RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780915|ref|YP_003065328.1| oligoendopeptidase F
[Candidatus Liberibacter asiaticus str. psy62]
(626 letters)
>gnl|CDD|31358 COG1164, COG1164, Oligoendopeptidase F [Amino acid transport and
metabolism].
Length = 598
Score = 441 bits (1136), Expect = e-124
Identities = 204/605 (33%), Positives = 303/605 (50%), Gaps = 15/605 (2%)
Query: 27 MDSQENLGNLPRWNLEDLYPSHDSQEISNDMECIEHESLAFKTRWEGNLAHATNQKNCHS 86
+ ++ + W+L DLYP E E E L L +
Sbjct: 1 LKNRSEVPEKYTWDLSDLYP---------GDELWEAEFLEESKELLKALEFYELILSAED 51
Query: 87 LGAAIAEYERICELIGRIASYAMLSYNCNLSSPTIRKFYTDINAKLADFEKVLIFFALEI 146
L A+ EYE++ EL+GR+ +YA + + + + +K Y + ADF L FF E+
Sbjct: 52 LLEALEEYEKLEELLGRLYAYASMKLSTDTTDEEAQKLYQKLEEFYADFSSALSFFEPEL 111
Query: 147 NTLDEALLEQSYAQDPLTLKYSAWIKNIRKIKKHLLSNDMECLLSDTSQVGREALKRFFC 206
LDE +++ P Y +++ + + K H LS + E LL+ S VG A FF
Sbjct: 112 LELDEEVIQSLLTSGPELADYRFYLEELFRRKPHQLSAEEEKLLAQLSPVGNSASNIFFD 171
Query: 207 ENIESLRFKI----NDQKIPLTKAYKSFFDSDREVRKSAAKALSHTFNKSSHIFSFITNT 262
L F +K+ L + D DREVRK+A +AL + K + + + NT
Sbjct: 172 LTNSDLTFPDIGDAKGKKLTLEQLLNLLEDPDREVRKAAYEALYKAYEKHRNTLAALLNT 231
Query: 263 LAKDEEIQDRWRKYEKIADSRHLSNNVEPYVIEALMQSVKNYYPKTSHRYYELKKKWLKL 322
L K R R Y+ + DS L N V+ V++ L++SVK + HRYY+L+ K L L
Sbjct: 232 LVKVLAFLARARNYDDVIDSALLRNEVDREVVDNLIESVKEAFLPLLHRYYKLRAKVLGL 291
Query: 323 DTMYFWDRLAPLP-GTSQDIIPFEVARDLVLQSYAKFSPQMSIIAEKFFTHNWIDAPQYD 381
+ + +D APL +E A++LVL++ A P+ + IA + F WID
Sbjct: 292 EKLRPYDLYAPLLDKDPSPEYSYEEAKELVLKALAPLGPEYAKIARRAFDERWIDVYPRK 351
Query: 382 GKGSGAFAHGTIPSVHPYILLNYLGKPQDVMTLAHELGHGIHFVLSSETQGILTNNSSLT 441
GK SGA++ G HP+IL+NY G +DV TLAHELGH +H S + Q L + S+
Sbjct: 352 GKRSGAYSIGFYKGDHPFILMNYDGTLRDVFTLAHELGHSVHSYFSRKHQPYLYADYSIF 411
Query: 442 LAETASIFGETLTFDSLLQAASSKEERKILLANKIEDMLNSIVRQISFYDFELKLHTERR 501
LAE AS F E L FD LL+ EER +L K+E ++ RQ F +FE ++H
Sbjct: 412 LAEIASTFNEMLLFDYLLERFKDPEERLAILEEKLEGFFATLFRQTLFAEFEHRVHELIE 471
Query: 502 STGDIPTHRINEIWLETQKESLGPAFDLSDLEYGSFWMMVPHFIESSFYVYAYAFGNCLV 561
++ +NE++LE QKE G A L D G W +PHF S FYVY YA G
Sbjct: 472 EGEELTAEELNELYLELQKEYYGDAVKL-DELSGLEWARIPHFYHSPFYVYQYATGQLAA 530
Query: 562 NSLYDIYKSNTVDCFKEKYLNILRAGNSKHYSELLLPLNINLSDPNFWERGLQTVEKMID 621
+LY +N + F++ Y+ L++G SK ELL I+L+ P+ WE L E++ID
Sbjct: 531 LALYAKILTNDAEAFEKYYIAFLKSGGSKSPLELLKIAGIDLTTPDPWEEALAEFERLID 590
Query: 622 DVEKM 626
++E++
Sbjct: 591 ELEEL 595
>gnl|CDD|107215 cd06459, M3B_Oligoendopeptidase_F, 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 = 427
Score = 386 bits (994), Expect = e-108
Identities = 150/430 (34%), Positives = 226/430 (52%), Gaps = 6/430 (1%)
Query: 191 SDTSQVGREALKRFFCENIESLRFKI--NDQKIPLTKAYKSFF-DSDREVRKSAAKALSH 247
+ S+ G A ++ L+F + +++ L++ + DREVRK A +AL
Sbjct: 1 AKLSETGNSAWSEYYDLLNSDLKFIFEFDGEELTLSQNLSNLLESPDREVRKKAFEALYK 60
Query: 248 TFNKSSHIFSFITNTLAKDEEIQDRWRKYEKIADSRHLSNNVEPYVIEALMQSVKNYYPK 307
+ K + + I NTL K + R Y+ ++ +NN+ V + L+ VK P
Sbjct: 61 AYEKYENTLAAILNTLVKLRLTLAKLRGYDSYLEAALFNNNIPEDVYDFLIAVVKENVP- 119
Query: 308 TSHRYYELKKKWLKLDTMYFWDRLAPLPGTSQDIIPFEVARDLVLQSYAKFSPQMSIIAE 367
HRY +LKKK L LD + +D APL + +E A++LVL++ + P+ + A+
Sbjct: 120 LLHRYLKLKKKLLGLDKLRPYDLYAPLVSGNPPKYTYEEAKELVLEALSPLGPEYAEFAK 179
Query: 368 KFFTHNWIDAPQYDGKGSGAFAHGTIPSVHPYILLNYLGKPQDVMTLAHELGHGIHFVLS 427
+ F WID GK SGA+ G P HP+IL+N+ G DV TLAHELGH H LS
Sbjct: 180 RAFEERWIDVEPRKGKRSGAYCTGLPPGKHPFILMNFNGTLDDVFTLAHELGHAFHSYLS 239
Query: 428 SETQGILTNNSSLTLAETASIFGETLTFDSLLQAASSKEERKILLANKIEDMLNSIVRQI 487
+ Q L ++ + LAE AS F E L FD LL+ A EE+ LL + +ED+ ++ RQ
Sbjct: 240 RDNQPYLYSDYPIFLAEIASTFNELLLFDYLLKFAKDPEEKLYLLEHLLEDIRATLPRQT 299
Query: 488 SFYDFELKLHTERRSTGDIPTHRINEIWLETQKESLGPAFDLSDLEYGSFWMMVPHFIES 547
F +FE +++ + +NEI+ E +K+ G ++ D E+G W +PHF
Sbjct: 300 MFAEFEHEVYENPEEGEPLTAEELNEIYRELEKKYGGDLVEI-DEEHGYEWARIPHFYYV 358
Query: 548 SFYVYAYAFGNCLVNSLYDIYKSNTVDCFKEKYLNILRAGNSKHYSELLLPLNINLSDPN 607
FYVY YAFG +LY YK + EKYL +L+AG SK ELL ++L+ P+
Sbjct: 359 PFYVYPYAFGQLAALALYAKYKEDGEG-AVEKYLELLKAGGSKSPLELLKKAGVDLTSPD 417
Query: 608 FWERGLQTVE 617
FWE + +E
Sbjct: 418 FWEEAIDVIE 427
>gnl|CDD|144870 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 = 448
Score = 136 bits (344), Expect = 2e-32
Identities = 97/434 (22%), Positives = 155/434 (35%), Gaps = 78/434 (17%)
Query: 232 DSDREVRKSAAKALSHTFNKSSHIFSFITNTLAKDEEIQDRWRKYEKIADSRHLSNNVEP 291
DRE RK A +A + + S + L K + Y A++ L + +
Sbjct: 5 SPDRETRKKAYRAFYSRAEANRNENSALLEELLKLRAELAKLLGYPSYAEAS-LEDKMAK 63
Query: 292 Y---VIEALMQSVKNYYPKTSHRYYEL----KKKWLKLDTMYFWDRLAPLPGTSQDII-- 342
V + L + V P HR EL KKK L L+ + WD +++
Sbjct: 64 IPETVYDFLEELVNKLRPLL-HRELELLKKLKKKELGLEELQPWDVAYYSEKQREELYDP 122
Query: 343 ----------PFEVARDLVLQSYAKFSPQMSIIAEK---------------------FFT 371
P E + L + ++ + E
Sbjct: 123 LDQEELRPYFPLEQVLEKGLFGLFERLFGITFVLEPLGEVWHEDVRFYSVFDELSGGLIG 182
Query: 372 HNWIDAPQYDGKGSGAFAHGTIPS---VHPYILLNY---------LGKPQDVMTLAHELG 419
++D GK GA++ G +P PY+L N+ L DV TL HE G
Sbjct: 183 EFYLDLYPRKGKRGGAYSFGLVPGRLDPVPYLLCNFTKPSSGKPSLLTHDDVETLFHEFG 242
Query: 420 HGIHFVLSSETQGILTN-NSSLTLAETASIFGETLTFDSLLQAASSK--EERKILLANKI 476
H +H +LS ++ N + AE S F E ++ LL S+ E + + A +
Sbjct: 243 HSMHSLLSRTEYSYVSGTNVPIDFAEIPSQFNENWLWEPLLLNLLSRHYETGEPIPAELL 302
Query: 477 EDMLNS--------IVRQISFYDFELKLHTERRSTGDIPTHRINEIWLETQKESLGPAFD 528
E ++ S + RQ+ F F+ ++H + + E + E K+ G
Sbjct: 303 EKLIKSKNVNAGLFLFRQLMFAAFDQEIHEAAEEDQKLDF--LLEEYAELNKKYYGDPVT 360
Query: 529 LSDLEYGSFWMMVPHFIESSFYVYAYAFGNCLVNSLYDIYKS------NTVDCFKEKYLN 582
+ SF + PH +++Y Y YA G L DI++ + YL
Sbjct: 361 PDEASPLSFSHIFPHGYAANYYSYLYATGLAL-----DIFEKFFEQDPLNRETGLRYYLE 415
Query: 583 ILRAGNSKHYSELL 596
L G S ELL
Sbjct: 416 FLSRGGSLDPLELL 429
>gnl|CDD|107211 cd06258, Peptidase_M3_like, 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 = 365
Score = 67.8 bits (166), Expect = 8e-12
Identities = 61/263 (23%), Positives = 90/263 (34%), Gaps = 43/263 (16%)
Query: 365 IAEKFFTHNWIDAPQYDGKGSGAFAHGTIPSVH-----PYILLNY---------LGKPQD 410
A FF +D GK F G P + IL N+ L D
Sbjct: 98 GALPFFY---LDLYDRKGKYPHGFCTGLDPGFNRQDKDVRILANFTSPAAPDPVLLGHDD 154
Query: 411 VMTLAHELGHGIHFVLS-SETQGILTNNSSLTLAETASIFGETLTFD-SLLQAASSKEER 468
+ TL HE GH +HF+L +S AE S+F E+ D L+ + +
Sbjct: 155 INTLFHEFGHAVHFLLIQQRYPFQERTPTSTDFAEAQSMFLESFATDPEWLERYARHYQG 214
Query: 469 KILLANKIEDMLNSIV--------RQISFYDFELKLHTERRSTGDIPTHRINEIWLETQK 520
++ IE ++ + + R + FE L+ + ++W + K
Sbjct: 215 GVVPDELIEKLIAARLPNTLYETRRILVVAKFEKALYEN-----PDRELELQKLWRDLVK 269
Query: 521 ESLGPAFDLSDLEYGSFWMMVPHFI-ESSFYVYAYAFGNCLVNSLYDIYKSNTVDCF--- 576
E LG D PH S Y Y Y L + L +K
Sbjct: 270 EILGVRPD----PSTPDPAAFPHLAGGSPAYYYGYLLAEMLASQLRATFKKKVGYLTDNP 325
Query: 577 --KEKYLN-ILRAGNSKHYSELL 596
+ ILR GNS+ + ELL
Sbjct: 326 EAGPRLREHILRPGNSEPWKELL 348
>gnl|CDD|30687 COG0339, Dcp, Zn-dependent oligopeptidases [Amino acid transport
and metabolism].
Length = 683
Score = 47.9 bits (114), Expect = 8e-06
Identities = 61/259 (23%), Positives = 95/259 (36%), Gaps = 58/259 (22%)
Query: 381 DGKGSGAF------------AHGTIPSVHPYILLNYL----GKP-----QDVMTLAHELG 419
DGK GA+ G P + Y++ N+ GKP +V TL HE G
Sbjct: 419 DGKRGGAWMDDFVSQRRLDDGGGQKPVI--YLVCNFTKPVGGKPALLSHDEVTTLFHEFG 476
Query: 420 HGIHFVLSS-ETQGILTNNSSLTLAETASIFGETLTFD--SLLQAASSKEERKILLANKI 476
HG+H +L+ + G+ N E S F E ++ L + A + + L +
Sbjct: 477 HGLHHLLTRVKYPGVSGTNVPWDFVELPSQFMENWCWEPEVLAKYARHYQTGEPLPKELL 536
Query: 477 EDMLNS--------IVRQISFYDFELKLHTERRSTGDIPTHRINEIWLETQKESLGPAFD 528
+ ML + +RQ+ F F+++LHTE N LE + E L
Sbjct: 537 DKMLAAKNFQAGLFTLRQLEFALFDMRLHTEFDPDA-------NADILEFEAEVLKKVAV 589
Query: 529 LSDLEYGSFWMMVPHF--IESSFYV---YAYAFGNCLVNSLY------DIYKSNTVDCFK 577
L + F I + Y Y+Y + L + + T F+
Sbjct: 590 LPSIPPRRR---PHSFGHIFAGGYSAGYYSYLWAEVLSADAFAAFEEEGPFNRETGQRFR 646
Query: 578 EKYLNILRAGNSKHYSELL 596
+ IL G S+ EL
Sbjct: 647 D---AILSRGGSRDPMELF 662
>gnl|CDD|107214 cd06457, M3A_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 = 458
Score = 39.2 bits (92), Expect = 0.004
Identities = 43/225 (19%), Positives = 73/225 (32%), Gaps = 65/225 (28%)
Query: 408 PQDVMTLAHELGHGIHFVLSS-ETQGILTNNSSLTLAETASIF----------------- 449
P +V TL HE+GH +H +L E Q + + E SI
Sbjct: 246 PHEVETLFHEMGHAMHSMLGRTEYQHVSGTRCATDFVEVPSILMEYFASDPRVLKLFARH 305
Query: 450 ---GETLTFDSLLQAASSKEERKILLANKIEDMLNSIVRQISFYDFELKLHTERRSTGDI 506
GE L + L A + + IV + D +LH E +
Sbjct: 306 YSTGEPLPEEML---ARLLASKNSF---AALETQQQIV--YALLD--QELHGE-QPLSPT 354
Query: 507 PTHRINEIWLETQKESLGPAFDLSDLEYG--------SFWMMVPH-FIESSFYVYAYAFG 557
T + D +++ YG ++ + H + Y Y+Y F
Sbjct: 355 FTSDVL--------------RDSTEIFYGLPYVPGGTAWQLRFGHLVGYGATY-YSYLFD 399
Query: 558 NCLVNSLY------DIYKSNTVDCFKEKYLNILRAGNSKHYSELL 596
+ + ++ D + +E+ +L+ G K ELL
Sbjct: 400 RAIASKIWQKLFAADPLSREAGERLREE---LLKHGGGKDPWELL 441
>gnl|CDD|37300 KOG2089, KOG2089, KOG2089, Metalloendopeptidase family -
saccharolysin & thimet oligopeptidase [Posttranslational
modification, protein turnover, chaperones].
Length = 718
Score = 34.9 bits (80), Expect = 0.067
Identities = 24/101 (23%), Positives = 42/101 (41%), Gaps = 12/101 (11%)
Query: 410 DVMTLAHELGHGIHFVLSSETQGIL--TNNSSLTLAETASIFGETLTF--DSLLQAASSK 465
+V TL HE GH + +L+ N E S F E + D+L +
Sbjct: 495 EVETLFHEFGHVLQHLLTQADFARFSGPRNVEWDAVEVPSQFLENWVWDPDTLRSLSKHY 554
Query: 466 EERKILLANKIEDMLNSI--------VRQISFYDFELKLHT 498
+ + L ++ ++ + +RQ+ DF+L+LHT
Sbjct: 555 KTGEPLPEELLKKLILTRTVNAGLFTLRQLVLADFDLELHT 595
>gnl|CDD|107213 cd06456, M3A_DCP_Oligopeptidase_A, 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 = 422
Score = 34.8 bits (81), Expect = 0.073
Identities = 20/66 (30%), Positives = 28/66 (42%), Gaps = 21/66 (31%)
Query: 381 DGKGSGA----------FAHGTIPSVHPYILLNYL----GKPQ-----DVMTLAHELGHG 421
+GK GA G P Y++ N+ GKP +V TL HE GH
Sbjct: 162 EGKRGGAWMNNLRSQSKNGLGQKPVA--YLVCNFTKPAGGKPALLTHDEVTTLFHEFGHA 219
Query: 422 IHFVLS 427
+H +L+
Sbjct: 220 LHHLLT 225
>gnl|CDD|107212 cd06455, M3A_TOP, 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 = 472
Score = 33.7 bits (78), Expect = 0.14
Identities = 49/229 (21%), Positives = 84/229 (36%), Gaps = 72/229 (31%)
Query: 407 KPQDVMTLAHELGHGIHFVLSSETQGILTNNSSLTLAETASIFGETLTFDSLLQAAS--- 463
+ +V T HE GH IH +L + A G + D ++A S
Sbjct: 260 RHDEVETFFHEFGHVIH--------HLLGR------TKYARFSGTRVERD-FVEAPSQML 304
Query: 464 -----SKEERKILLAN-----KI-EDMLNSIV------------RQISFYDFELKLHTER 500
E K L + KI ++++ ++ RQ+ F F+L LHT
Sbjct: 305 ENWCWEPEVLKRLSKHYKTGEKIPDELIERLIASRHFNRGLFYLRQLFFALFDLALHT-G 363
Query: 501 RSTGDIPTHRINEIWLETQKESLGPAFDLSDLEYGSFWMMVPHFI---ESSFYVYAYAFG 557
T N++ ++ SL P+ + + SF H ++ +Y Y +
Sbjct: 364 DPADLDTTKLYNDL---REEISLIPSTEGTH-GPASF----GHLAGGYDAGYYGYLW--- 412
Query: 558 NCLVNSLYDIYKSNTVDCFKEKYLN----------ILRAGNSKHYSELL 596
V + D++ S FK+ LN +L G SK +++L
Sbjct: 413 -SEVFAA-DMFSS----FFKDGLLNPEVGLRYRDTVLAPGGSKDAADML 455
>gnl|CDD|37869 KOG2658, KOG2658, KOG2658, NADH:ubiquinone oxidoreductase,
NDUFV1/51kDa subunit [Energy production and conversion].
Length = 478
Score = 31.8 bits (72), Expect = 0.61
Identities = 15/42 (35%), Positives = 22/42 (52%)
Query: 452 TLTFDSLLQAASSKEERKILLANKIEDMLNSIVRQISFYDFE 493
+ FDSL A S +++ NK D++ +I R I FY E
Sbjct: 351 LMDFDSLKAAQSGLGTGAVIVMNKSTDIVKAIARLIKFYKHE 392
>gnl|CDD|33254 COG3451, VirB4, Type IV secretory pathway, VirB4 components
[Intracellular trafficking and secretion].
Length = 796
Score = 30.3 bits (68), Expect = 1.4
Identities = 20/76 (26%), Positives = 33/76 (43%), Gaps = 14/76 (18%)
Query: 433 ILTNNSSLTLAETASIFGETLTFDSLLQAASSKEERKILLANKIEDMLNSIVRQISFYDF 492
ILT + SL T + G ++F++L EE N+ N+++R ++ +F
Sbjct: 32 ILTKDGSLL--GTLKLEG--ISFETL-----DDEEL-----NERHAERNNLLRNLASGNF 77
Query: 493 ELKLHTERRSTGDIPT 508
H RR D P
Sbjct: 78 AFYFHAVRRKVIDYPE 93
>gnl|CDD|146482 pfam03872, RseA_N, Anti sigma-E protein RseA, N-terminal domain.
Sigma-E is important for the induction of proteins
involved in heat shock response. RseA binds sigma-E via
its N-terminal domain, sequestering sigma-E and
preventing transcription from heat-shock promoters. The
C-terminal domain is located in the periplasm, and may
interact with other protein that signal periplasmic
stress.
Length = 88
Score = 30.1 bits (68), Expect = 1.8
Identities = 11/33 (33%), Positives = 15/33 (45%)
Query: 252 SSHIFSFITNTLAKDEEIQDRWRKYEKIADSRH 284
S + N L +DEE+Q W +Y I D
Sbjct: 15 SDDEARRLLNALDQDEELQQTWARYHLIGDVLR 47
>gnl|CDD|37035 KOG1824, KOG1824, KOG1824, TATA-binding protein-interacting protein
[General function prediction only].
Length = 1233
Score = 29.9 bits (67), Expect = 2.1
Identities = 29/107 (27%), Positives = 34/107 (31%), Gaps = 32/107 (29%)
Query: 181 LLSNDMECLLSDTSQVGREALKRFFCENIESL-----------------------RFKIN 217
LL EC T V E L + ESL +F I+
Sbjct: 936 LLFKHCECAEEGTRNVVAECLGKLVLIEPESLLPKLKLLLRSEASNTRSSVVSAVKFSIS 995
Query: 218 DQKIPL--------TKAYKSFFDSDREVRKSAAKAL-SHTFNKSSHI 255
DQ P+ K D D EVR+ A L S NK S I
Sbjct: 996 DQPQPIDPLLKQQIGDFLKLLRDPDLEVRRVALVVLNSAAHNKPSLI 1042
>gnl|CDD|37301 KOG2090, KOG2090, KOG2090, Metalloendopeptidase family -
mitochondrial intermediate peptidase [Posttranslational
modification, protein turnover, chaperones].
Length = 704
Score = 29.5 bits (66), Expect = 3.0
Identities = 15/45 (33%), Positives = 21/45 (46%), Gaps = 1/45 (2%)
Query: 408 PQDVMTLAHELGHGIHFVLS-SETQGILTNNSSLTLAETASIFGE 451
+V TL HE+GH +H +L + Q + AE SI E
Sbjct: 477 LSEVETLFHEMGHAMHSMLGRTHYQHVTGTRCPTDFAEIPSILME 521
>gnl|CDD|36238 KOG1020, KOG1020, KOG1020, Sister chromatid cohesion protein
SCC2/Nipped-B [Chromatin structure and dynamics, Cell
cycle control, cell division, chromosome partitioning,
Replication, recombination and repair].
Length = 1692
Score = 29.2 bits (65), Expect = 3.5
Identities = 16/50 (32%), Positives = 19/50 (38%), Gaps = 6/50 (12%)
Query: 188 CLLSDTS--QVGREALKRFFCENIESLRFKINDQKIPLTKAYKSFFDSDR 235
LL+DT V A FF N SL+ K L S +D R
Sbjct: 450 DLLTDTDVHAVSSIAKTPFFVNNSSSLQIS----KAILVSTIFSRYDKQR 495
>gnl|CDD|144683 pfam01180, DHO_dh, Dihydroorotate dehydrogenase.
Length = 290
Score = 28.8 bits (65), Expect = 3.9
Identities = 17/78 (21%), Positives = 30/78 (38%), Gaps = 13/78 (16%)
Query: 88 GAAIAEYERICELIGRIASYAMLSYNCNLSSPTI---RKFYTD------INAKLADFEKV 138
G+ + +Y + IG A Y L N+S P R TD + + + KV
Sbjct: 102 GSTVEDYVEVARKIGPFADYLEL----NVSCPNTPGLRALQTDPELAAILLKVVKEVSKV 157
Query: 139 LIFFALEINTLDEALLEQ 156
+ L + D +++
Sbjct: 158 PVLVKLAPDLTDIVIIDI 175
>gnl|CDD|40019 KOG4822, KOG4822, KOG4822, Predicted nuclear membrane protein
involved in mRNA transport and sex determination via
splicing modulation [RNA processing and modification,
Signal transduction mechanisms].
Length = 1906
Score = 28.9 bits (64), Expect = 4.6
Identities = 16/53 (30%), Positives = 21/53 (39%), Gaps = 15/53 (28%)
Query: 81 QKNCH---SLGAAIAEYERICELIGRIA------------SYAMLSYNCNLSS 118
QK CH SL I RI E+I R S+ ++N N+ S
Sbjct: 353 QKPCHEIASLAIYILRRLRIYEVISRYEFAVLSALEGLSNSHGAATHNLNMLS 405
>gnl|CDD|32684 COG2856, COG2856, Predicted Zn peptidase [Amino acid transport and
metabolism].
Length = 213
Score = 28.1 bits (62), Expect = 6.9
Identities = 15/57 (26%), Positives = 22/57 (38%), Gaps = 4/57 (7%)
Query: 387 AFAHGTIPSVHPYILLN-YLGKPQDVMTLAHELGHGIHFVLSSETQGILTNNSSLTL 442
A+G P I +N + TLAHELG H +L ++ +L
Sbjct: 48 IDAYGLYDEEKPVIYINANNSLERKRFTLAHELG---HALLHTDLNTRFDAEPTLQQ 101
>gnl|CDD|37683 KOG2472, KOG2472, KOG2472, Phenylalanyl-tRNA synthetase beta
subunit [Translation, ribosomal structure and
biogenesis].
Length = 578
Score = 28.0 bits (62), Expect = 8.5
Identities = 17/67 (25%), Positives = 29/67 (43%), Gaps = 4/67 (5%)
Query: 463 SSKEERKILLANKIEDM-LNSIVRQISFYDFELKLHT---ERRSTGDIPTHRINEIWLET 518
+ + R + I ++ L+ SF D + KLH R+ I TH ++ I
Sbjct: 114 ETSQIRPFAVCAVIRNVSLDPPDSYKSFIDLQDKLHQNICRNRTLVAIGTHDLDTIQGPF 173
Query: 519 QKESLGP 525
+ E+L P
Sbjct: 174 EYEALPP 180
>gnl|CDD|32799 COG2980, RlpB, Rare lipoprotein B [Cell envelope biogenesis, outer
membrane].
Length = 178
Score = 28.0 bits (62), Expect = 9.1
Identities = 14/66 (21%), Positives = 28/66 (42%), Gaps = 5/66 (7%)
Query: 429 ETQGILTNNSSLTLAETASIFGETLT-----FDSLLQAASSKEERKILLANKIEDMLNSI 483
E Q LT + + ++ ++ FD+ A + EER++L D +
Sbjct: 94 EYQLTLTVEAQVLDPNDDVLYPISVKVFRSFFDNPNMALAKDEEREMLWNEMRRDAAEQL 153
Query: 484 VRQISF 489
VR+++
Sbjct: 154 VRRLAS 159
>gnl|CDD|36452 KOG1238, KOG1238, KOG1238, Glucose dehydrogenase/choline
dehydrogenase/mandelonitrile lyase (GMC oxidoreductase
family) [General function prediction only].
Length = 623
Score = 27.6 bits (61), Expect = 9.4
Identities = 23/101 (22%), Positives = 35/101 (34%), Gaps = 8/101 (7%)
Query: 322 LDTMYFWD-RLAPLPGTSQDIIPFEVARDLVLQSYAKFSPQMSIIAEKFFTH-NWIDAPQ 379
++T+ F + + L DI VA L + I + F D+
Sbjct: 397 VETLGFINTVSSNLSLDWPDIELHFVAGSLSSDGLTALRKALGEIYQALFGELTNSDSFV 456
Query: 380 YDGKGSGAFAHGTI------PSVHPYILLNYLGKPQDVMTL 414
K + G + P +P I NY P+DV TL
Sbjct: 457 IFPKLLRPKSRGRLKLRSTNPRDNPLITPNYFTHPEDVATL 497
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.319 0.134 0.396
Gapped
Lambda K H
0.267 0.0679 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 7,646,437
Number of extensions: 406491
Number of successful extensions: 1068
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1050
Number of HSP's successfully gapped: 35
Length of query: 626
Length of database: 6,263,737
Length adjustment: 100
Effective length of query: 526
Effective length of database: 4,102,837
Effective search space: 2158092262
Effective search space used: 2158092262
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 (27.0 bits)