RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13146
(895 letters)
>gnl|CDD|233692 TIGR02031, BchD-ChlD, magnesium chelatase ATPase subunit D. This
model represents one of two ATPase subunits of the
trimeric magnesium chelatase responsible for insertion
of magnesium ion into protoporphyrin IX. This is an
essential step in the biosynthesis of both chlorophyll
and bacteriochlorophyll. This subunit is found in green
plants, photosynthetic algae, cyanobacteria and other
photosynthetic bacteria. Unlike subunit I (TIGR02030),
this subunit is not found in archaea [Biosynthesis of
cofactors, prosthetic groups, and carriers, Chlorophyll
and bacteriochlorphyll].
Length = 589
Score = 36.7 bits (85), Expect = 0.066
Identities = 10/20 (50%), Positives = 12/20 (60%)
Query: 223 PKPPEPPPPPQEDIPEPINP 242
P+PP PPPPP+ PE
Sbjct: 271 PQPPPPPPPPEPPEPEEEPD 290
>gnl|CDD|223021 PHA03247, PHA03247, large tegument protein UL36; Provisional.
Length = 3151
Score = 33.8 bits (77), Expect = 0.52
Identities = 21/83 (25%), Positives = 23/83 (27%), Gaps = 3/83 (3%)
Query: 223 PKPPEPP--PPPQEDIPEPINPCYPSPCGPYSQCRDIN-GSPSCSCLPSYIGAPPNCRPE 279
P PP PP PP D P P P P R +P S P
Sbjct: 2551 PPPPLPPAAPPAAPDRSVPPPRPAPRPSEPAVTSRARRPDAPPQSARPRAPVDDRGDPRG 2610
Query: 280 CIQNSECPYDKACINEKCADPCP 302
S P D + P P
Sbjct: 2611 PAPPSPLPPDTHAPDPPPPSPSP 2633
Score = 30.7 bits (69), Expect = 5.3
Identities = 14/48 (29%), Positives = 19/48 (39%)
Query: 226 PEPPPPPQEDIPEPINPCYPSPCGPYSQCRDINGSPSCSCLPSYIGAP 273
P PPPP E P + P P GP + + P+ P+ P
Sbjct: 2701 PPPPPPTPEPAPHALVSATPLPPGPAAARQASPALPAAPAPPAVPAGP 2748
Score = 29.9 bits (67), Expect = 8.8
Identities = 11/29 (37%), Positives = 12/29 (41%)
Query: 225 PPEPPPPPQEDIPEPINPCYPSPCGPYSQ 253
P +P PPQ P P P P P Q
Sbjct: 2902 PDQPERPPQPQAPPPPQPQPQPPPPPQPQ 2930
>gnl|CDD|233184 TIGR00917, 2A060601, Niemann-Pick C type protein family. The model
describes Niemann-Pick C type protein in eukaryotes. The
defective protein has been associated with Niemann-Pick
disease which is described in humans as autosomal
recessive lipidosis. It is characterized by the
lysosomal accumulation of unestrified cholesterol. It is
an integral membrane protein, which indicates that this
protein is most likely involved in cholesterol transport
or acts as some component of cholesterol homeostasis
[Transport and binding proteins, Other].
Length = 1204
Score = 32.9 bits (75), Expect = 0.92
Identities = 15/50 (30%), Positives = 19/50 (38%), Gaps = 5/50 (10%)
Query: 186 DPCPGSCGY----NALCKVINHTPICTCPDGYTGDAFSGCYPKPPEPPPP 231
PCP S G + + C+C + D C KPP PP P
Sbjct: 181 TPCPVSSGMRPMNVSTYSCGDAVLGCSCGCSCS-DCDCSCKAKPPTPPKP 229
Score = 30.6 bits (69), Expect = 5.5
Identities = 20/70 (28%), Positives = 25/70 (35%), Gaps = 17/70 (24%)
Query: 283 NSECPYDKACINEKCADPCPGSCG--------YGAVCTVINHSPICTCPEGYIGDAFSSC 334
N P+ + PCP S G Y V+ S C+C D SC
Sbjct: 169 NPGAPFGITFL----PTPCPVSSGMRPMNVSTYSCGDAVLGCSCGCSCS-----DCDCSC 219
Query: 335 YPKPPEPVQP 344
KPP P +P
Sbjct: 220 KAKPPTPPKP 229
>gnl|CDD|237378 PRK13406, bchD, magnesium chelatase subunit D; Provisional.
Length = 584
Score = 32.7 bits (75), Expect = 1.0
Identities = 9/20 (45%), Positives = 11/20 (55%)
Query: 223 PKPPEPPPPPQEDIPEPINP 242
+ P PPPPP ED +P
Sbjct: 266 EEEPPPPPPPPEDDDDPPED 285
>gnl|CDD|216210 pfam00949, Peptidase_S7, Peptidase S7, Flavivirus NS3 serine
protease. The viral genome is a positive strand RNA
that encodes a single polyprotein precursor. Processing
of the polyprotein precursor into mature proteins is
carried out by the host signal peptidase and by NS3
serine protease, which requires NS2B (pfam01002) as a
cofactor.
Length = 144
Score = 31.1 bits (71), Expect = 1.2
Identities = 12/48 (25%), Positives = 18/48 (37%), Gaps = 6/48 (12%)
Query: 639 IRNKCKNPCVPGTCGEGAICDVINHAVSCNCPPGTTGSPFVQSEQPVV 686
+ N P V T G G + + P G++GSP +V
Sbjct: 82 VENVQTKPGVFKTDGYGLG------LIDLDFPGGSSGSPIFNQNGQIV 123
>gnl|CDD|177871 PLN02226, PLN02226, 2-oxoglutarate dehydrogenase E2 component.
Length = 463
Score = 32.0 bits (72), Expect = 1.6
Identities = 10/20 (50%), Positives = 12/20 (60%)
Query: 223 PKPPEPPPPPQEDIPEPINP 242
PK P PPPP++ EP P
Sbjct: 210 PKAPSSPPPPKQSAKEPQLP 229
>gnl|CDD|201524 pfam00954, S_locus_glycop, S-locus glycoprotein family. In
Brassicaceae, self-incompatible plants have a
self/non-self recognition system. This is
sporophytically controlled by multiple alleles at a
single locus (S). S-locus glycoproteins, as well as
S-receptor kinases, are in linkage with the S-alleles.
Length = 110
Score = 29.9 bits (68), Expect = 1.7
Identities = 11/20 (55%), Positives = 14/20 (70%), Gaps = 1/20 (5%)
Query: 248 CGPYSQCRDINGSPSCSCLP 267
CGPY C D+N SP C+C+
Sbjct: 86 CGPYGYC-DVNTSPKCNCIK 104
Score = 28.0 bits (63), Expect = 9.4
Identities = 10/20 (50%), Positives = 13/20 (65%), Gaps = 1/20 (5%)
Query: 135 CGPYSQCRDIGGSPSCSCLP 154
CGPY C D+ SP C+C+
Sbjct: 86 CGPYGYC-DVNTSPKCNCIK 104
>gnl|CDD|237940 PRK15313, PRK15313, autotransport protein MisL; Provisional.
Length = 955
Score = 31.7 bits (71), Expect = 2.1
Identities = 17/48 (35%), Positives = 20/48 (41%), Gaps = 3/48 (6%)
Query: 205 PICTCPDGYTGDAFSGCYPKP--PEPPPPPQEDIPEPINPCYPSPCGP 250
P PD D P P P+P P D PEP++P P P P
Sbjct: 574 PDPVIPDPVDPDPVDPVIPDPVIPDPVDPDPVD-PEPVDPVIPDPTIP 620
>gnl|CDD|236669 PRK10263, PRK10263, DNA translocase FtsK; Provisional.
Length = 1355
Score = 31.6 bits (71), Expect = 2.4
Identities = 28/168 (16%), Positives = 36/168 (21%), Gaps = 20/168 (11%)
Query: 114 PPRPPPQEDVPEPVNPCYPSPCGPYSQCRDIGGSPSCSCLP-NYIGAPPNCRPECVQNND 172
PP +P P P GP + G P + P Y +P N
Sbjct: 344 PPVASVDVPPAQPTVAWQPVP-GPQT------GEPVIAPAPEGYPQQSQYAQPAVQYN-- 394
Query: 173 CSNDKACINEKCQDPCPGSCGYNALCKVINHTPICTCPDGYTGDAFSGCYPKPPEPPPPP 232
E Q P Y A P P P +P
Sbjct: 395 ---------EPLQQPVQPQQPYYAPAAEQPAQQPYYAPAPEQPAQQPYYAPAPEQPVAGN 445
Query: 233 QEDIPEPINPCYPSPCG-PYSQCRDINGSPSCSCLPSYIGAPPNCRPE 279
E + P + P + P PE
Sbjct: 446 AWQAEEQQSTFAPQSTYQTEQTYQQPAAQEPLYQQPQPVEQQPVVEPE 493
>gnl|CDD|238011 cd00054, EGF_CA, Calcium-binding EGF-like domain, present in a
large number of membrane-bound and extracellular (mostly
animal) proteins. Many of these proteins require calcium
for their biological function and calcium-binding sites
have been found to be located at the N-terminus of
particular EGF-like domains; calcium-binding may be
crucial for numerous protein-protein interactions. Six
conserved core cysteines form three disulfide bridges as
in non calcium-binding EGF domains, whose structures are
very similar. EGF_CA can be found in tandem repeat
arrangements.
Length = 38
Score = 26.8 bits (60), Expect = 5.0
Identities = 13/33 (39%), Positives = 16/33 (48%), Gaps = 1/33 (3%)
Query: 240 INPCY-PSPCGPYSQCRDINGSPSCSCLPSYIG 271
I+ C +PC C + GS CSC P Y G
Sbjct: 2 IDECASGNPCQNGGTCVNTVGSYRCSCPPGYTG 34
Score = 26.8 bits (60), Expect = 5.1
Identities = 12/33 (36%), Positives = 16/33 (48%), Gaps = 1/33 (3%)
Query: 127 VNPCY-PSPCGPYSQCRDIGGSPSCSCLPNYIG 158
++ C +PC C + GS CSC P Y G
Sbjct: 2 IDECASGNPCQNGGTCVNTVGSYRCSCPPGYTG 34
>gnl|CDD|234806 PRK00635, PRK00635, excinuclease ABC subunit A; Provisional.
Length = 1809
Score = 30.2 bits (68), Expect = 6.0
Identities = 12/58 (20%), Positives = 24/58 (41%), Gaps = 19/58 (32%)
Query: 301 CPGSCGYGAVCT---------VINHSPICTCPEGYIGDAFSSCYPK-PPEPVQPVIQE 348
CP G G + + +++P+ F+ +P P+PV P+++E
Sbjct: 1208 CPLCHGKGFILKCSLLPHKEKIAHYTPL---------SLFTLFFPNQDPKPVYPLLKE 1256
>gnl|CDD|219404 pfam07415, Herpes_LMP2, Gammaherpesvirus latent membrane protein
(LMP2) protein. This family consists of several
Gammaherpesvirus latent membrane protein (LMP2)
proteins. Epstein-Barr virus is a human Gammaherpesvirus
that infects and establishes latency in B lymphocytes in
vivo. The latent membrane protein 2 (LMP2) gene is
expressed in latently infected B cells and encodes two
protein isoforms, LMP2A and LMP2B, that are identical
except for an additional N-terminal 119 aa cytoplasmic
domain which is present in the LMP2A isoform. LMP2A is
thought to play a key role in either the establishment
or the maintenance of latency and/or the reactivation of
productive infection from the latent state. The
significance of LMP2B and its role in pathogenesis
remain unclear.
Length = 489
Score = 29.4 bits (66), Expect = 9.1
Identities = 15/52 (28%), Positives = 16/52 (30%), Gaps = 10/52 (19%)
Query: 210 PDGYTGD-------AF--SGCYPKPPEPP-PPPQEDIPEPINPCYPSPCGPY 251
PDG GD +F S P PP P P P G Y
Sbjct: 20 PDGDEGDSNPYYPSSFGSSWDRPGPPVPEDYDAPSHRPPPYGGSNGDRHGGY 71
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
0.321 0.140 0.508
Gapped
Lambda K H
0.267 0.0656 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 42,589,690
Number of extensions: 3845899
Number of successful extensions: 4533
Number of sequences better than 10.0: 1
Number of HSP's gapped: 4328
Number of HSP's successfully gapped: 260
Length of query: 895
Length of database: 10,937,602
Length adjustment: 106
Effective length of query: 789
Effective length of database: 6,236,078
Effective search space: 4920265542
Effective search space used: 4920265542
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: 63 (28.2 bits)