RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4038
(371 letters)
>gnl|CDD|188996 cd06457, M3A_MIP, Peptidase M3 mitochondrial intermediate peptidase
(MIP). Peptidase M3 mitochondrial intermediate
peptidase (MIP; EC 3.4.24.59) belongs to the widespread
subfamily M3A, that show similarity to the Thimet
oligopeptidase (TOP). It is one of three peptidases
responsible for the proteolytic processing of both,
nuclear and mitochondrial encoded precursor polypeptides
targeted to the various subcompartments of the
mitochondria. It cleaves intermediate-size proteins
initially processed by mitochondrial processing
peptidase (MPP) to yield a processing intermediate with
a typical N-terminal octapeptide that is sequentially
cleaved by MIP to mature-size protein. MIP cleaves
precursor proteins of respiratory components, including
subunits of the electron transport chain and
tri-carboxylic acid cycle enzymes, and components of the
mitochondrial genetic machinery, including ribosomal
proteins, translation factors, and proteins required for
mitochondrial DNA metabolism. It has been suggested that
the human MIP (HMIP polypeptide; gene symbol MIPEP) may
be one of the loci predicted to influence the clinical
manifestations of Friedreich's ataxia (FRDA), an
autosomal recessive neurodegenerative disease caused by
lack of human frataxin. These proteins are enriched in
cysteine residues, two of which are highly conserved,
suggesting their importance to stability as well as in
formation of metal binding sites, thus playing a role in
MIP activity.
Length = 606
Score = 574 bits (1482), Expect = 0.0
Identities = 183/344 (53%), Positives = 227/344 (65%), Gaps = 4/344 (1%)
Query: 15 WDIAYVSNKAKRDKLKLTGIDFAPYFSLGTCMEGLNNLFNKIYGITLQHVEANNGELWSS 74
WD Y ++KA++ + +PYFSLGT MEGL+ LF+++YGI L V GE W
Sbjct: 263 WDRDYYTSKARQAACPSDSQELSPYFSLGTVMEGLSRLFSRLYGIRLVPVPTAPGETWHP 322
Query: 75 DVYKLAVTHEKEGLLGYIYCDFFERQKKPNQDCHFTIRGGRKLSNGSYQNPIVVLMLNLP 134
DV KLAV HE EGLLGYIYCD FER KP Q HFTIR R+L +GSYQ P+V L+ N P
Sbjct: 323 DVRKLAVVHETEGLLGYIYCDLFERPGKPPQAAHFTIRCSRRLDDGSYQLPVVALVCNFP 382
Query: 135 TPRWSSPCLLTPAMVDNLFHEMGHAMHSMLARTDYQHVTGTRCATDFAEVPSVLMEFFAS 194
P SSP LL+ V+ LFHEMGHAMHSML RT YQHV+GTRCATDF E+PS+LME+FA
Sbjct: 383 PPSGSSPTLLSHGEVETLFHEMGHAMHSMLGRTKYQHVSGTRCATDFVELPSILMEYFAW 442
Query: 195 DPRVIKSFAKHYIGGQPMPEEMLQSFCLSKKLFQASEMQAQVFYSALDLEYHSSEVT--- 251
DPRV+ FA+HY G+P+PE+++ C SK LF A E Q Q+ Y+ LD EYHS
Sbjct: 443 DPRVLSLFARHYSTGEPLPEKLVARLCASKFLFAALETQQQILYALLDQEYHSEHPLPPS 502
Query: 252 -NTFQQLKECQNTYYGIPYIEHTAWQHRFSHLVGYGAKYYSYLLSRAVASWIWQSYFEKD 310
++ + Q Y G+PY+ TAWQ RF HLVGYGA YYSYL RA+AS IWQ F D
Sbjct: 503 FSSTDIYHDLQRKYSGLPYVPGTAWQLRFGHLVGYGATYYSYLFDRAIASKIWQKLFAAD 562
Query: 311 PFSRDSGDAYRLNCLSHGGGKPASKLVSDFLQKDITAESLTNSL 354
P SR++G+ R L HGGGK +L++D L + E ++
Sbjct: 563 PLSREAGERLREEVLKHGGGKDPWELLADVLGEPPLPEGGAGAM 606
>gnl|CDD|189012 cd09605, M3A, Peptidase M3A family includes Thimet oligopeptidase,
dipeptidyl carboxypeptidase and mitochondrial
intermediate peptidase. The peptidase M3-like family,
also called neurolysin-like family, is part of the
"zincins" metallopeptidases, and includes M3, M2 and M32
families of metallopeptidases. The M3 family is
subdivided into two subfamilies: the widespread M3A,
which comprises a number of high-molecular mass endo-
and exopeptidases from bacteria, archaea, protozoa,
fungi, plants and animals, and the small M3B, whose
members are enzymes primarily from bacteria. Well-known
mammalian/eukaryotic M3A endopeptidases are the thimet
oligopeptidase (TOP; endopeptidase 3.4.24.15),
neurolysin (alias endopeptidase 3.4.24.16), and the
mitochondrial intermediate peptidase. The first two are
intracellular oligopeptidases, which act only on
relatively short substrates of less than 20 amino acid
residues, while the latter cleaves N-terminal
octapeptides from proteins during their import into the
mitochondria. The M3A subfamily also contains several
bacterial endopeptidases, collectively called
oligopeptidases A, as well as a large number of
bacterial carboxypeptidases, called dipeptidyl
peptidases (Dcp; Dcp II; peptidyl dipeptidase; EC
3.4.15.5). The peptidases in the M3 family contain the
HEXXH motif that forms the active site in conjunction
with a C-terminally-located Glutamic acid (Glu) residue.
A single zinc ion is ligated by the side-chains of the
two Histidine (His) residues, and the more C-terminal
Glu. Most of the peptidases are synthesized without
signal peptides or propeptides, and function
intracellularly. The structure of neurolysin shows
similarities to those of angiotensin-converting enzyme
(ACE; peptidyl-dipeptidase A) peptidase unit 2 belonging
to peptidase family M2. ACE is an enzyme responsible for
cleavage of dipeptides from the C-termini of proteins,
notably converting angiotensin I to angiotensin II in
mammals. There are similarities to the thermostable
carboxypeptidases from Pyrococcus furiosus
carboxypeptidase (PfuCP), and Thermus aquaticus (TaqCP),
belonging to peptidase family M32. Little is known about
function of this family, including carboxypeptidases Taq
and Pfu.
Length = 590
Score = 430 bits (1108), Expect = e-148
Identities = 129/343 (37%), Positives = 189/343 (55%), Gaps = 10/343 (2%)
Query: 15 WDIAYVSNKAKRDKLKLTGIDFAPYFSLGTCMEGLNNLFNKIYGITLQHVEANNGELWSS 74
WD AY S K + +K L + PYF L +EGL +L ++YGIT E + E+W
Sbjct: 247 WDWAYYSEKLREEKYDLDEEELRPYFPLERVLEGLFDLAERLYGITF--KEVPDLEVWHP 304
Query: 75 DVYKLAVTHEKEGLLGYIYCDFFERQ-KKPNQDCHFTIRGGRKLSNGSYQNPIVVLMLNL 133
DV V E GLLG Y D F R+ K+ HF + G R+ S+GS Q P+ L+ N
Sbjct: 305 DVRVYEVFDEDGGLLGLFYLDLFPREGKRGGAWMHFLVSGSRR-SDGSRQLPVAALVCNF 363
Query: 134 PTPRWSSPCLLTPAMVDNLFHEMGHAMHSMLARTDYQHVTGTRCATDFAEVPSVLMEFFA 193
P P LLT V+ LFHE GHA+H +L+RT Y ++GTR DF E+PS LME +A
Sbjct: 364 TKPTGGKPALLTHDEVETLFHEFGHALHGLLSRTKYPSLSGTRVERDFVELPSQLMENWA 423
Query: 194 SDPRVIKSFAKHYIGGQPMPEEMLQSFCLSKKLFQASEMQAQVFYSALDLEYHS----SE 249
DP V+K FA+HY G+P+P+E+++ ++ Q Q+ ++ LDL HS +
Sbjct: 424 WDPEVLKLFARHYETGEPLPDELVEKLIAARNFNQGLATLRQLAFALLDLALHSLDPPED 483
Query: 250 VTNTFQQLKECQNTYYGIPYIEHTAWQHRFSHLV--GYGAKYYSYLLSRAVASWIWQSYF 307
+ +L + +P + T +Q F HL GY A YYSYL + +A+ + ++F
Sbjct: 484 GDDVTFELAALREEGLPVPPVPGTYFQASFGHLFGGGYAAGYYSYLWAEVLAADAFSAFF 543
Query: 308 EKDPFSRDSGDAYRLNCLSHGGGKPASKLVSDFLQKDITAESL 350
E P +R++G+ +R LS GG K +L DFL ++ + E+L
Sbjct: 544 EAGPLNRETGERFRDEILSPGGSKDPMELFRDFLGREPSIEAL 586
>gnl|CDD|216500 pfam01432, Peptidase_M3, Peptidase family M3. This is the Thimet
oligopeptidase family, large family of mammalian and
bacterial oligopeptidases that cleave medium sized
peptides. The group also contains mitochondrial
intermediate peptidase which is encoded by nuclear DNA
but functions within the mitochondria to remove the
leader sequence.
Length = 450
Score = 301 bits (773), Expect = 2e-99
Identities = 121/351 (34%), Positives = 180/351 (51%), Gaps = 19/351 (5%)
Query: 15 WDIAYVSNKAKRDKL-KLTGIDFAPYFSLGTCME-GLNNLFNKIYGITLQHVEANNGELW 72
WD+AY S K + + L + PYF L +E GL LF +++GIT V GE+W
Sbjct: 108 WDVAYYSEKQREELYDPLDQEELRPYFPLEQVLEKGLFGLFERLFGITF--VLEPLGEVW 165
Query: 73 SSDVYKLAVTHE-KEGLLGYIYCDFFERQKKPNQDCHFTIRGGRKLSNGSYQNPIVVLML 131
DV +V E GL+G Y D + R+ K F + GRK +P+ L+
Sbjct: 166 HEDVRFYSVFDELSGGLIGEFYLDLYPRKGKRGGAYSFGLVPGRK-------DPVPYLLC 218
Query: 132 NLPTPRWSSPCLLTPAMVDNLFHEMGHAMHSMLARTDYQHVTGTRCATDFAEVPSVLMEF 191
N P P LLT V+ LFHE GH+MHS+L+RT+Y +V+GT DFAE+PS E
Sbjct: 219 NFTKPSSGKPSLLTHDDVETLFHEFGHSMHSLLSRTEYSYVSGTNVPIDFAEIPSQFNEN 278
Query: 192 FASDPRVIKSFAKHYIGGQPMPEEMLQSFCLSKKLFQASEMQAQVFYSALDLEYHSSEVT 251
+ +P ++ ++HY G+P+P E+L+ SK + + Q+ ++A D E H +
Sbjct: 279 WLWEPLLLNLLSRHYETGEPIPAELLEKLIKSKNVNAGLFLFRQLMFAAFDQEIHEAAEE 338
Query: 252 NTFQQ-----LKECQNTYYGIPYIEHTAWQHRFSHLV--GYGAKYYSYLLSRAVASWIWQ 304
+ E YYG P A FSH+ GY A YYSYL + +A I++
Sbjct: 339 DQKLDFLLEEYAELNKKYYGDPVTPDEASPLSFSHIFPHGYAANYYSYLYATGLALDIFE 398
Query: 305 SYFEKDPFSRDSGDAYRLNCLSHGGGKPASKLVSDFLQKDITAESLTNSLM 355
+FE+DP +R++G Y L LS GG +L+ F + +A++L +L
Sbjct: 399 KFFEQDPLNRETGLRYYLEFLSRGGSLDPLELLKKFGGRMPSADALLRALG 449
>gnl|CDD|223416 COG0339, Dcp, Zn-dependent oligopeptidases [Amino acid transport
and metabolism].
Length = 683
Score = 270 bits (693), Expect = 7e-85
Identities = 102/342 (29%), Positives = 163/342 (47%), Gaps = 8/342 (2%)
Query: 15 WDIAYVSNKAKRDKLKLTGIDFAPYFSLGTCMEGLNNLFNKIYGITLQHVEANNGELWSS 74
WD AY + K +++K + PYF L +EGL + +++GIT VE + +W
Sbjct: 336 WDWAYYAEKQRQEKYAFDEEELRPYFPLNKVLEGLFEVAKRLFGITF--VERKDIPVWHP 393
Query: 75 DVYKLAVTHEKEGLLGYIYCDFFERQKKPNQDCHFTIRGGRKLSNGSYQNPIVVLMLNLP 134
DV V E L+G Y D + R K R+L +G Q P++ L+ N
Sbjct: 394 DVRVFEVFDENGELIGLFYLDLYARDGKRGGAWMDDFVSQRRLDDGGGQKPVIYLVCNFT 453
Query: 135 TPRWSSPCLLTPAMVDNLFHEMGHAMHSMLARTDYQHVTGTRCATDFAEVPSVLMEFFAS 194
P P LL+ V LFHE GH +H +L R Y V+GT DF E+PS ME +
Sbjct: 454 KPVGGKPALLSHDEVTTLFHEFGHGLHHLLTRVKYPGVSGTNVPWDFVELPSQFMENWCW 513
Query: 195 DPRVIKSFAKHYIGGQPMPEEMLQSFCLSKKLFQASEMQAQVFYSALDLEYHSSEVTNTF 254
+P V+ +A+HY G+P+P+E+L +K Q+ ++ D+ H+ +
Sbjct: 514 EPEVLAKYARHYQTGEPLPKELLDKMLAAKNFQAGLFTLRQLEFALFDMRLHTEFDPDAN 573
Query: 255 QQ----LKECQNTYYGIPYIEHTAWQHRFSHLV--GYGAKYYSYLLSRAVASWIWQSYFE 308
E +P I H F H+ GY A YYSYL + +++ + ++ E
Sbjct: 574 ADILEFEAEVLKKVAVLPSIPPRRRPHSFGHIFAGGYSAGYYSYLWAEVLSADAFAAFEE 633
Query: 309 KDPFSRDSGDAYRLNCLSHGGGKPASKLVSDFLQKDITAESL 350
+ PF+R++G +R LS GG + +L F ++ + ++L
Sbjct: 634 EGPFNRETGQRFRDAILSRGGSRDPMELFKAFRGREPSIDAL 675
>gnl|CDD|188994 cd06455, M3A_TOP, Peptidase M3 Thimet oligopeptidase (TOP) also
includes neurolysin. Peptidase M3 Thimet oligopeptidase
(TOP; PZ-peptidase; endo-oligopeptidase A; endopeptidase
24.15; soluble metallo-endopeptidase; EC 3.4.24.15)
family also includes neurolysin (endopeptidase 24.16,
microsomal endopeptidase, mitochondrial oligopeptidase
M, neurotensin endopeptidase, soluble angiotensin
II-binding protein, thimet oligopeptidase II) which
hydrolyzes oligopeptides such as neurotensin, bradykinin
and dynorphin A. TOP and neurolysin are neuropeptidases
expressed abundantly in the testis, but also found in
the liver, lung and kidney. They are involved in the
metabolism of neuropeptides under 20 amino acid residues
long and cleave most bioactive peptides at the same
sites, but recognize different positions on some
naturally occurring and synthetic peptides; they cleave
at distinct sites on the 13-residue bioactive peptide
neurotensin, which modulates central dopaminergic and
cholinergic circuits. TOP has been shown to degrade
peptides released by the proteasome, limiting the extent
of antigen presentation by major histocompatibility
complex class I molecules, and has been associated with
amyloid protein precursor processing.
Length = 637
Score = 261 bits (669), Expect = 9e-82
Identities = 105/346 (30%), Positives = 171/346 (49%), Gaps = 12/346 (3%)
Query: 6 KNKKKGYILWDIAYVSNKAKRDKLKLTGIDFAPYFSLGTCMEGLNNLFNKIYGITLQHVE 65
WD+ Y N+ K ++ + YF L ++GL +++ +++G+ + V+
Sbjct: 287 PEAGDRIYAWDLRYYMNRVKEEQYSVDQEKIREYFPLEVVIQGLLDIYQELFGLKFEEVD 346
Query: 66 ANNGELWSSDVYKLAVTHEKEG-LLGYIYCDFFERQKKPNQDCHFTIRGGRKLSNGSYQN 124
+ +W DV +V G LGY Y D R+ K F ++ G +GS Q
Sbjct: 347 --DAPVWHEDVRLYSVWDADTGEFLGYFYLDLHPREGKYGHAACFGLQPGFLGEDGSRQL 404
Query: 125 PIVVLMLNLPTPRWSSPCLLTPAMVDNLFHEMGHAMHSMLARTDYQHVTGTRCATDFAEV 184
P+ L+ N P P P LL V+ FHE GH MH +L RT Y +GTR DF E
Sbjct: 405 PVAALVCNFPKPTADKPSLLKHDEVETFFHEFGHVMHHLLGRTKYARFSGTRVERDFVEA 464
Query: 185 PSVLMEFFASDPRVIKSFAKHYIGGQPMPEEMLQSFCLSKKLFQASEMQAQVFYSALDLE 244
PS ++E + +P V+K +KHY G+P+P+E+++ S+ + + Q+F++ DL
Sbjct: 465 PSQMLENWCWEPEVLKRLSKHYKTGEPIPDELIERLIASRHVNRGLFTLRQLFFALFDLA 524
Query: 245 YHSSE-----VTNTFQQLKECQNTYYGIPYIEHTAWQHRFSHLV-GYGAKYYSYLLSRAV 298
H+ + T + L + IP +E T + F HL GY A YY YL S
Sbjct: 525 IHTRDPAELDTTKLYNDL---REEISLIPAVEGTHFYASFGHLAGGYDAGYYGYLWSEVF 581
Query: 299 ASWIWQSYFEKDPFSRDSGDAYRLNCLSHGGGKPASKLVSDFLQKD 344
A+ ++ S+F+ P + + G YR L+ GG K A+ ++ +FL ++
Sbjct: 582 AADMFYSFFKDGPLNPEVGRRYRDTILAPGGSKDAADMLKNFLGRE 627
>gnl|CDD|188995 cd06456, M3A_DCP, Peptidase family M3 dipeptidyl carboxypeptidase
(DCP). Peptidase family M3 dipeptidyl carboxypeptidase
(DCP; Dcp II; peptidyl dipeptidase; EC 3.4.15.5). This
metal-binding M3A family also includes oligopeptidase A
(OpdA; EC 3.4.24.70) enzyme. DCP cleaves dipeptides off
the C-termini of various peptides and proteins, the
smallest substrate being N-blocked tripeptides and
unblocked tetrapeptides. DCP from E. coli is inhibited
by the anti-hypertensive drug captopril, an inhibitor of
the mammalian angiotensin converting enzyme (ACE, also
called peptidyl dipeptidase A). Oligopeptidase A (OpdA)
may play a specific role in the degradation of signal
peptides after they are released from precursor forms of
secreted proteins. It can also cleave N-acetyl-L-Ala.
Length = 654
Score = 223 bits (572), Expect = 3e-67
Identities = 108/354 (30%), Positives = 166/354 (46%), Gaps = 33/354 (9%)
Query: 15 WDIAYVSNKAKRDKLKLTGIDFAPYFSLGTCMEGLNNLFNKIYGITLQHVEANNGELWSS 74
WD AY S K +++K L + PYF L +EGL L N++YGIT + E + +W
Sbjct: 310 WDWAYYSEKLRKEKYDLDEEELRPYFPLDRVLEGLFALANRLYGITFK--ERTDLPVWHP 367
Query: 75 DV--YKLAVTHEKEG-LLGYIYCDFFERQKKPNQDCHFTIRGG--------RKLSNGSYQ 123
DV Y++ +K+G LG Y D + R K RGG + Q
Sbjct: 368 DVRVYEV---FDKDGKHLGLFYLDLYARPGK---------RGGAWMNSYRSQSRLLDGGQ 415
Query: 124 NPIVVLMLNLPTPRWSSPCLLTPAMVDNLFHEMGHAMHSMLARTDYQHVTGTRCATDFAE 183
P+ + N P P LLT V LFHE GHA+H +L+ DY ++GT DF E
Sbjct: 416 LPVAYNVCNFTKPAGGKPALLTHDEVTTLFHEFGHALHGLLSDVDYPSLSGTNVVWDFVE 475
Query: 184 VPSVLMEFFASDPRVIKSFAKHYIGGQPMPEEMLQSFCLSKKLFQASEMQAQVFYSALDL 243
+PS ME +A +P V+ +A+HY G+P+P+E++ ++ Q Q+ ++ LD+
Sbjct: 476 LPSQFMENWAWEPEVLALYARHYETGEPLPDELIDKLLAARNFNQGFATVRQLAFALLDM 535
Query: 244 EYHSSEVTNTFQQ----LKECQNTYYGIPYIEHTAWQHRFSHL--VGYGAKYYSYLLSRA 297
HS L+ + P I FSH+ GY A YYSY +
Sbjct: 536 ALHSLYDPEAGDVVAFELEALREEGLVPPPIPPRYRSTYFSHIFAGGYAAGYYSYKWAEV 595
Query: 298 VASWIWQSYFEKDP-FSRDSGDAYRLNCLSHGGGKPASKLVSDFLQKDITAESL 350
+ + + FE+ F+R++G +R LS GG + +L F ++ ++L
Sbjct: 596 LDADAF-EAFEEAGIFNRETGKRFRDEILSRGGSRDPMELFRAFRGREPDIDAL 648
>gnl|CDD|182832 PRK10911, PRK10911, oligopeptidase A; Provisional.
Length = 680
Score = 159 bits (403), Expect = 2e-43
Identities = 103/338 (30%), Positives = 159/338 (47%), Gaps = 19/338 (5%)
Query: 15 WDIAYVSNKAKRDKLKLTGIDFAPYFSLGTCMEGLNNLFNKIYGITLQHVEANNGELWSS 74
WDIAY S K K+ ++ PYF + GL + +IYGIT + E + ++W
Sbjct: 332 WDIAYYSEKQKQHLYSISDEQLRPYFPENKAVNGLFEVVKRIYGITAK--ERKDVDVWHP 389
Query: 75 DVYKLAVTHEKEGLLGYIYCDFFERQKKPN----QDCHFTIRGGRKLSNGSYQNPIVVLM 130
DV + E L G Y D + R+ K DC G + ++GS Q P+ L
Sbjct: 390 DVRFFELYDENNELRGSFYLDLYARENKRGGAWMDDC----VGQMRKADGSLQKPVAYLT 445
Query: 131 LNLPTPRWSSPCLLTPAMVDNLFHEMGHAMHSMLARTDYQHVTGTRCAT-DFAEVPSVLM 189
N P P L T V LFHE GH +H ML R + V+G D E+PS M
Sbjct: 446 CNFNRPVNGKPALFTHDEVITLFHEFGHGLHHMLTRIETAGVSGISGVPWDAVELPSQFM 505
Query: 190 EFFASDPRVIKSFAKHYIGGQPMPEEMLQSFCLSKKLFQAS-----EMQAQVFYSALDLE 244
E + +P + + HY G+P+P+E+L L+ K +QA+ +++ +F L E
Sbjct: 506 ENWCWEPEALAFISGHYETGEPLPKELLDKM-LAAKNYQAALFILRQLEFGLFDFRLHAE 564
Query: 245 YHSSEVTNTFQQLKECQNTYYGIPYIEHTAWQHRFSHLV--GYGAKYYSYLLSRAVASWI 302
+ + + L E + +P + H FSH+ GY A YYSYL + +A+
Sbjct: 565 FDPDQGAKILETLAEIKKQVAVVPSPSWGRFPHAFSHIFAGGYAAGYYSYLWADVLAADA 624
Query: 303 WQSYFEKDPFSRDSGDAYRLNCLSHGGGKPASKLVSDF 340
+ + E+ F+R++G ++ N LS GG + +L F
Sbjct: 625 FSRFEEEGIFNRETGQSFLDNILSRGGSEEPMELFKRF 662
>gnl|CDD|182353 PRK10280, PRK10280, dipeptidyl carboxypeptidase II; Provisional.
Length = 681
Score = 131 bits (330), Expect = 2e-33
Identities = 101/347 (29%), Positives = 157/347 (45%), Gaps = 39/347 (11%)
Query: 15 WDIAYVSNKAKRDKLKLTGIDFAPYFSLGTCM-EGLNNLFNKIYGITLQHVEANNGELWS 73
WD A+ + + +R+K L PYF L T + EG+ N+++GI VE + ++
Sbjct: 335 WDWAFYAEQVRREKYALDEAQLKPYFELNTVLNEGVFWTANQLFGIKF--VERFDIPVYH 392
Query: 74 SDVYKLAV-THEKEGLLGYIYCDFFERQKKPNQDCHFTIRGGRKLSN---GSYQN---PI 126
DV + H GL Y DFF R K GG + N S N P+
Sbjct: 393 PDVRVWEIFDHNGVGL-ALFYGDFFARDSK---------SGGAWMGNFVEQSTLNETRPV 442
Query: 127 VVLMLNLPTPRWSSPCLLTPAMVDNLFHEMGHAMHSMLARTDYQHVTGTRCATDFAEVPS 186
+ + N P P LL V LFHE GH +H + AR Y ++GT DF E PS
Sbjct: 443 IYNVCNYQKPAAGQPALLLWDDVITLFHEFGHTLHGLFARQRYATLSGTNTPRDFVEFPS 502
Query: 187 VLMEFFASDPRVIKSFAKHYIGGQPMPEEMLQSFCLSKKLFQAS------EMQAQVFYSA 240
+ E +AS P+V +A+HY G+ MP+E L +K+ AS +M + +
Sbjct: 503 QINEHWASHPQVFARYARHYQSGEAMPDE------LQEKMRNASLFNKGYDMSELLSAAL 556
Query: 241 LDLEYHSSEVTNTFQQLKECQNTYYGIPYIEHTAWQHR-----FSHLV--GYGAKYYSYL 293
LD+ +H E Q + + + ++ A R F+H+ GY A YY+YL
Sbjct: 557 LDMRWHCLEENEAMQDVDDFELRALVAENLDLPAVPPRYRSSYFAHIFGGGYAAGYYAYL 616
Query: 294 LSRAVASWIWQSYFEKDPFSRDSGDAYRLNCLSHGGGKPASKLVSDF 340
++ +A +Q + E+ +R++G +R LS G +L +
Sbjct: 617 WTQMLADDGYQWFVEQGGLTRENGQRFREAILSRGNSTDLERLYRQW 663
>gnl|CDD|188993 cd06258, M3_like, Peptidase M3-like family, a zincin
metallopeptidase, includes M3 and M32 families. The
peptidase M3-like family, also called neurolysin-like
family, is part of the "zincins" metallopeptidases, and
includes M3 and M32 families of metallopeptidases. The
M3 family is subdivided into two subfamilies: the
widespread M3A, which comprises a number of
high-molecular mass endo- and exopeptidases from
bacteria, archaea, protozoa, fungi, plants and animals,
and the small M3B, whose members are enzymes primarily
from bacteria. Well-known mammalian/eukaryotic M3A
endopeptidases are the thimet oligopeptidase (TOP;
endopeptidase 3.4.24.15), neurolysin (alias
endopeptidase 3.4.24.16), and the mitochondrial
intermediate peptidase. The first two are intracellular
oligopeptidases, which act only on relatively short
substrates of less than 20 amino acid residues, while
the latter cleaves N-terminal octapeptides from proteins
during their import into the mitochondria. The M3A
subfamily also contains several bacterial
endopeptidases, collectively called oligopeptidases A,
as well as a large number of bacterial
carboxypeptidases, called dipeptidyl peptidases (Dcp;
Dcp II; peptidyl dipeptidase; EC 3.4.15.5). The
peptidases in the M3 family contain the HEXXH motif that
forms the active site in conjunction with a
C-terminally-located Glutamic acid (Glu) residue. A
single zinc ion is ligated by the side-chains of the two
Histidine (His) residues, and the more C-terminal Glu.
Most of the peptidases are synthesized without signal
peptides or propeptides, and function intracellularly.
There are similarities to the thermostable
carboxypeptidases from Pyrococcus furiosus
carboxypeptidase (PfuCP), and Thermus aquaticus (TaqCP),
belonging to peptidase family M32. Little is known about
function of this family, including carboxypeptidases Taq
and Pfu.
Length = 400
Score = 85.5 bits (212), Expect = 2e-18
Identities = 42/269 (15%), Positives = 83/269 (30%), Gaps = 36/269 (13%)
Query: 89 LGYIYCDFFERQKK-PNQDCHFTIRGGRKLSNGSYQNPIVVLMLNLPTPRWSSPCLLTPA 147
G D R K P+ C G + ++
Sbjct: 153 GGRARLDLEPRPGKYPHAFCTDPDVPGD----------VRLVSNARGGMDD--------- 193
Query: 148 MVDNLFHEMGHAMHSMLARTDYQHVTGTRCATDFAEVPSVLMEFFASDPRVIKSFAKHYI 207
+ L HE GHA H + + E S+ E DP +K +
Sbjct: 194 -IGTLLHEFGHAQHFANIDQRLPFLLRAPTSLATTEAQSMFFERLTEDPEWLKRYLGVP- 251
Query: 208 GGQPMPEEMLQSFCLSKKLFQASEMQAQVFYSALDLEYHS---SEVTNT-FQQL-KECQN 262
G P++ +++ + L+ + A +++ + + E+ + +L +E
Sbjct: 252 KGNEDPDKTIRAHLRASALYLLRRILAVLYF---EKALYENPDQELLAELWWKLARELLG 308
Query: 263 TYYGIPYIEHTAWQHRFSHLVGYGAKYYSYLLSRAVASWIWQSYFEKDP---FSRDSGDA 319
P A H+ Y+ YLL+ +A+ + EK + ++G
Sbjct: 309 VRPEGPSPPPWA---AKIHIASSPVYYHGYLLAEMLAAQLRAHLKEKFGDLVDNPEAGAW 365
Query: 320 YRLNCLSHGGGKPASKLVSDFLQKDITAE 348
+ G +L+ + + AE
Sbjct: 366 LKEKLWRPGNSLDWEELLKSATGEPLNAE 394
>gnl|CDD|189013 cd09606, M3B_PepF_1, Peptidase family M3B Oligopeptidase F (PepF).
Peptidase family M3B Oligopeptidase F (PepF;
Pz-peptidase B; EC 3.4.24.-) is mostly bacterial and
includes oligoendopeptidase F from Lactococcus lactis.
This enzyme hydrolyzes peptides containing between 7 and
17 amino acids with fairly broad specificity. The PepF
gene is duplicated in L. lactis on the plasmid that
bears it, while a shortened second copy is found in
Bacillus subtilis. Most bacterial PepFs are cytoplasmic
endopeptidases; however, the PepF Bacillus
amyloliquefaciens oligopeptidase is a secreted protein
and may facilitate the process of sporulation.
Specifically, the yjbG gene encoding the homolog of the
PepF1 and PepF2 oligoendopeptidases of Lactococcus
lactis has been identified in Bacillus subtilis as an
inhibitor of sporulation initiation when over expressed
from a multicopy plasmid.
Length = 546
Score = 51.0 bits (123), Expect = 6e-07
Identities = 17/51 (33%), Positives = 23/51 (45%), Gaps = 9/51 (17%)
Query: 149 VDNLFHEMGHAMHSMLAR----TDYQHVTGTRCATDFAEVPSVLMEFFASD 195
VD L HE GHA L+R +Y+ T + AE+ S+ ME
Sbjct: 344 VDVLTHEAGHAFQVYLSRDLPLPEYRWPT-----MEAAEIHSMSMELLTWP 389
>gnl|CDD|224086 COG1164, COG1164, Oligoendopeptidase F [Amino acid transport and
metabolism].
Length = 598
Score = 46.2 bits (110), Expect = 2e-05
Identities = 41/228 (17%), Positives = 70/228 (30%), Gaps = 29/228 (12%)
Query: 145 TPAMVDNLFHEMGHAMHSMLARTDYQHVTGTRCATDFAEVPSVLMEF--------FASDP 196
T V L HE+GH++HS +R +Q + AE+ S E DP
Sbjct: 377 TLRDVFTLAHELGHSVHSYFSR-KHQPYLYADYSIFLAEIASTFNEMLLFDYLLERFKDP 435
Query: 197 RVIKSFAKHYIGGQP-MPEEMLQSFCLSKKLFQASEMQAQVFYSALDLEYHSSEVTNTFQ 255
+ + + G ++ + E ++ L+ Y
Sbjct: 436 EERLAILEEKLEGFFATLFRQTLFAEFEHRVHELIEEGEELTAEELNELYL--------- 486
Query: 256 QLKECQNTYYGIPYI---EHTAWQHRFSHLVGYGAKYYSYLLSRAVASWIWQSYFEKDPF 312
E Q YYG R H Y Y + A ++ D
Sbjct: 487 ---ELQKEYYGDAVKLDELSGLEWARIPHFYHSPFYVYQYATGQLAALALYAKILTNDA- 542
Query: 313 SRDSGDAYRLNCLSHGGGKPASKLVSDFLQKDITAESLTNSLMQELDK 360
++ + Y + L GG K +L+ D+T + E ++
Sbjct: 543 --EAFEKYYIAFLKSGGSKSPLELLKIAG-IDLTTPDPWEEALAEFER 587
>gnl|CDD|188997 cd06459, M3B_PepF, Peptidase family M3B Oligopeptidase F (PepF).
Peptidase family M3B Oligopeptidase F (PepF;
Pz-peptidase B; EC 3.4.24.-) is mostly bacterial and
includes oligoendopeptidase F from Lactococcus lactis.
This enzyme hydrolyzes peptides containing between 7 and
17 amino acids with fairly broad specificity. The PepF
gene is duplicated in L. lactis on the plasmid that
bears it, while a shortened second copy is found in
Bacillus subtilis. Most bacterial PepFs are cytoplasmic
endopeptidases; however, the PepF Bacillus
amyloliquefaciens oligopeptidase is a secreted protein
and may facilitate the process of sporulation.
Specifically, the yjbG gene encoding the homolog of the
PepF1 and PepF2 oligoendopeptidases of Lactococcus
lactis has been identified in Bacillus subtilis as an
inhibitor of sporulation initiation when over expressed
from a multicopy plasmid.
Length = 450
Score = 42.1 bits (99), Expect = 3e-04
Identities = 44/203 (21%), Positives = 69/203 (33%), Gaps = 19/203 (9%)
Query: 145 TPAMVDNLFHEMGHAMHSMLARTDYQHVTGTRCATDFAEVPSVLMEFFASDPRVIKS--- 201
T VD L HE+GHA H L+R YQ + AE+ S E D +
Sbjct: 242 TSRDVDVLAHELGHAFHVYLSR-HYQPPLDAWPPLELAEIASTFNELLTWDSLLKFFGSD 300
Query: 202 FAKHYIGGQPMPEEMLQSFCLSKKLFQASEMQAQVFYSALDLEYHSSEVTNTFQQLKECQ 261
Y+ + + L +F + + F +E + V+ + V + KE Q
Sbjct: 301 EEDKYMLAHKL--DTLVAFLVRQVAF--AEFERAVYAERDKGPALTKSVLRNIE--KEVQ 354
Query: 262 NTYYG---IPYIEHTAWQHRFSHLVGYGAKYYSYLLSRAVASWIWQSYFEKDP-FSRDSG 317
+ G Y + R H Y Y + A ++ E+ RD
Sbjct: 355 AEFDGADIKLYEGREGFWARQPHFYTDPFYVYDYTFGQVCAFQFYKRALEEGASALRD-- 412
Query: 318 DAYRLNCLSHGGGKPASKLVSDF 340
+ L GG +P +L
Sbjct: 413 ---YVELLRAGGSRPPLELAKSA 432
>gnl|CDD|189016 cd09609, M3B_PepF_4, Peptidase family M3B Oligopeptidase F (PepF).
Peptidase family M3B Oligopeptidase F (PepF;
Pz-peptidase B; EC 3.4.24.-) is mostly bacterial and
includes oligoendopeptidase F from Lactococcus lactis.
This enzyme hydrolyzes peptides containing between 7 and
17 amino acids with fairly broad specificity. The PepF
gene is duplicated in L. lactis on the plasmid that
bears it, while a shortened second copy is found in
Bacillus subtilis. Most bacterial PepFs are cytoplasmic
endopeptidases; however, the PepF Bacillus
amyloliquefaciens oligopeptidase is a secreted protein
and may facilitate the process of sporulation.
Specifically, the yjbG gene encoding the homolog of the
PepF1 and PepF2 oligoendopeptidases of Lactococcus
lactis has been identified in Bacillus subtilis as an
inhibitor of sporulation initiation when over expressed
from a multicopy plasmid.
Length = 586
Score = 39.5 bits (93), Expect = 0.003
Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 9/54 (16%)
Query: 152 LFHEMGHAMHSMLARTDYQHVTGTRCATDFAEVPS----VLMEFF----ASDPR 197
L HE+GHA H LA Q + T + F E PS +L+ + ++DPR
Sbjct: 379 LAHELGHAGHFYLA-NKNQSILNTEPSLYFVEAPSTMNELLLANYLLKKSTDPR 431
>gnl|CDD|233811 TIGR02289, M3_not_pepF, oligoendopeptidase, M3 family. This family
consists of probable oligoendopeptidases in the M3
family, related to lactococcal PepF and group B
streptococcal PepB (TIGR00181) but in a distinct clade
with considerable sequence differences. The likely
substrate is small peptides and not whole proteins, as
with PepF, but members are not characterized and the
activity profile may differ. Several bacteria have both
a member of this family and a member of the PepF family.
Length = 549
Score = 35.5 bits (82), Expect = 0.044
Identities = 17/53 (32%), Positives = 23/53 (43%), Gaps = 9/53 (16%)
Query: 145 TPAMVDNLFHEMGHAMHSMLARTD----YQHVTGTRCATDFAEVPSVLMEFFA 193
T +D L HE GHA H +R Y+ T + AE+ S+ ME
Sbjct: 334 TSGDIDVLTHEAGHAFHVYESRKFLIPEYRWPT-----YEAAELHSMSMELLT 381
>gnl|CDD|189015 cd09608, M3B_PepF_3, Peptidase family M3B Oligopeptidase F (PepF).
Peptidase family M3B Oligopeptidase F (PepF;
Pz-peptidase B; EC 3.4.24.-) is mostly bacterial and
includes oligoendopeptidase F from Lactococcus lactis.
This enzyme hydrolyzes peptides containing between 7 and
17 amino acids with fairly broad specificity. The PepF
gene is duplicated in L. lactis on the plasmid that
bears it, while a shortened second copy is found in
Bacillus subtilis. Most bacterial PepFs are cytoplasmic
endopeptidases; however, the PepF Bacillus
amyloliquefaciens oligopeptidase is a secreted protein
and may facilitate the process of sporulation.
Specifically, the yjbG gene encoding the homolog of the
PepF1 and PepF2 oligoendopeptidases of Lactococcus
lactis has been identified in Bacillus subtilis as an
inhibitor of sporulation initiation when over expressed
from a multicopy plasmid.
Length = 538
Score = 35.1 bits (82), Expect = 0.061
Identities = 10/20 (50%), Positives = 15/20 (75%), Gaps = 3/20 (15%)
Query: 150 DNLF---HEMGHAMHSMLAR 166
D++F HE+GH+MHS +R
Sbjct: 327 DSVFTLAHELGHSMHSYYSR 346
>gnl|CDD|232861 TIGR00181, pepF, oligoendopeptidase F. This family represents the
oligoendopeptidase F clade of the family of larger M3 or
thimet (for thiol-dependent metallopeptidase)
oligopeptidase family. Lactococcus lactis PepF
hydrolyzed peptides of 7 and 17 amino acids with fairly
broad specificity. The homolog of lactococcal PepF in
group B Streptococcus was named PepB (PMID:8757883),
with the name difference reflecting a difference in
species of origin rather activity; substrate profiles
were quite similar. Differences in substrate specificity
should be expected in other species. The gene is
duplicated in Lactococcus lactis on the plasmid that
bears it. A shortened second copy is found in Bacillus
subtilis [Protein fate, Degradation of proteins,
peptides, and glycopeptides].
Length = 591
Score = 32.7 bits (75), Expect = 0.30
Identities = 13/41 (31%), Positives = 20/41 (48%), Gaps = 5/41 (12%)
Query: 152 LFHEMGHAMHSMLARTD--YQHVTGTRCATDFAEVPSVLME 190
L HE+GH+MHS + Y + + +AE+ S E
Sbjct: 382 LAHELGHSMHSYFSSKHQPYPNSDYS---IFYAEIASTFNE 419
>gnl|CDD|189001 cd09594, GluZincin, Peptidase Gluzincin family (thermolysin-like
proteinases, TLPs) includes peptidases M1, M2, M3, M4,
M13, M32 and M36 (fungalysins). Gluzincin family
(thermolysin-like peptidases or TLPs) includes several
zinc-dependent metallopeptidases such as the M1, M2, M3,
M4, M13, M32, M36 peptidases (MEROPS classification),
and contain HEXXH and EXXXD motifs as part of their
active site. All peptidases in this family bind a single
catalytic zinc ion which is tetrahedrally co-ordinated
by three amino acid ligands and a water molecule that
forms the nucleophile on activation during catalysis. M1
family includes aminopeptidase N (APN) and leukotriene
A4 hydrolase (LTA4H). APN preferentially cleaves
neutral amino acids from the N-terminus of oligopeptides
and is present in a variety of human tissues and cell
types. LTA4H is a bifunctional enzyme, possessing an
aminopeptidase as well as an epoxide hydrolase activity
such that the two activities occupy different, but
overlapping sites. The peptidase M3 or neurolysin-like
family, includes M3, M2 and M32 metallopeptidases. The
M3 peptidases have two subfamilies: M3A, includes thimet
oligopeptidase (TOP; endopeptidase 3.4.24.15),
neurolysin (3.4.24.16), and the mitochondrial
intermediate peptidase; M3B contains oligopeptidase F.
M2 peptidase angiotensin converting enzyme (ACE, EC
3.4.15.1) catalyzes the conversion of decapeptide
angiotensin I to the potent vasopressor octapeptide
angiotensin II. ACE is a key part of the
renin-angiotensin system that regulates blood pressure,
thus ACE inhibitors are important for the treatment of
hypertension. M32 family includes two eukaryotic enzymes
from protozoa Trypanosoma cruzi, a causative agent of
Chagas' disease, and Leishmania major, a parasite that
causes leishmaniasis, making them attractive targets for
drug development. The M4 family includes secreted
protease thermolysin (EC 3.4.24.27), pseudolysin,
aureolysin, neutral protease as well as fungalysin and
bacillolysin (EC 3.4.24.28) that degrade extracellular
proteins and peptides for bacterial nutrition,
especially prior to sporulation. Thermolysin is widely
used as a nonspecific protease to obtain fragments for
peptide sequencing as well as in production of the
artificial sweetener aspartame. M13 family includes
neprilysin (EC 3.4.24.11) and endothelin-converting
enzyme I (ECE-1, EC 3.4.24.71), which fulfill a broad
range of physiological roles due to the greater
variation in the S2' subsite allowing substrate
specificity and are prime therapeutic targets for
selective inhibition. Peptidase M36 (fungamysin) family
includes endopeptidases from pathogenic fungi.
Fungalysin hydrolyzes extracellular matrix proteins such
as elastin and keratin. Aspergillus fumigatus causes the
pulmonary disease aspergillosis by invading the lungs of
immuno-compromised animals and secreting fungalysin that
possibly breaks down proteinaceous structural barriers.
Length = 125
Score = 30.9 bits (70), Expect = 0.40
Identities = 12/56 (21%), Positives = 19/56 (33%), Gaps = 2/56 (3%)
Query: 149 VDNLFHEMGHAMHSMLARTDYQHVTGTRCATDFAEVPSVLME-FFASDPRVIKSFA 203
+ HE+ H + L D + T + E PS E A + +F
Sbjct: 70 FGVVGHELTHGVTDQLVGNDPDLL-YTNGSGGLNEGPSDFFELLVAYAIGNLYAFM 124
>gnl|CDD|189017 cd09610, M3B_PepF_5, Peptidase family M3B Oligopeptidase F (PepF).
Peptidase family M3B Oligopeptidase F (PepF;
Pz-peptidase B; EC 3.4.24.-) is mostly bacterial and
includes oligoendopeptidase F from Lactococcus lactis.
This enzyme hydrolyzes peptides containing between 7 and
17 amino acids with fairly broad specificity. The PepF
gene is duplicated in L. lactis on the plasmid that
bears it, while a shortened second copy is found in
Bacillus subtilis. Most bacterial PepFs are cytoplasmic
endopeptidases; however, the PepF Bacillus
amyloliquefaciens oligopeptidase is a secreted protein
and may facilitate the process of sporulation.
Specifically, the yjbG gene encoding the homolog of the
PepF1 and PepF2 oligoendopeptidases of Lactococcus
lactis has been identified in Bacillus subtilis as an
inhibitor of sporulation initiation when over expressed
from a multicopy plasmid.
Length = 472
Score = 31.8 bits (73), Expect = 0.61
Identities = 8/15 (53%), Positives = 10/15 (66%)
Query: 152 LFHEMGHAMHSMLAR 166
L HE+GH +H LA
Sbjct: 273 LAHELGHGIHQYLAS 287
>gnl|CDD|184830 PRK14809, PRK14809, histidinol-phosphate aminotransferase;
Provisional.
Length = 357
Score = 31.3 bits (71), Expect = 0.76
Identities = 24/87 (27%), Positives = 40/87 (45%), Gaps = 7/87 (8%)
Query: 180 DFAEVPSVLMEFFASDP-RVIKSFAKHY------IGGQPMPEEMLQSFCLSKKLFQASEM 232
+FAE PS + D V+++F+K Y +G +PEE ++ F ASE+
Sbjct: 197 EFAERPSAVALVEERDDVAVLRTFSKAYGLAGLRLGYAVVPEEWADAYARVNTPFAASEL 256
Query: 233 QAQVFYSALDLEYHSSEVTNTFQQLKE 259
+ +ALD + H T + +E
Sbjct: 257 ACRAGLAALDDDEHVERTVETARWARE 283
>gnl|CDD|233812 TIGR02290, M3_fam_3, oligoendopeptidase, pepF/M3 family. The M3
family of metallopeptidases contains several distinct
clades. Oligoendopeptidase F as characterized in
Lactococcus, the functionally equivalent
oligoendopeptidase B of group B Streptococcus, and
closely related sequences are described by TIGR00181.
The present family is quite similar but forms a distinct
clade, and a number of species have one member of each.
A greater sequence difference separates members of
TIGR02289, probable oligoendopeptidases of the M3 family
that probably should not be designated PepF.
Length = 587
Score = 30.8 bits (70), Expect = 1.4
Identities = 17/42 (40%), Positives = 21/42 (50%), Gaps = 2/42 (4%)
Query: 149 VDNLFHEMGHAMHSMLARTDYQHVTGTRCATDFAEVPSVLME 190
V L HE+GHA HS LA+ Q + R AE S+ E
Sbjct: 376 VSTLAHELGHAYHSELAKD--QPLLNARYPMTLAETASIFAE 415
>gnl|CDD|213327 cd12119, ttLC_FACS_AlkK_like, Fatty acyl-CoA synthetases similar to
LC-FACS from Thermus thermophiles. This family includes
fatty acyl-CoA synthetases that can activate
medium-chain to long-chain fatty acids. They catalyze
the ATP-dependent acylation of fatty acids in a two-step
reaction. The carboxylate substrate first reacts with
ATP to form an acyl-adenylate intermediate, which then
reacts with CoA to produce an acyl-CoA ester. The fatty
acyl-CoA synthetases are responsible for fatty acid
degradation as well as physiological regulation of
cellular functions via the production of fatty acyl-CoA
esters. The fatty acyl-CoA synthetase from Thermus
thermophiles in this family was shown catalyzing the
long-chain fatty acid, myristoyl acid, while another
member in this family, the AlkK protein identified from
Pseudomonas oleovorans, targets medium chain fatty
acids. This family also includes uncharacterized FACS
proteins.
Length = 517
Score = 30.3 bits (69), Expect = 1.8
Identities = 9/45 (20%), Positives = 23/45 (51%), Gaps = 3/45 (6%)
Query: 179 TDFAEVPSV---LMEFFASDPRVIKSFAKHYIGGQPMPEEMLQSF 220
T A VP++ L+ + ++ + + S + +GG +P +++
Sbjct: 255 TVSAGVPTIWLGLLNYLEANGKDLSSLRRVVVGGSALPRSLIEKL 299
>gnl|CDD|114155 pfam05414, DUF1717, Viral domain of unknown function (DUF1717).
This domain is found in viral proteins of unknown
function.
Length = 103
Score = 27.8 bits (61), Expect = 3.3
Identities = 13/51 (25%), Positives = 23/51 (45%), Gaps = 3/51 (5%)
Query: 63 HVEANNGELWSSDVYKLAVTHEKEGLLGYIYCDFFERQKKPNQDCHFTIRG 113
H+ + + +D ++A H G G+++C ER K P I+G
Sbjct: 45 HITKGDSIIKLNDDIEMAAIHIGYGKNGHLFCINQERSKIPKDS---QIKG 92
>gnl|CDD|236435 PRK09261, PRK09261, phospho-2-dehydro-3-deoxyheptonate aldolase;
Validated.
Length = 349
Score = 29.4 bits (67), Expect = 3.4
Identities = 9/21 (42%), Positives = 12/21 (57%)
Query: 104 NQDCHFTIRGGRKLSNGSYQN 124
N DCH +RGG K N ++
Sbjct: 226 NPDCHVILRGGNKGPNYDAES 246
>gnl|CDD|176465 cd01362, Fumarase_classII, Class II fumarases. This subgroup
contains Escherichia coli fumarase C, human
mitochondrial fumarase, and related proteins. It is a
member of the Lyase class I family. Members of this
family for the most part catalyze similar
beta-elimination reactions in which a C-N or C-O bond is
cleaved with the release of fumarate as one of the
products. These proteins are active as tetramers. The
four active sites of the homotetrameric enzyme are each
formed by residues from three different subunits.
Fumarase catalyzes the reversible hydration/dehydration
of fumarate to L-malate during the Krebs cycle.
Length = 455
Score = 28.6 bits (65), Expect = 5.5
Identities = 9/19 (47%), Positives = 14/19 (73%)
Query: 207 IGGQPMPEEMLQSFCLSKK 225
IGG+ MP E++++ L KK
Sbjct: 31 IGGERMPRELIRALGLLKK 49
>gnl|CDD|181025 PRK07544, PRK07544, branched-chain amino acid aminotransferase;
Validated.
Length = 292
Score = 28.4 bits (64), Expect = 5.7
Identities = 25/90 (27%), Positives = 41/90 (45%), Gaps = 10/90 (11%)
Query: 225 KLFQASEMQAQVFYSA--LDLE--YHSSEVTNTFQQLKECQNTYYGIPYIEHTAWQHRFS 280
K+F+ E ++ SA LD E Y +E+ ++ Y+ AW R S
Sbjct: 48 KIFKLREHSERLRRSAELLDFEIPYSVAEIDAAKKETLAANGLTDA--YVRPVAW--RGS 103
Query: 281 HLVGYGAKYYSYLLSRAVASWIWQSYFEKD 310
++G A+ L A+A+W W SYF+ +
Sbjct: 104 EMMGVSAQQNKIHL--AIAAWEWPSYFDPE 131
>gnl|CDD|234781 PRK00489, hisG, ATP phosphoribosyltransferase; Reviewed.
Length = 287
Score = 28.1 bits (64), Expect = 7.2
Identities = 11/46 (23%), Positives = 19/46 (41%), Gaps = 4/46 (8%)
Query: 127 VVLMLNLPTPRWSSPCLLTPAM----VDNLFHEMGHAMHSMLARTD 168
LM+N P + + L P + V L E A+H+++
Sbjct: 216 KYLMMNAPKEKLDAVIALLPGLESPTVSPLGDEGWVAVHAVVPEDL 261
>gnl|CDD|234580 PRK00025, lpxB, lipid-A-disaccharide synthase; Reviewed.
Length = 380
Score = 28.2 bits (64), Expect = 7.8
Identities = 10/30 (33%), Positives = 16/30 (53%)
Query: 336 LVSDFLQKDITAESLTNSLMQELDKSSYEQ 365
LV + LQ++ T E L +L+ L + Q
Sbjct: 317 LVPELLQEEATPEKLARALLPLLADGARRQ 346
>gnl|CDD|99927 cd05495, Bromo_cbp_like, Bromodomain, cbp_like subfamily. Cbp (CREB
binding protein or CREBBP) is an acetyltransferase
acting on histone, which gives a specific tag for
transcriptional activation and also acetylates
non-histone proteins. CREBBP binds specifically to
phosphorylated CREB protein and augments the activity of
phosphorylated CREB to activate transcription of
cAMP-responsive genes. Bromodomains are 110 amino acid
long domains, that are found in many chromatin
associated proteins. Bromodomains can interact
specifically with acetylated lysine.
Length = 108
Score = 26.6 bits (59), Expect = 8.8
Identities = 18/43 (41%), Positives = 22/43 (51%), Gaps = 9/43 (20%)
Query: 95 DFFERQKKPNQDCHFTIRGGRKLSNGSYQNPI-----VVLMLN 132
D+F+ K P D TIR RKL G YQ+P V LM +
Sbjct: 38 DYFDIVKNP-MDLS-TIR--RKLDTGQYQDPWQYVDDVWLMFD 76
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
0.320 0.134 0.413
Gapped
Lambda K H
0.267 0.0803 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 18,664,113
Number of extensions: 1748038
Number of successful extensions: 1389
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1354
Number of HSP's successfully gapped: 32
Length of query: 371
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 273
Effective length of database: 6,590,910
Effective search space: 1799318430
Effective search space used: 1799318430
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: 60 (26.8 bits)