42%), Gaps = 5/71 (7%)
Query: 111 PPLVTSLSSPSVSSNVPLPSSPPPVESTSQNFSPGQSPAEVSSPLQLTPV-----LDDSQ 165
P L P+ ++ P P PPP + + + +P Q PA+ S P + DS
Sbjct: 534 PAPTPPLPQPTATAPPPTPPPPPPTATQASSNAPAQIPADSSPPPPIPEEPTPSPTKDSS 593
Query: 166 IAKLADIAQQL 176
++ A+ L
Sbjct: 594 PEEIDKAAKNL 604
>gnl|CDD|236776 PRK10856, PRK10856, cytoskeletal protein RodZ; Provisional.
Length = 331
Score = 29.2 bits (66), Expect = 1.8
Identities = 13/54 (24%), Positives = 19/54 (35%), Gaps = 1/54 (1%)
Query: 108 GTTPPLVTSLSSPSVSSNVPLPSSPP-PVESTSQNFSPGQSPAEVSSPLQLTPV 160
TTP + + +S P ++ P P QN S A V + P
Sbjct: 173 ATTPAPAAPVDTTPTNSQTPAVATAPAPAVDPQQNAVVAPSQANVDTAATPAPA 226
>gnl|CDD|176512 cd08570, GDPD_YPL206cp_fungi, Glycerophosphodiester
phosphodiesterase domain of Saccharomyces cerevisiae
YPL206cp and similar proteins. This subfamily
corresponds to the glycerophosphodiester
phosphodiesterase domain (GDPD) present in Saccharomyces
cerevisiae YPL206cp and uncharacterized hypothetical
homologs existing in fungi. The product of S. cerevisiae
ORF YPL206c (PGC1), YPL206cp (Pgc1p), displays homology
to bacterial and mammalian glycerophosphodiester
phosphodiesterases (GP-GDE, EC 3.1.4.46), which
catalyzes the degradation of glycerophosphodiesters to
produce sn-glycerol-3-phosphate (G3P) and the
corresponding alcohols. S. cerevisiae YPL206cp is an
integral membrane protein with a single GDPD domain
following by a short hydrophobic C-terminal tail that
may function as a membrane anchor. This protein plays an
essential role in the regulation of the cardiolipin (CL)
biosynthetic pathway in yeast by removing the excess
phosphatidylglycerol (PG) content of membranes via a
phospholipase C-type degradation mechanism. YPL206cp has
been characterized as a PG-specific phospholipase C that
selectively catalyzes the cleavage of PG, not
glycerophosphoinositol (GPI) or glycerophosphocholine
(GPC), to diacylglycerol (DAG) and glycerophosphate.
Members in this family are distantly related to S.
cerevisiae YPL110cp, which selectively hydrolyzes
glycerophosphocholine (GPC), not glycerophosphoinositol
(GPI), to generate choline and glycerolphosphate, and
has been characterized as a cytoplasmic GPC-specific
phosphodiesterase.
Length = 234
Score = 28.7 bits (65), Expect = 2.0
Identities = 9/21 (42%), Positives = 10/21 (47%), Gaps = 4/21 (19%)
Query: 214 KDNV----HDSNLERITNKKY 230
KD V HD NL+R K
Sbjct: 38 KDGVVVISHDPNLKRCFGKDG 58
>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 = 29.3 bits (65), Expect = 2.1
Identities = 17/84 (20%), Positives = 21/84 (25%), Gaps = 1/84 (1%)
Query: 71 QKALQEWTTNPAMFQTPLVSPGLPSTNFLTRSLPSFLGTTPPLVTSLSSPSVSSNVPLPS 130
L Q P S GLP+ S PP +S S P S+
Sbjct: 440 HSGLHSGPPQSPFAQHPFTSGGLPAIGPPPSLPTSTPA-APPRASSGSQPPGSALPSSGG 498
Query: 131 SPPPVESTSQNFSPGQSPAEVSSP 154
P + E P
Sbjct: 499 CAGPGPPLPPIQIKEEPLDEAEEP 522
>gnl|CDD|219006 pfam06388, DUF1075, Protein of unknown function (DUF1075). This
family consists of several eukaryotic proteins of
unknown function.
Length = 146
Score = 28.2 bits (63), Expect = 2.2
Identities = 8/39 (20%), Positives = 13/39 (33%)
Query: 121 SVSSNVPLPSSPPPVESTSQNFSPGQSPAEVSSPLQLTP 159
S SS++ L P +SP + + P
Sbjct: 12 SFSSSLRLRRPSDLKRINGFCTKPQESPGAPTQHIHRVP 50
>gnl|CDD|215479 PLN02887, PLN02887, hydrolase family protein.
Length = 580
Score = 29.1 bits (65), Expect = 2.4
Identities = 15/62 (24%), Positives = 20/62 (32%), Gaps = 4/62 (6%)
Query: 82 AMFQTPLVSPGLPSTNFLTRSLPSFLGTTPPLVTSLSSPSVSSNVPLPSSPPPVESTSQN 141
+ VS L + PP L PS S P S+ ++ TS
Sbjct: 1 MLPMLSRVSLPLRLPRLFPAAARE----MPPAARLLLQPSSLSFSPKTSNFNRLDVTSTE 56
Query: 142 FS 143
FS
Sbjct: 57 FS 58
>gnl|CDD|238013 cd00056, ENDO3c, endonuclease III; includes endonuclease III
(DNA-(apurinic or apyrimidinic site) lyase), alkylbase
DNA glycosidases (Alka-family) and other DNA
glycosidases.
Length = 158
Score = 28.0 bits (63), Expect = 2.6
Identities = 15/50 (30%), Positives = 25/50 (50%)
Query: 27 AYYDTLLEMGGDDVQQLCEAGEEEFLEIMALVGMASKPLHVRRLQKALQE 76
Y+ L E G + L A EEE E++ +G K +++ L +A+ E
Sbjct: 20 KAYERLFERYGPTPEALAAADEEELRELIRSLGYRRKAKYLKELARAIVE 69
>gnl|CDD|237015 PRK11901, PRK11901, hypothetical protein; Reviewed.
Length = 327
Score = 28.5 bits (64), Expect = 3.0
Identities = 10/46 (21%), Positives = 16/46 (34%)
Query: 104 PSFLGTTPPLVTSLSSPSVSSNVPLPSSPPPVESTSQNFSPGQSPA 149
S +S ++ P S PP+ T +P Q+P
Sbjct: 93 SSPSAANNTSDGHDASGVKNTAPPQDISAPPISPTPTQAAPPQTPN 138
>gnl|CDD|215036 PLN00034, PLN00034, mitogen-activated protein kinase kinase;
Provisional.
Length = 353
Score = 28.6 bits (64), Expect = 3.1
Identities = 20/71 (28%), Positives = 26/71 (36%), Gaps = 3/71 (4%)
Query: 85 QTPLVSPGLPSTNFLTRSLPSFLGTTPPLVTSLSSPSVSSNVPLPSSPPPVESTSQNFSP 144
Q P P + T+S P P L L S VPLP PP S+S + S
Sbjct: 5 QPPPGVPLPSTARHTTKSRPR---RRPDLTLPLPQRDPSLAVPLPLPPPSSSSSSSSSSS 61
Query: 145 GQSPAEVSSPL 155
A ++
Sbjct: 62 ASGSAPSAAKS 72
>gnl|CDD|140276 PTZ00249, PTZ00249, variable surface protein Vir28; Provisional.
Length = 516
Score = 28.5 bits (63), Expect = 3.2
Identities = 16/48 (33%), Positives = 22/48 (45%)
Query: 111 PPLVTSLSSPSVSSNVPLPSSPPPVESTSQNFSPGQSPAEVSSPLQLT 158
PP S SSP P+ + PP S S + G+ P E +P +T
Sbjct: 239 PPKHISFSSPHAHGRPPVETRPPNPVSVSSPQAHGRHPGETHTPPLVT 286
Score = 27.3 bits (60), Expect = 8.5
Identities = 17/60 (28%), Positives = 27/60 (45%), Gaps = 3/60 (5%)
Query: 109 TTPPLVTSLSSPSVSSNVPLPSSPPPVESTSQNFSPGQSPAEVSSPLQLTPVLDDSQIAK 168
T PP S+SSP P + PP+ + + + ++P + +P T V S AK
Sbjct: 258 TRPPNPVSVSSPQAHGRHPGETHTPPLVTVPSSKAHDRNPVQTPTP---TSVSGYSSQAK 314
>gnl|CDD|212073 cd11504, SLC5sbd_SMVT, Na(+)/multivitamin cotransporter SMVT and
related proteins; solute-binding domain. This
multivitamin transporter SMVT (product of the SLC5A6
gene) transports biotin, pantothenic acid and lipoate,
and is essential for mediating biotin uptake into
mammalian cells. SMVT is expressed in the placenta,
intestine, heart, brain, lung, liver, kidney and
pancreas. Biotin may regulate its own cellular uptake
through participation in holocarboxylase
synthetase-dependent chromatin remodeling events at SMVT
promoter loci. The cis regulatory elements, Kruppel-like
factor 4 and activator protein-2, regulate the activity
of the human SMVT promoter in the intestine.
Glycosylation of the hSMVT is important for its
transport function. This subgroup belongs to the solute
carrier 5 (SLC5) transporter family.
Length = 527
Score = 28.7 bits (64), Expect = 3.2
Identities = 11/52 (21%), Positives = 19/52 (36%), Gaps = 9/52 (17%)
Query: 84 FQTPLVSPGLPSTNFLTRSLPSFLGTTPPLVTSLSSPSVSSNVPLPSSPPPV 135
F + SP P T P VT+ ++ + ++ P+ P P
Sbjct: 452 FVFRMYSPTKS---------PPINDTIFPNVTNATAATPTTLFATPTDPRPP 494
>gnl|CDD|215145 PLN02258, PLN02258, 9-cis-epoxycarotenoid dioxygenase NCED.
Length = 590
Score = 28.5 bits (64), Expect = 3.3
Identities = 19/97 (19%), Positives = 31/97 (31%), Gaps = 14/97 (14%)
Query: 77 WTTNPAMFQTPLVSPGLPSTNFLTRSLPSFLGTTPPLVTSLSSPSVSSNVPLPSSPPPVE 136
T+ + S ++ + + P P + L +PS+ L S PP
Sbjct: 5 NPTSRSQSHASSSSSSSSQSSPPSSTSPRPRRRKPSASSLLHTPSILPLPKLSSPSPP-- 62
Query: 137 STSQNFSPGQSPAEVSSPLQLTPVLDDSQIAKLADIA 173
S PA + QL P+ + A A
Sbjct: 63 ------SVTLPPAATTQTPQLNPL------QRAAAAA 87
>gnl|CDD|217453 pfam03251, Tymo_45kd_70kd, Tymovirus 45/70Kd protein. Tymoviruses
are single stranded RNA viruses. This family includes a
protein of unknown function that has been named based on
its molecular weight. Tymoviruses such as the ononis
yellow mosaic tymovirus encode only three proteins. Of
these two are overlapping this protein overlaps a larger
ORF that is thought to be the polymerase.
Length = 458
Score = 28.5 bits (64), Expect = 3.6
Identities = 10/54 (18%), Positives = 18/54 (33%)
Query: 102 SLPSFLGTTPPLVTSLSSPSVSSNVPLPSSPPPVESTSQNFSPGQSPAEVSSPL 155
+LPS +G + L + SP P T + +P + +
Sbjct: 403 ALPSHVGASSSKHHRLPPSVLPGPRLSSPSPSPSLPTRRPGTPPPPASPPTPSP 456
Score = 27.0 bits (60), Expect = 9.7
Identities = 21/109 (19%), Positives = 34/109 (31%), Gaps = 18/109 (16%)
Query: 89 VSPGLPSTNFLTRSLPS----FLGTTPPLVT---SLSSPSVSSNVPLP-----------S 130
SP P + R L T P ++ L P +S+ P
Sbjct: 7 TSPRRPILHHSQRFLSESSSRLGCRTSPGLSSNLPLDHPKGTSSFPQLLRHPSLRLRLHP 66
Query: 131 SPPPVESTSQNFSPGQSPAEVSSPLQLTPVLDDSQIAKLADIAQQLVRA 179
PPP ++F Q L V + ++++ +L RA
Sbjct: 67 PPPPCPQNPRDFPSLQPLELPLHHSLLRHVHETLKVSQAPGEQPKLPRA 115
>gnl|CDD|233208 TIGR00956, 3a01205, Pleiotropic Drug Resistance (PDR) Family
protein. [Transport and binding proteins, Other].
Length = 1394
Score = 28.5 bits (64), Expect = 3.7
Identities = 22/81 (27%), Positives = 31/81 (38%), Gaps = 10/81 (12%)
Query: 109 TTPPLVTSLSSPSVSSNVPLPSSPPPVESTSQNF------SP--GQSPAEVSSPLQLTPV 160
TT +TSL+SP + P V T Q F SP Q E+ L
Sbjct: 314 TTADFLTSLTSP--AERQIKPGYEKKVPRTPQEFETYWRNSPEYAQLMKEIDEYLDRCSE 371
Query: 161 LDDSQIAKLADIAQQLVRALP 181
D + + + +A+Q R P
Sbjct: 372 SDTKEAYRESHVAKQSKRTRP 392
>gnl|CDD|215361 PLN02673, PLN02673, quinolinate synthetase A.
Length = 724
Score = 28.5 bits (63), Expect = 3.9
Identities = 20/67 (29%), Positives = 25/67 (37%), Gaps = 4/67 (5%)
Query: 94 PSTNFLTRSL----PSFLGTTPPLVTSLSSPSVSSNVPLPSSPPPVESTSQNFSPGQSPA 149
PS NF T +GT PL S PS+ P ++ FSP Q+
Sbjct: 20 PSPNFRTTHPNFGSQRRIGTINPLFKSFKCIQSPPPDSAPSNASPFSCSAVAFSPSQTTE 79
Query: 150 EVSSPLQ 156
V LQ
Sbjct: 80 LVPCKLQ 86
>gnl|CDD|215533 PLN02983, PLN02983, biotin carboxyl carrier protein of acetyl-CoA
carboxylase.
Length = 274
Score = 27.9 bits (62), Expect = 4.2
Identities = 14/45 (31%), Positives = 21/45 (46%)
Query: 104 PSFLGTTPPLVTSLSSPSVSSNVPLPSSPPPVESTSQNFSPGQSP 148
+ +PP S SS P P+SPPP ++ + P +SP
Sbjct: 159 HAMPPASPPAAQPAPSAPASSPPPTPASPPPAKAPKSSHPPLKSP 203
>gnl|CDD|153118 cd07909, YciF, YciF bacterial stress response protein,
ferritin-like iron-binding domain. YciF is a bacterial
protein of unknown function that is up-regulated when
bacteria experience stress conditions, and is highly
conserved in a broad range of bacterial species. YciF
has a ferritin-like domain. Ferritin-like,
diiron-carboxylate proteins participate in a range of
functions including iron regulation, mono-oxygenation,
and reactive radical production. These proteins are
characterized by the fact that they catalyze
dioxygen-dependent oxidation-hydroxylation reactions
within diiron centers; one exception is manganese
catalase, which catalyzes peroxide-dependent
oxidation-reduction within a dimanganese center.
Diiron-carboxylate proteins are further characterized by
the presence of duplicate metal ligands, glutamates and
histidines (ExxH) and two additional glutamates within a
four-helix bundle. Outside of these conserved residues
there is little obvious homology. Members include
bacterioferritin, ferritin, rubrerythrin, aromatic and
alkene monooxygenase hydroxylases (AAMH), ribonucleotide
reductase R2 (RNRR2), acyl-ACP-desaturases
(Acyl_ACP_Desat), manganese (Mn) catalases,
demethoxyubiquinone hydroxylases (DMQH), DNA protecting
proteins (DPS), and ubiquinol oxidases (AOX), and the
aerobic cyclase system, Fe-containing subunit (ACSF).
Length = 147
Score = 27.5 bits (62), Expect = 4.2
Identities = 11/46 (23%), Positives = 20/46 (43%), Gaps = 12/46 (26%)
Query: 174 QQLVRALPHLEPKAQNSK------------KKICKDLEAVFQMSDE 207
+QLV+ALP + A + + + + LE +F+ E
Sbjct: 16 KQLVKALPKMAKAATSEELKEAFESHLEETEGQVERLEQIFESLGE 61
>gnl|CDD|224192 COG1273, COG1273, Ku-homolog [Replication, recombination, and
repair].
Length = 278
Score = 27.7 bits (62), Expect = 4.9
Identities = 18/89 (20%), Positives = 34/89 (38%), Gaps = 27/89 (30%)
Query: 148 PAEVSSPLQLTPVLDDSQI-AKLADIAQQLVRALP-HLEPKAQNSKKKICKDLEAVFQMS 205
P EV SP + P + D +I ++ ++A+QL+ +P
Sbjct: 168 PDEVRSPDEYFPGIPDIKIDPEMLELAKQLIDKKTGTFDPD------------------- 208
Query: 206 DEAVILKVKDNVHDSNLERITNKKYGRQL 234
+ +D ++ +E I K GR+
Sbjct: 209 ------EYEDRYQEALMELIEAKLEGRKT 231
>gnl|CDD|237864 PRK14950, PRK14950, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 585
Score = 27.9 bits (62), Expect = 5.1
Identities = 32/166 (19%), Positives = 54/166 (32%), Gaps = 15/166 (9%)
Query: 81 PAMFQTPLVSPGLPSTNFLTRSLPSFLGTTPPLVTSLSSPSVSSNVPLPSSPPPVESTSQ 140
PA SP P+ TR + PP + + P P +PP +
Sbjct: 368 PAKPTAAAPSPVRPTPAPSTRPKAAAAANIPPKEPVRETATPPPVPPRPVAPPVPHTPES 427
Query: 141 --NFSPGQSPAEVSS-------PLQLTPVL--DDSQIAKLADIAQQLVRALPHLEPKAQN 189
+ P + P + L D + +L I +Q++R +P P Q
Sbjct: 428 APKLTRAAIPVDEKPKYTPPAPPKEEEKALIADGDVLEQLEAIWKQILRDVPPRSPAVQA 487
Query: 190 SKKKICKDLEAVFQMSDEAVILKVKDNVHDSNLERITNKKYGRQLL 235
+ + + + L K H +E N+K +LL
Sbjct: 488 LLSSGVRPVS----VEKNTLTLSFKSKFHKDKIEEPENRKITEELL 529
>gnl|CDD|183756 PRK12799, motB, flagellar motor protein MotB; Reviewed.
Length = 421
Score = 27.8 bits (61), Expect = 5.6
Identities = 15/94 (15%), Positives = 34/94 (36%), Gaps = 7/94 (7%)
Query: 79 TNPAMFQTPLVSP-GLPSTNFLTRSLPSFLGTTPPLVTSLSSPSVSSNVPLPSSPPPVES 137
P+ T + + + + T P V ++ V+ S+ +S
Sbjct: 328 VIPSSVTTQSATTTQASAVALSSAGVLPSDVTLPGTVALPAAEPVNMQPQPMSTTETQQS 387
Query: 138 TSQNFSPGQS------PAEVSSPLQLTPVLDDSQ 165
++ N + + PA +S + ++P D+Q
Sbjct: 388 STGNITSTANGPTTSLPAAPASNIPVSPTSRDAQ 421
>gnl|CDD|237203 PRK12790, PRK12790, chemotactic signal-response protein CheL;
Provisional.
Length = 115
Score = 26.7 bits (59), Expect = 5.8
Identities = 11/28 (39%), Positives = 15/28 (53%)
Query: 175 QLVRALPHLEPKAQNSKKKICKDLEAVF 202
+L AL + P+AQ K D EA+F
Sbjct: 24 ELAEALEKVSPQAQAKAKATATDFEAMF 51
>gnl|CDD|183899 PRK13214, PRK13214, photosystem I reaction center subunit X;
Reviewed.
Length = 86
Score = 26.2 bits (58), Expect = 5.8
Identities = 13/25 (52%), Positives = 14/25 (56%), Gaps = 1/25 (4%)
Query: 87 PLVSPGLPSTNFL-TRSLPSFLGTT 110
P V P LPS NF L + LGTT
Sbjct: 42 PNVGPALPSANFFGGMGLGALLGTT 66
>gnl|CDD|216484 pfam01411, tRNA-synt_2c, tRNA synthetases class II (A). Other tRNA
synthetase sub-families are too dissimilar to be
included. This family includes only alanyl-tRNA
synthetases.
Length = 551
Score = 27.6 bits (62), Expect = 6.4
Identities = 13/33 (39%), Positives = 16/33 (48%)
Query: 28 YYDTLLEMGGDDVQQLCEAGEEEFLEIMALVGM 60
YD E+GG A ++ FLEI LV M
Sbjct: 172 DYDRGEEIGGWPSGGPPTADDDRFLEIWNLVFM 204
>gnl|CDD|235751 PRK06241, PRK06241, phosphoenolpyruvate synthase; Validated.
Length = 871
Score = 27.5 bits (62), Expect = 6.9
Identities = 8/27 (29%), Positives = 15/27 (55%)
Query: 150 EVSSPLQLTPVLDDSQIAKLADIAQQL 176
E+ Q + L D QI +LA + +++
Sbjct: 258 EIEPEQQKSQTLTDEQILELARLGRKI 284
>gnl|CDD|215597 PLN03137, PLN03137, ATP-dependent DNA helicase; Q4-like;
Provisional.
Length = 1195
Score = 27.6 bits (61), Expect = 7.3
Identities = 16/40 (40%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 116 SLSSPSVSSNVPLPSSPPPVESTSQNFSP--GQSPAEVSS 153
+LSS S+++N P PP+++ S + S GQS +VSS
Sbjct: 89 ALSSLSINNNYLRPGKTPPIDNGSTDLSSDVGQSTTKVSS 128
>gnl|CDD|132093 TIGR03049, PS_I_psaK, photosystem I reaction center subunit PsaK.
Members of this protein family are the PsaK of the
photosystem I reaction center. Photosystems I and II
occur together in the same sets of organisms.
Photosystem I uses light energy to transfer electrons
from plastocyanin to ferredoxin, while photosystem II
uses light energy to split water and releases molecular
oxygen [Energy metabolism, Photosynthesis].
Length = 81
Score = 25.8 bits (57), Expect = 7.9
Identities = 12/27 (44%), Positives = 14/27 (51%), Gaps = 1/27 (3%)
Query: 85 QTPLVSPGLPSTNFL-TRSLPSFLGTT 110
Q P V P LP++ F LP L TT
Sbjct: 35 QYPNVGPKLPNSAFFGGFGLPELLATT 61
>gnl|CDD|219419 pfam07462, MSP1_C, Merozoite surface protein 1 (MSP1) C-terminus.
This family represents the C-terminal region of
merozoite surface protein 1 (MSP1) which are found in a
number of Plasmodium species. MSP-1 is a 200-kDa protein
expressed on the surface of the P. vivax merozoite.
MSP-1 of Plasmodium species is synthesised as a
high-molecular-weight precursor and then processed into
several fragments. At the time of red cell invasion by
the merozoite, only the 19-kDa C-terminal fragment
(MSP-119), which contains two epidermal growth
factor-like domains, remains on the surface. Antibodies
against MSP-119 inhibit merozoite entry into red cells,
and immunisation with MSP-119 protects monkeys from
challenging infections. Hence, MSP-119 is considered a
promising vaccine candidate.
Length = 574
Score = 27.2 bits (60), Expect = 7.9
Identities = 14/67 (20%), Positives = 25/67 (37%)
Query: 109 TTPPLVTSLSSPSVSSNVPLPSSPPPVESTSQNFSPGQSPAEVSSPLQLTPVLDDSQIAK 168
T VT++ +P + P P S P S+ Q P S + Q+ +
Sbjct: 263 TQEAKVTTVVTPPQADAAPSPLSVRPAGSSGSASGSTQIPTSGSVLGPGAAATELQQVVQ 322
Query: 169 LADIAQQ 175
L + ++
Sbjct: 323 LQNYDEE 329
>gnl|CDD|236138 PRK07994, PRK07994, DNA polymerase III subunits gamma and tau;
Validated.
Length = 647
Score = 27.1 bits (61), Expect = 9.1
Identities = 18/83 (21%), Positives = 33/83 (39%), Gaps = 4/83 (4%)
Query: 104 PSFLGTTPPLVTSLSSPSVSSNVPLPSSPPPVESTSQNFSPGQSPAEVSSPLQLTPVLDD 163
P+ P + ++P+ S+ ++ P + + +P P S+P Q V
Sbjct: 361 PAAPLPEPEVPPQSAAPAASA----QATAAPTAAVAPPQAPAVPPPPASAPQQAPAVPLP 416
Query: 164 SQIAKLADIAQQLVRALPHLEPK 186
++L QQL RA + K
Sbjct: 417 ETTSQLLAARQQLQRAQGATKAK 439
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
0.313 0.128 0.358
Gapped
Lambda K H
0.267 0.0604 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,805,591
Number of extensions: 1095352
Number of successful extensions: 1290
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1237
Number of HSP's successfully gapped: 116
Length of query: 235
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 141
Effective length of database: 6,768,326
Effective search space: 954333966
Effective search space used: 954333966
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 57 (26.0 bits)