RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8464
(111 letters)
>gnl|CDD|205079 pfam12799, LRR_4, Leucine Rich repeats (2 copies). Leucine rich
repeats are short sequence motifs present in a number of
proteins with diverse functions and cellular locations.
These repeats are usually involved in protein-protein
interactions. Each Leucine Rich Repeat is composed of a
beta-alpha unit. These units form elongated non-globular
structures. Leucine Rich Repeats are often flanked by
cysteine rich domains.
Length = 43
Score = 32.5 bits (75), Expect = 0.003
Identities = 18/43 (41%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 63 PALTRLELSDNRISGGLNVLQSSPKLAYLNLCGNRIKDLETLE 105
L L+LS+N+I+ L L + P L L+L GN+I DL L
Sbjct: 1 TNLETLDLSNNQITD-LPPLSNLPNLETLDLSGNKITDLSPLS 42
Score = 29.0 bits (66), Expect = 0.069
Identities = 15/36 (41%), Positives = 20/36 (55%)
Query: 41 TNLKILSAINVGLTSLKGFPELPALTRLELSDNRIS 76
TNL+ L N +T L LP L L+LS N+I+
Sbjct: 1 TNLETLDLSNNQITDLPPLSNLPNLETLDLSGNKIT 36
>gnl|CDD|215061 PLN00113, PLN00113, leucine-rich repeat receptor-like protein
kinase; Provisional.
Length = 968
Score = 32.5 bits (74), Expect = 0.026
Identities = 21/68 (30%), Positives = 36/68 (52%), Gaps = 5/68 (7%)
Query: 36 LTSEFTNLKILSAINVGLTSLKG-----FPELPALTRLELSDNRISGGLNVLQSSPKLAY 90
L SEFT L ++ +++ +L+G ++P+L L L+ N+ GGL S +L
Sbjct: 420 LPSEFTKLPLVYFLDISNNNLQGRINSRKWDMPSLQMLSLARNKFFGGLPDSFGSKRLEN 479
Query: 91 LNLCGNRI 98
L+L N+
Sbjct: 480 LDLSRNQF 487
Score = 28.7 bits (64), Expect = 0.72
Identities = 14/37 (37%), Positives = 23/37 (62%), Gaps = 2/37 (5%)
Query: 62 LPALTRLELSDNRISGGL--NVLQSSPKLAYLNLCGN 96
LP + + LS+N++SG + ++ +S L YLNL N
Sbjct: 92 LPYIQTINLSNNQLSGPIPDDIFTTSSSLRYLNLSNN 128
Score = 27.5 bits (61), Expect = 1.6
Identities = 21/75 (28%), Positives = 33/75 (44%), Gaps = 2/75 (2%)
Query: 26 DNCRSTNIAALTSEFTNLKILS-AINVGLTSLKGFPELPALTRLELSDNRISGGL-NVLQ 83
+N I + + +L++LS A N L L L+LS N+ SG + L
Sbjct: 437 NNNLQGRINSRKWDMPSLQMLSLARNKFFGGLPDSFGSKRLENLDLSRNQFSGAVPRKLG 496
Query: 84 SSPKLAYLNLCGNRI 98
S +L L L N++
Sbjct: 497 SLSELMQLKLSENKL 511
Score = 26.7 bits (59), Expect = 2.8
Identities = 22/62 (35%), Positives = 27/62 (43%), Gaps = 14/62 (22%)
Query: 26 DNCRSTNIAALTSEFTNLKIL--------SAINVGLTSLKGFPELPALTRLELSDNRISG 77
DN S I L + NL+IL I V LTSL P L L+L N+ SG
Sbjct: 293 DNSLSGEIPELVIQLQNLEILHLFSNNFTGKIPVALTSL------PRLQVLQLWSNKFSG 346
Query: 78 GL 79
+
Sbjct: 347 EI 348
Score = 26.7 bits (59), Expect = 3.4
Identities = 15/43 (34%), Positives = 26/43 (60%), Gaps = 1/43 (2%)
Query: 57 KGFPELPALTRLELSDNRISGGL-NVLQSSPKLAYLNLCGNRI 98
+ L L +L+LS+N++SG + + L S KL L+L N++
Sbjct: 493 RKLGSLSELMQLKLSENKLSGEIPDELSSCKKLVSLDLSHNQL 535
Score = 26.0 bits (57), Expect = 6.3
Identities = 15/45 (33%), Positives = 27/45 (60%), Gaps = 5/45 (11%)
Query: 38 SEFTNLKILSAINVGLTSLKG-----FPELPALTRLELSDNRISG 77
E ++ K L ++++ L G F E+P L++L+LS N++SG
Sbjct: 517 DELSSCKKLVSLDLSHNQLSGQIPASFSEMPVLSQLDLSQNQLSG 561
>gnl|CDD|206026 pfam13855, LRR_8, Leucine rich repeat.
Length = 60
Score = 30.2 bits (69), Expect = 0.042
Identities = 18/62 (29%), Positives = 27/62 (43%), Gaps = 7/62 (11%)
Query: 19 QIKELNLDNCRSTNIAALTSEFTNLKILSAINVGLTSLKGFPE-----LPALTRLELSDN 73
+K L+L N R T I F L L +++ +L LP+L L+LS N
Sbjct: 1 NLKSLDLSNNRLTVIPDGA--FKGLPNLKVLDLSGNNLTSISPEAFSGLPSLRSLDLSGN 58
Query: 74 RI 75
+
Sbjct: 59 NL 60
Score = 27.1 bits (61), Expect = 0.65
Identities = 21/60 (35%), Positives = 27/60 (45%), Gaps = 3/60 (5%)
Query: 42 NLKILSAINVGLTSLKG--FPELPALTRLELSDNRISG-GLNVLQSSPKLAYLNLCGNRI 98
NLK L N LT + F LP L L+LS N ++ P L L+L GN +
Sbjct: 1 NLKSLDLSNNRLTVIPDGAFKGLPNLKVLDLSGNNLTSISPEAFSGLPSLRSLDLSGNNL 60
Score = 26.0 bits (58), Expect = 1.7
Identities = 12/39 (30%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 65 LTRLELSDNRISG-GLNVLQSSPKLAYLNLCGNRIKDLE 102
L L+LS+NR++ + P L L+L GN + +
Sbjct: 2 LKSLDLSNNRLTVIPDGAFKGLPNLKVLDLSGNNLTSIS 40
>gnl|CDD|227223 COG4886, COG4886, Leucine-rich repeat (LRR) protein [Function
unknown].
Length = 394
Score = 31.1 bits (70), Expect = 0.090
Identities = 26/91 (28%), Positives = 42/91 (46%), Gaps = 1/91 (1%)
Query: 18 IQIKELNLDNCRSTNIAALTSEFTNLKILSAINVGLTSLKGFPELP-ALTRLELSDNRIS 76
+K L+L +++ L S +NL L ++ L EL AL L+LS+N I
Sbjct: 163 PNLKNLDLSFNDLSDLPKLLSNLSNLNNLDLSGNKISDLPPEIELLSALEELDLSNNSII 222
Query: 77 GGLNVLQSSPKLAYLNLCGNRIKDLETLEPL 107
L+ L + L+ L L N+++DL
Sbjct: 223 ELLSSLSNLKNLSGLELSNNKLEDLPESIGN 253
Score = 30.7 bits (69), Expect = 0.13
Identities = 20/97 (20%), Positives = 39/97 (40%), Gaps = 1/97 (1%)
Query: 12 TERMGKIQIKELNLDNCRSTNIAALTSEFTNLKILSAINVGLTSLK-GFPELPALTRLEL 70
+ L+L + +++ + L+ L N + L L L+ LEL
Sbjct: 180 KLLSNLSNLNNLDLSGNKISDLPPEIELLSALEELDLSNNSIIELLSSLSNLKNLSGLEL 239
Query: 71 SDNRISGGLNVLQSSPKLAYLNLCGNRIKDLETLEPL 107
S+N++ + + L L+L N+I + +L L
Sbjct: 240 SNNKLEDLPESIGNLSNLETLDLSNNQISSISSLGSL 276
Score = 29.6 bits (66), Expect = 0.29
Identities = 27/89 (30%), Positives = 41/89 (46%), Gaps = 2/89 (2%)
Query: 19 QIKELNLDNCRSTNIAALTSEFTNLKILSAINVGLTSLKGFPELPA--LTRLELSDNRIS 76
+ L+L+ R + + E TNL L N +T + L L L+LSDN+I
Sbjct: 94 PLPSLDLNLNRLRSNISELLELTNLTSLDLDNNNITDIPPLIGLLKSNLKELDLSDNKIE 153
Query: 77 GGLNVLQSSPKLAYLNLCGNRIKDLETLE 105
+ L++ P L L+L N + DL L
Sbjct: 154 SLPSPLRNLPNLKNLDLSFNDLSDLPKLL 182
Score = 25.7 bits (56), Expect = 6.5
Identities = 30/88 (34%), Positives = 41/88 (46%), Gaps = 2/88 (2%)
Query: 19 QIKELNLDNCRSTNIAALTSEFT-NLKILSAINVGLTSLKGFPE-LPALTRLELSDNRIS 76
+ L+LDN T+I L NLK L + + SL LP L L+LS N +S
Sbjct: 117 NLTSLDLDNNNITDIPPLIGLLKSNLKELDLSDNKIESLPSPLRNLPNLKNLDLSFNDLS 176
Query: 77 GGLNVLQSSPKLAYLNLCGNRIKDLETL 104
+L + L L+L GN+I DL
Sbjct: 177 DLPKLLSNLSNLNNLDLSGNKISDLPPE 204
>gnl|CDD|178695 PLN03150, PLN03150, hypothetical protein; Provisional.
Length = 623
Score = 30.9 bits (70), Expect = 0.098
Identities = 26/89 (29%), Positives = 41/89 (46%), Gaps = 8/89 (8%)
Query: 16 GKIQIKELNLDNCRSTNIAALTSEFTNLKILSAINVGLTSLKG-----FPELPALTRLEL 70
GK I L LDN + ++ + L+ L +IN+ S++G + +L L+L
Sbjct: 416 GKWFIDGLGLDNQGLRGF--IPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDL 473
Query: 71 SDNRISGGL-NVLQSSPKLAYLNLCGNRI 98
S N +G + L L LNL GN +
Sbjct: 474 SYNSFNGSIPESLGQLTSLRILNLNGNSL 502
>gnl|CDD|237701 PRK14398, PRK14398, membrane protein; Provisional.
Length = 191
Score = 28.7 bits (64), Expect = 0.43
Identities = 18/41 (43%), Positives = 23/41 (56%)
Query: 19 QIKELNLDNCRSTNIAALTSEFTNLKILSAINVGLTSLKGF 59
+IK +NL S NI A T K L+A+ + L SLKGF
Sbjct: 24 KIKGINLREVGSGNIGATNVARTGNKFLAALALFLDSLKGF 64
>gnl|CDD|224671 COG1757, NhaC, Na+/H+ antiporter [Energy production and
conversion].
Length = 485
Score = 28.0 bits (63), Expect = 1.0
Identities = 12/63 (19%), Positives = 25/63 (39%), Gaps = 3/63 (4%)
Query: 31 TNIAALTSEFTNLKILSAINVGLTSLKGFPELPALTRLELSD---NRISGGLNVLQSSPK 87
+I ++ + +L + V + +L G P P L + + + GG + L +
Sbjct: 240 ESILKVSFLINPILLLPYVTVLVLALTGVPAFPVLLAGINTAVIISLLYGGFSFLDAINA 299
Query: 88 LAY 90
L
Sbjct: 300 LYL 302
>gnl|CDD|236520 PRK09444, pntB, pyridine nucleotide transhydrogenase; Provisional.
Length = 462
Score = 27.0 bits (60), Expect = 2.1
Identities = 14/45 (31%), Positives = 20/45 (44%), Gaps = 2/45 (4%)
Query: 16 GKIQIKELNLDNCRSTNIAALTSEFTNLKILSAINVGLTSLKGFP 60
GKI K L L + N+AAL F L ++ + L+ F
Sbjct: 148 GKISSKPLMLPHRHKLNLAALVVSF--LLLIVFVRTDSVGLQVFA 190
>gnl|CDD|225831 COG3294, COG3294, HD supefamily hydrolase [General function
prediction only].
Length = 269
Score = 26.7 bits (59), Expect = 2.6
Identities = 10/35 (28%), Positives = 16/35 (45%)
Query: 5 LPFFEPDTERMGKIQIKELNLDNCRSTNIAALTSE 39
L PD E+ +++ + L+ C N LT E
Sbjct: 134 LSKIYPDPEKAVRVRSEVLHAIYCHDENETPLTIE 168
>gnl|CDD|238283 cd00512, MM_CoA_mutase, Coenzyme B12-dependent-methylmalonyl
coenzyme A (CoA) mutase (MCM)-like family; contains
proteins similar to MCM, and the large subunit of
Streptomyces coenzyme B12-dependent isobutyryl-CoA
mutase (ICM). MCM catalyzes the isomerization of
methylmalonyl-CoA to succinyl-CoA. The reaction proceeds
via radical intermediates beginning with a
substrate-induced homolytic cleavage of the Co-C bond of
coenzyme B12 to produce cob(II)alamin and the
deoxyadenosyl radical. MCM plays an important role in
the conversion of propionyl-CoA to succinyl-CoA during
the degradation of propionate for the Krebs cycle. In
higher animals, MCM is involved in the breakdown of
odd-chain fatty acids, several amino acids, and
cholesterol. Methylobacterium extorquens MCM
participates in the glyoxylate regeneration pathway. In
M. extorquens, MCM forms a complex with MeaB; MeaB may
protect MCM from irreversible inactivation. In some
bacteria, MCM is involved in the reverse metabolic
reaction, the rearrangement of succinyl-CoA to
methylmalonyl-CoA. Examples include Propionbacterium
shermanni MCM during propionic acid fermentation, E.coli
MCM in a pathway for the conversion of succinate to
propionate and Streptomyces MCM in polyketide
biosynthesis. P. shermanni and Streptomyces
cinnamonensis MCMs are alpha/beta heterodimers, with
both subunits being homologous members of this family.
It has been shown for P. shermanni MCM that only the
alpha subunit binds coenzyme B12 and substrates. Human
MCM is a homodimer with two active sites. Mouse and
E.coli MCMs are also homodimers. ICM from S.
cinnamonensis is comprised of a large and a small
subunit. The holoenzyme appears to be an alpha2beta2
heterotetramer with up to 2 molecules of coenzyme B12
bound. The small subunit binds coenzyme B12. ICM
catalyzes the reversible rearrangement of n-butyryl-CoA
to isobutyryl-CoA (intermediates in fatty acid and
valine catabolism, which in S. cinnamonensis can be
converted to methylmalonyl-CoA and used in polyketide
synthesis). In humans, impaired activity of MCM results
in methylmalonic aciduria, a disorder of propionic acid
metabolism.
Length = 399
Score = 26.2 bits (58), Expect = 3.9
Identities = 22/72 (30%), Positives = 30/72 (41%), Gaps = 12/72 (16%)
Query: 37 TSEFTNLKILSAINVGLTSLKGFPELPALTRLELSDNRISGGLNVLQSSPKLAYLNLCGN 96
T+E TN + + G T L +LP L R SDN G + +CG
Sbjct: 12 TAEETNKRYRRNLAAGQTGLSVAFDLPTL-RGYDSDNPRDAGE-----------VGMCGV 59
Query: 97 RIKDLETLEPLF 108
I LE ++ LF
Sbjct: 60 AIDTLEDMDELF 71
>gnl|CDD|215069 PLN00134, PLN00134, fumarate hydratase; Provisional.
Length = 458
Score = 25.8 bits (57), Expect = 6.0
Identities = 26/79 (32%), Positives = 37/79 (46%), Gaps = 5/79 (6%)
Query: 23 LNLDNCRSTNIAALTSEFTNLKILSAINV--GLTSLKGFPELP-ALTRLELSDNRISGGL 79
LN IAA +E T L ++A N L + F EL AL + +S +I+ +
Sbjct: 228 LNTKKGFDEKIAAAVAEETGLPFVTAPNKFEALAAHDAFVELSGALNTVAVSLMKIANDI 287
Query: 80 NVLQSSPK--LAYLNLCGN 96
+L S P+ L LNL N
Sbjct: 288 RLLGSGPRCGLGELNLPEN 306
>gnl|CDD|184156 PRK13575, PRK13575, 3-dehydroquinate dehydratase; Provisional.
Length = 238
Score = 25.5 bits (56), Expect = 6.4
Identities = 10/30 (33%), Positives = 14/30 (46%)
Query: 18 IQIKELNLDNCRSTNIAALTSEFTNLKILS 47
I I EL +D + + L T LK+L
Sbjct: 31 IDIIELRIDQWENVTVDQLAEMITKLKVLQ 60
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
0.316 0.135 0.376
Gapped
Lambda K H
0.267 0.0925 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,385,364
Number of extensions: 432645
Number of successful extensions: 339
Number of sequences better than 10.0: 1
Number of HSP's gapped: 329
Number of HSP's successfully gapped: 38
Length of query: 111
Length of database: 10,937,602
Length adjustment: 75
Effective length of query: 36
Effective length of database: 7,611,052
Effective search space: 273997872
Effective search space used: 273997872
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: 53 (23.8 bits)