RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6043
(282 letters)
>gnl|CDD|238247 cd00433, Peptidase_M17, Cytosol aminopeptidase family, N-terminal
and catalytic domains. Family M17 contains zinc- and
manganese-dependent exopeptidases ( EC 3.4.11.1),
including leucine aminopeptidase. They catalyze removal
of amino acids from the N-terminus of a protein and play
a key role in protein degradation and in the metabolism
of biologically active peptides. They do not contain
HEXXH motif (which is used as one of the signature
patterns to group the peptidase families) in the
metal-binding site. The two associated zinc ions and the
active site are entirely enclosed within the C-terminal
catalytic domain in leucine aminopeptidase. The enzyme
is a hexamer, with the catalytic domains clustered
around the three-fold axis, and the two trimers related
to one another by a two-fold rotation. The N-terminal
domain is structurally similar to the ADP-ribose binding
Macro domain. This family includes proteins from
bacteria, archaea, animals and plants.
Length = 468
Score = 250 bits (642), Expect = 1e-80
Identities = 88/275 (32%), Positives = 129/275 (46%), Gaps = 20/275 (7%)
Query: 1 MAPPKVEEYILETFKNTPSIKINIIKDPKILDKEYPLFSAVNRAASVIDRHQGRVIFLEY 60
+ P + E E K +K+ ++ + ++ + AV + + R+I LEY
Sbjct: 171 LTPTYLAEEAKELAKEL-GVKVEVLDEKELEELGMGALLAVGKGSE----EPPRLIVLEY 225
Query: 61 EPTSSSPTSSLFLVGKGVTYDTGGADIKISGNMAGMARDKCGAAVVAGFMKAVAMLQPKV 120
+ +S + LVGKG+T+DTGG +K + M GM D GAA V G MKA+A L+ V
Sbjct: 226 KGKGAS-KKPIALVGKGITFDTGGLSLKPAAGMDGMKYDMGGAAAVLGAMKAIAELKLPV 284
Query: 121 RVVGALAVVRNSCGENSYVSDEVVVSRAGKRIRVTNTDAEGRFAMADVLAHMAEKAKDAV 180
VVG L + N N+Y +V+ SR+GK + + NTDAEGR +AD L + A++
Sbjct: 285 NVVGVLPLAENMISGNAYRPGDVITSRSGKTVEILNTDAEGRLVLADALTY----AQEFK 340
Query: 181 NPHLFTIATLTGHACLTVGEGYSIVMDNGPARQENNAVLLSETGEAMGDPFEISRIRRED 240
+ IATLTG A + +G Y+ + N + A L GEA G+ + E
Sbjct: 341 PDLIIDIATLTGAAVVALGHDYAGLFTND----DELAKQLLAAGEASGERVWRLPLWEEY 396
Query: 241 FRFFKSKCEGEDLIQSGMKSSGSNSRGHQGPGAFL 275
KS DL G G G FL
Sbjct: 397 REQLKSDI--ADLKNIG----GRGPAGSITAALFL 425
>gnl|CDD|223338 COG0260, PepB, Leucyl aminopeptidase [Amino acid transport and
metabolism].
Length = 485
Score = 160 bits (408), Expect = 4e-46
Identities = 73/224 (32%), Positives = 106/224 (47%), Gaps = 21/224 (9%)
Query: 12 ETFKNTPSIKINIIKDPKILDKEYPLFSAVNRAASVIDRHQGRVIFLEYEPTSSSPTSSL 71
E +K+ ++ + + AV + ++ R+I LEY + +
Sbjct: 194 ELLAKLGGVKVEVLDEKDLEKLGMGALLAVGKGSA----RPPRLIVLEYNGKGKAK-KPI 248
Query: 72 FLVGKGVTYDTGGADIKISGNMAGMARDKCGAAVVAGFMKAVAMLQPKVRVVGALAVVRN 131
LVGKG+T+D+GG IK + M M D GAA V G M+A+A L+ V VVG L V N
Sbjct: 249 ALVGKGITFDSGGISIKPAAGMDTMKYDMGGAAAVLGAMRALAELKLPVNVVGVLPAVEN 308
Query: 132 SCGENSYVSDEVVVSRAGKRIRVTNTDAEGRFAMADVLAHMAEKAKDAVNPH-LFTIATL 190
N+Y +V+ S GK + V NTDAEGR +AD L + E P + +ATL
Sbjct: 309 MPSGNAYRPGDVITSMNGKTVEVLNTDAEGRLVLADALTYAEEL-----KPDLIIDVATL 363
Query: 191 TGHACLT-VGEGYSIVM--DNGPARQENNAVLLSETGEAMGDPF 231
TG A + +G Y+ + D+ A Q L E G+P
Sbjct: 364 TG-AAVVALGNDYTGLFSNDDELANQ------LLAASEETGEPL 400
>gnl|CDD|216171 pfam00883, Peptidase_M17, Cytosol aminopeptidase family, catalytic
domain. The two associated zinc ions and the active
site are entirely enclosed within the C-terminal
catalytic domain in leucine aminopeptidase.
Length = 311
Score = 152 bits (386), Expect = 2e-44
Identities = 72/232 (31%), Positives = 111/232 (47%), Gaps = 14/232 (6%)
Query: 1 MAPPKVEEYILETFKNTPSIKINIIKDPKILDKEYPLFSAVNRAASVIDRHQGRVIFLEY 60
+ P + E + N +KI ++ + ++ + AVN+ + + R I L Y
Sbjct: 15 LTPAVLAEEAEKLASNYSDVKIEVLDEEELEELGMGGLLAVNKGSE----NPPRFIVLSY 70
Query: 61 EPTSSSPTSSLFLVGKGVTYDTGGADIKISGNMAGMARDKCGAAVVAGFMKAVAMLQPKV 120
+ S L LVGKG+T+D+GG IK M M D GAA V G +KA+A L+P V
Sbjct: 71 KGNKSEDKKKLALVGKGITFDSGGISIKPGAGMDLMKYDMGGAAAVLGAIKALAQLKPPV 130
Query: 121 RVVGALAVVRNSCGENSYVSDEVVVSRAGKRIRVTNTDAEGRFAMADVLAHMAEKAKDAV 180
VV LA+ N + +++ + GK + V NTDAEGR +AD L + E + +
Sbjct: 131 NVVAVLALTENMISGTAMRPGDIITAMNGKTVEVNNTDAEGRLVLADALTYACELNPEVI 190
Query: 181 NPHLFTIATLTGHACLT-VGEGYSIVMDNGPARQENNAVLLSETGEAMGDPF 231
+ATLTG AC+ +G Y+ + N + A L + E G+
Sbjct: 191 ----IDVATLTG-ACVVALGTTYTGIFSND----DELANELIKAAEESGEKV 233
>gnl|CDD|234863 PRK00913, PRK00913, multifunctional aminopeptidase A; Provisional.
Length = 483
Score = 134 bits (339), Expect = 4e-36
Identities = 73/211 (34%), Positives = 108/211 (51%), Gaps = 26/211 (12%)
Query: 29 KILDKE------YPLFSAVNRAASVIDRHQGRVIFLEYEPTSSSPTSSLFLVGKGVTYDT 82
++LD++ AV + ++ + R+I LEY+ + LVGKG+T+D+
Sbjct: 209 EVLDEKEMEKLGMGALLAVGQGSA----NPPRLIVLEYKG----GKKPIALVGKGLTFDS 260
Query: 83 GGADIKISGNMAGMARDKCGAAVVAGFMKAVAMLQPKVRVVGALAVVRNSCGENSYVSDE 142
GG +K + M M D GAA V G M+A+A L+ V VVG +A N N+Y +
Sbjct: 261 GGISLKPAAGMDEMKYDMGGAAAVLGTMRALAELKLPVNVVGVVAACENMPSGNAYRPGD 320
Query: 143 VVVSRAGKRIRVTNTDAEGRFAMADVLAHMAEKAKDAVNPHLFTIATLTGHACLT-VGEG 201
V+ S +GK I V NTDAEGR +AD L + AE+ K + +ATLTG AC+ +G
Sbjct: 321 VLTSMSGKTIEVLNTDAEGRLVLADALTY-AERFKPDA---IIDVATLTG-ACVVALGHH 375
Query: 202 YSIVMDNGPA-RQENNAVLLSETGEAMGDPF 231
+ +M N E L + GE G+
Sbjct: 376 TAGLMSNNDELADE-----LLKAGEESGERA 401
>gnl|CDD|240407 PTZ00412, PTZ00412, leucyl aminopeptidase; Provisional.
Length = 569
Score = 112 bits (281), Expect = 5e-28
Identities = 64/146 (43%), Positives = 85/146 (58%), Gaps = 6/146 (4%)
Query: 50 RHQGRVIFLEY--EPTSSSPTSSLFLVGKGVTYDTGGADIKISGNMAGMARDKCGAAVVA 107
RH+ ++ EY P SS+ T+ LVGKGVT+D GG +IK G+M M D GAA V
Sbjct: 274 RHEPYLVVFEYIGNPRSSAATA---LVGKGVTFDCGGLNIKPYGSMETMHSDMMGAATVM 330
Query: 108 GFMKAVAMLQPKVRVVGALAVVRNSCGENSYVSDEVVVSRAGKRIRVTNTDAEGRFAMAD 167
+KA+A LQ V VV A+ + N+ G SY ++ SR G + V NTDAEGR +AD
Sbjct: 331 CTLKAIAKLQLPVNVVAAVGLAENAIGPESYHPSSIITSRKGLTVEVLNTDAEGRLVLAD 390
Query: 168 VLAHMAEKAKDAVNP-HLFTIATLTG 192
L ++ + AK P + IATLTG
Sbjct: 391 TLTYVQKDAKLDKKPTTIIDIATLTG 416
>gnl|CDD|235330 PRK05015, PRK05015, aminopeptidase B; Provisional.
Length = 424
Score = 79.9 bits (198), Expect = 5e-17
Identities = 56/152 (36%), Positives = 75/152 (49%), Gaps = 17/152 (11%)
Query: 58 LEYEPT--SSSPTSSLFLVGKGVTYDTGGADIKISGNMAGMARDKCGAAVVAGFMKAVAM 115
L+Y PT +P + LVGKG+T+D+GG IK S M M D GAA V G + A+A+
Sbjct: 172 LDYNPTGDPDAPVYAC-LVGKGITFDSGGYSIKPSAGMDSMKSDMGGAATVTGAL-ALAI 229
Query: 116 LQP-KVRVVGALAVVRNSCGENSYVSDEVVVSRAGKRIRVTNTDAEGRFAMADVL-AHMA 173
+ RV L N N++ +++ R GK + V NTDAEGR +AD L
Sbjct: 230 TRGLNKRVKLFLCCAENLISGNAFKLGDIITYRNGKTVEVMNTDAEGRLVLADGLIDASE 289
Query: 174 EKAK---DAVNPHLFTIATLTGHACLTVGEGY 202
+ DA ATLTG A +G Y
Sbjct: 290 QGPPLIIDA--------ATLTGAAKTALGNDY 313
>gnl|CDD|227883 COG5596, TIM22, Mitochondrial import inner membrane translocase,
subunit TIM22 [Posttranslational modification, protein
turnover, chaperones].
Length = 191
Score = 34.1 bits (78), Expect = 0.039
Identities = 10/53 (18%), Positives = 15/53 (28%)
Query: 81 DTGGADIKISGNMAGMARDKCGAAVVAGFMKAVAMLQPKVRVVGALAVVRNSC 133
++ RD C +A FMKA + + L R
Sbjct: 10 QLSPPSPNAYNILSPEERDPCPLEKLADFMKAFSYSCIGKSALSGLKGFRLGG 62
>gnl|CDD|133446 cd01078, NAD_bind_H4MPT_DH, NADP binding domain of methylene
tetrahydromethanopterin dehydrogenase. Methylene
Tetrahydromethanopterin Dehydrogenase (H4MPT DH) NADP
binding domain. NADP-dependent H4MPT DH catalyzes the
dehydrogenation of methylene- H4MPT and
methylene-tetrahydrofolate (H4F) with NADP+ as cofactor.
H4F and H4MPT are both cofactors that carry the
one-carbon units between the formyl and methyl oxidation
level. H4F and H4MPT are structurally analogous to each
other with respect to the pterin moiety, but each has
distinct side chain. H4MPT is present only in anaerobic
methanogenic archaea and aerobic methylotrophic
proteobacteria. H4MPT seems to have evolved
independently from H4F and functions as a distinct
carrier in C1 metabolism. Amino acid DH-like
NAD(P)-binding domains are members of the Rossmann fold
superfamily and include glutamate, leucine, and
phenylalanine DHs, methylene tetrahydrofolate DH,
methylene-tetrahydromethanopterin DH,
methylene-tetrahydropholate DH/cyclohydrolase, Shikimate
DH-like proteins, malate oxidoreductases, and glutamyl
tRNA reductase. Amino acid DHs catalyze the deamination
of amino acids to keto acids with NAD(P)+ as a cofactor.
The NAD(P)-binding Rossmann fold superfamily includes a
wide variety of protein families including NAD(P)-
binding domains of alcohol DHs, tyrosine-dependent
oxidoreductases, glyceraldehyde-3-phosphate DH,
lactate/malate DHs, formate/glycerate DHs, siroheme
synthases, 6-phosphogluconate DH, amino acid DHs,
repressor rex, NAD-binding potassium channel domain,
CoA-binding, and ornithine cyclodeaminase-like domains.
These domains have an alpha-beta-alpha configuration.
NAD binding involves numerous hydrogen and van der Waals
contacts.
Length = 194
Score = 28.9 bits (65), Expect = 2.5
Identities = 22/79 (27%), Positives = 34/79 (43%), Gaps = 3/79 (3%)
Query: 102 GAAVVAGFMKAVAMLQPKVRVVGALAVVRNSCGENSYVSDEVVVSRAGKRIRVTNTDAEG 161
AA VA KA+ ++ ++ G AVV G + V+++R G R+ + D E
Sbjct: 8 AAAAVAAAGKALELMGKDLK--GKTAVVLGGTGPVGQRA-AVLLAREGARVVLVGRDLER 64
Query: 162 RFAMADVLAHMAEKAKDAV 180
AD L + AV
Sbjct: 65 AQKAADSLRARFGEGVGAV 83
>gnl|CDD|227355 COG5022, COG5022, Myosin heavy chain [Cytoskeleton].
Length = 1463
Score = 29.3 bits (66), Expect = 2.8
Identities = 10/39 (25%), Positives = 19/39 (48%)
Query: 167 DVLAHMAEKAKDAVNPHLFTIATLTGHACLTVGEGYSIV 205
D++ + K + + PH+F IA L+ E +I+
Sbjct: 118 DIIQSYSGKNRLELEPHVFAIAEEAYRNLLSEKENQTII 156
>gnl|CDD|227654 COG5351, COG5351, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 367
Score = 28.7 bits (64), Expect = 3.8
Identities = 14/59 (23%), Positives = 21/59 (35%), Gaps = 1/59 (1%)
Query: 192 GHACLTVGEG-YSIVMDNGPARQENNAVLLSETGEAMGDPFEISRIRREDFRFFKSKCE 249
G C+ +G + D G L GDP + + +R DF K C+
Sbjct: 22 GEDCVVSVKGTFDHPQDGGTMEIAREQESLQMEDAYEGDPGQSALLRESDFTPDKPGCD 80
>gnl|CDD|180132 PRK05564, PRK05564, DNA polymerase III subunit delta'; Validated.
Length = 313
Score = 28.1 bits (63), Expect = 6.1
Identities = 12/36 (33%), Positives = 21/36 (58%), Gaps = 1/36 (2%)
Query: 3 PPKVEEYIL-ETFKNTPSIKINIIKDPKILDKEYPL 37
P KVE++I ++ KN ++ + I+KD K + L
Sbjct: 184 PGKVEKFIEDDSLKNIRNMSLEILKDIKKSNINILL 219
>gnl|CDD|176915 cd08906, START_STARD3-like, Cholesterol-binding START domain of
mammalian STARD3 and related proteins. This subgroup
includes the steroidogenic acute regulatory protein
(StAR)-related lipid transfer (START) domains of STARD3
(also known as metastatic lymph node 64/MLN64) and
related proteins. It belongs to the START domain family,
and in turn to the SRPBCC
(START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain
superfamily of proteins that bind hydrophobic ligands.
SRPBCC domains have a deep hydrophobic ligand-binding
pocket. STARD3 has a high affinity for cholesterol. It
may function in trafficking endosomal cholesterol to a
cytosolic acceptor or membrane. In addition to having a
cytoplasmic START cholesterol-binding domain, STARD3
also contains an N-terminal MENTAL cholesterol-binding
and protein-protein interaction domain. The MENTAL
domain contains transmembrane helices and anchors MLN64
to endosome membranes. The gene encoding STARD3 is
overexpressed in about 25% of breast cancers.
Length = 209
Score = 27.5 bits (61), Expect = 6.9
Identities = 16/65 (24%), Positives = 28/65 (43%), Gaps = 16/65 (24%)
Query: 224 GEAMG--DPFEISRIRREDFRFFKSKCEGEDLIQSGMKSSGSNS-------RGHQGPGAF 274
G A G P + +RR + R + + +G+ ++ S+ RG GPG F
Sbjct: 104 GAAGGVVSPRDFVNVRRIERR-------RDRYVSAGISTTHSHKPPLSKYVRGENGPGGF 156
Query: 275 LIGAS 279
++ S
Sbjct: 157 VVLKS 161
>gnl|CDD|223611 COG0537, Hit, Diadenosine tetraphosphate (Ap4A) hydrolase and other
HIT family hydrolases [Nucleotide transport and
metabolism / Carbohydrate transport and metabolism /
General function prediction only].
Length = 138
Score = 27.0 bits (60), Expect = 7.4
Identities = 9/52 (17%), Positives = 20/52 (38%), Gaps = 1/52 (1%)
Query: 143 VVVSRAGKRIRVTNTDAEGRFAMADVLAHMAEKAKDAVNPHLFTIATLTGHA 194
+V+ + + + D E + + +A+ K+A + I G A
Sbjct: 39 LVIPKRHVS-DLEDLDPEELAELFLLAQKIAKALKEAFGADGYNIGINNGKA 89
>gnl|CDD|238731 cd01454, vWA_norD_type, norD type: Denitrifying bacteria contain
both membrane bound and periplasmic nitrate reductases.
Denitrification plays a major role in completing the
nitrogen cycle by converting nitrate or nitrite to
nitrogen gas. The pathway for microbial denitrification
has been established as NO3- ------> NO2- ------> NO
-------> N2O ---------> N2. This reaction generally
occurs under oxygen limiting conditions. Genetic and
biochemical studies have shown that the first srep of
the biochemical pathway is catalyzed by periplasmic
nitrate reductases. This family is widely present in
proteobacteria and firmicutes. This version of the
domain is also present in some archaeal members. The
function of the vWA domain in this sub-group is not
known. Members of this subgroup have a conserved MIDAS
motif.
Length = 174
Score = 26.9 bits (60), Expect = 8.7
Identities = 15/36 (41%), Positives = 17/36 (47%), Gaps = 5/36 (13%)
Query: 217 AVLLSETGEAMGDPFEIS-----RIRREDFRFFKSK 247
AVLL+E EA G P I RE R+ K K
Sbjct: 26 AVLLAEALEACGVPHAILGFTTDAGGRERVRWIKIK 61
>gnl|CDD|234390 TIGR03904, SAM_YgiQ, uncharacterized radical SAM protein YgiQ.
Members of this family are fairly widespread
uncharacterized radical SAM family proteins, many of
which are designated YgiQ [Unknown function, Enzymes of
unknown specificity].
Length = 559
Score = 27.4 bits (62), Expect = 8.9
Identities = 23/70 (32%), Positives = 28/70 (40%), Gaps = 27/70 (38%)
Query: 48 IDRHQGRVIFLEYEPTSSSPTSSL-----------FLVGKGVTYDTGGADIKISGNMAGM 96
I HQGR+I S S S L F KG D GG + NM GM
Sbjct: 313 ITFHQGRII------QSRSEESILREAKRLTKMPDF---KGYISDVGGP----TANMYGM 359
Query: 97 A---RDKCGA 103
+ ++K GA
Sbjct: 360 SCKKQEKHGA 369
>gnl|CDD|178213 PLN02603, PLN02603, asparaginyl-tRNA synthetase.
Length = 565
Score = 27.6 bits (61), Expect = 9.4
Identities = 10/24 (41%), Positives = 16/24 (66%)
Query: 109 FMKAVAMLQPKVRVVGALAVVRNS 132
F++ A L+P+ GA+A VRN+
Sbjct: 208 FLRTKAHLRPRTNTFGAVARVRNA 231
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
0.317 0.133 0.378
Gapped
Lambda K H
0.267 0.0766 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 14,400,638
Number of extensions: 1386697
Number of successful extensions: 1254
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1243
Number of HSP's successfully gapped: 27
Length of query: 282
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 186
Effective length of database: 6,679,618
Effective search space: 1242408948
Effective search space used: 1242408948
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 58 (26.0 bits)