RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4063
(205 letters)
>gnl|CDD|201105 pfam00238, Ribosomal_L14, Ribosomal protein L14p/L23e.
Length = 122
Score = 77.1 bits (191), Expect = 2e-18
Identities = 37/123 (30%), Positives = 54/123 (43%), Gaps = 23/123 (18%)
Query: 35 IKLLTRLRVVDNCEIGRQAMAEGKPPRVIAIYNQTHI--GTIGDKVLVAI---------- 82
I++ TRL V DN K + I + + +GD ++V++
Sbjct: 2 IQVGTRLNVADNSGA--------KKVKCIKVLGGSRKKYAKVGDIIVVSVKKAIPKGKVK 53
Query: 83 KGEKKKGIIVGVKKHQK---PHIPKTDTNNVVLIDDSGTPLGTRIHVPIPSMLRTILKEK 139
KG+ K +IV KK + + D N VVLI++ G P GTRI P+ LR K
Sbjct: 54 KGDVVKAVIVRTKKEVRRKDGSYIRFDDNAVVLINNKGEPKGTRIFGPVARELRAKKFPK 113
Query: 140 TLS 142
LS
Sbjct: 114 ILS 116
>gnl|CDD|180117 PRK05483, rplN, 50S ribosomal protein L14; Validated.
Length = 122
Score = 54.4 bits (132), Expect = 7e-10
Identities = 36/116 (31%), Positives = 56/116 (48%), Gaps = 27/116 (23%)
Query: 35 IKLLTRLRVVDNCEIG-RQAMAEGKPPRVIAIYNQTH--IGTIGDKVLVAIK-----GEK 86
I+ TRL V DN G ++ M I + + +IGD ++V++K G+
Sbjct: 2 IQQETRLNVADNS--GAKEVM-------CIKVLGGSKRRYASIGDVIVVSVKEAIPRGKV 52
Query: 87 KKG-----IIVGVKKHQK----PHIPKTDTNNVVLIDDSGTPLGTRIHVPIPSMLR 133
KKG ++V KK + +I + D N VL+++ G P GTRI P+ LR
Sbjct: 53 KKGDVVKAVVVRTKKGVRRPDGSYI-RFDDNAAVLLNNDGEPRGTRIFGPVARELR 107
>gnl|CDD|130139 TIGR01067, rplN_bact, ribosomal protein L14, bacterial/organelle.
This model distinguishes bacterial and most organellar
examples of ribosomal protein L14 from all archaeal and
eukaryotic forms [Protein synthesis, Ribosomal proteins:
synthesis and modification].
Length = 122
Score = 50.8 bits (122), Expect = 2e-08
Identities = 36/116 (31%), Positives = 52/116 (44%), Gaps = 27/116 (23%)
Query: 35 IKLLTRLRVVDNCEIGRQAM---AEGKPPRVIAIYNQTHIGTIGDKVLVAIK-----GEK 86
I+ +RL V DN ++ G R A T+GD ++V +K G+
Sbjct: 2 IQQQSRLNVADNSG-AKKVQCIKVLGGSRRRYA--------TVGDVIVVVVKDAIPNGKV 52
Query: 87 KKG-----IIVGVKKHQK----PHIPKTDTNNVVLIDDSGTPLGTRIHVPIPSMLR 133
KKG +IV KK + +I + D N VLI+ + P GTRI P+ LR
Sbjct: 53 KKGDVVKAVIVRTKKGVRRKDGSYI-RFDDNACVLINKNKEPRGTRIFGPVARELR 107
>gnl|CDD|223171 COG0093, RplN, Ribosomal protein L14 [Translation, ribosomal
structure and biogenesis].
Length = 122
Score = 50.3 bits (121), Expect = 2e-08
Identities = 37/117 (31%), Positives = 53/117 (45%), Gaps = 27/117 (23%)
Query: 35 IKLLTRLRVVDNCEIGRQAM---AEGKPPRVIAIYNQTHIGTIGDKVLVAIK-----GEK 86
I++ TRL V DN ++ M G R A +GD ++V++K G
Sbjct: 2 IQVQTRLNVADNSG-AKEVMCIKVLGGSRRRYA--------GVGDIIVVSVKKAIPRGMV 52
Query: 87 KKG-----IIVGVKKHQK----PHIPKTDTNNVVLIDDSGTPLGTRIHVPIPSMLRT 134
KKG ++V KK + +I K D N V+I+ G P GTRI P+ LR
Sbjct: 53 KKGDVVKAVVVRTKKEVRRPDGSYI-KFDDNAAVIINPDGEPRGTRIFGPVARELRE 108
>gnl|CDD|176997 CHL00057, rpl14, ribosomal protein L14.
Length = 122
Score = 45.6 bits (109), Expect = 1e-06
Identities = 36/113 (31%), Positives = 50/113 (44%), Gaps = 21/113 (18%)
Query: 35 IKLLTRLRVVDNCEIGRQAMAEGKPPRVIAIYNQTHIGTIGDKVLVAI-----------K 83
I+ T L V DN R+ M RV+ N+ + IGD V++A+ +
Sbjct: 2 IQPQTYLNVADNSG-ARKLMC----IRVLGASNRKY-AHIGD-VIIAVVKEAVPNMPLKR 54
Query: 84 GEKKKGIIVGVKKHQKPH---IPKTDTNNVVLIDDSGTPLGTRIHVPIPSMLR 133
E + +IV K K I + D N V+ID G P GTR+ PI LR
Sbjct: 55 SEVVRAVIVRTCKELKRDNGMIIRFDDNAAVVIDQEGNPKGTRVFGPIARELR 107
>gnl|CDD|132712 TIGR03673, rpl14p_arch, 50S ribosomal protein L14P. Part of the
50S ribosomal subunit. Forms a cluster with proteins L3
and L24e, part of which may contact the 16S rRNA in 2
intersubunit bridges.
Length = 131
Score = 35.8 bits (83), Expect = 0.004
Identities = 19/66 (28%), Positives = 30/66 (45%), Gaps = 10/66 (15%)
Query: 74 IGDKVLVAIKG---EKKKGIIVGVKKHQKPHIPKTD-------TNNVVLIDDSGTPLGTR 123
+GD V+V++K E +K + V Q+ + D N VV++ G P GT
Sbjct: 48 VGDMVVVSVKKGTPEMRKQVFKAVVVRQRKEYRRPDGTRVKFEDNAVVIVTPDGEPKGTE 107
Query: 124 IHVPIP 129
I P+
Sbjct: 108 IKGPVA 113
>gnl|CDD|181478 PRK08571, rpl14p, 50S ribosomal protein L14P; Reviewed.
Length = 132
Score = 34.1 bits (79), Expect = 0.013
Identities = 20/65 (30%), Positives = 32/65 (49%), Gaps = 10/65 (15%)
Query: 74 IGDKVLVAI-KG--EKKKGIIVGVKKHQKPHIPKTD-------TNNVVLIDDSGTPLGTR 123
+GD V+V++ KG E +K ++ V Q+ + D N V++ GTP GT
Sbjct: 49 VGDMVVVSVKKGTPEMRKQVLRAVVVRQRKEYRRPDGTRVKFEDNAAVIVTPEGTPKGTE 108
Query: 124 IHVPI 128
I P+
Sbjct: 109 IKGPV 113
>gnl|CDD|129553 TIGR00461, gcvP, glycine dehydrogenase (decarboxylating). This
apparently ubiquitous enzyme is found in bacterial,
mammalian and plant sources. The enzyme catalyzes the
reaction: GLYCINE + LIPOYLPROTEIN =
S-AMINOMETHYL-DIHYDROLIPOYLPROTEIN + CO2. It is part of
the glycine decarboxylase multienzyme complex (GDC)
consisting of four proteins P, H, L and T. Active site
in E.coli is located as the (K) residues at position 713
of the SEED alignment [Energy metabolism, Amino acids
and amines].
Length = 939
Score = 31.0 bits (70), Expect = 0.40
Identities = 16/60 (26%), Positives = 26/60 (43%), Gaps = 8/60 (13%)
Query: 92 VGVKKHQKPHIPKTDTNNVVLIDD--------SGTPLGTRIHVPIPSMLRTILKEKTLSK 143
+GVK H P +PK D +++ S P G+ +PI M ++ + L K
Sbjct: 707 IGVKSHLIPFLPKHDVVSMITGIGGSKSIGSVSAAPYGSASILPISWMYIKMMGNEGLPK 766
>gnl|CDD|215741 pfam00135, COesterase, Carboxylesterase family.
Length = 510
Score = 29.6 bits (67), Expect = 1.3
Identities = 8/29 (27%), Positives = 13/29 (44%)
Query: 2 EYYEWKDHPSYQTTPSALKLCSDLYHTTP 30
EY + D S ++ + + L SD P
Sbjct: 361 EYTDDPDDNSEESRDALVDLLSDYLFVCP 389
>gnl|CDD|177085 CHL00183, petJ, cytochrome c553; Provisional.
Length = 108
Score = 28.2 bits (63), Expect = 1.5
Identities = 13/27 (48%), Positives = 17/27 (62%)
Query: 135 ILKEKTLSKGADYTNTLNSINNISMNV 161
I+ EKTL K A N++NSI I+ V
Sbjct: 48 IMPEKTLKKDALEANSMNSIEAITYQV 74
>gnl|CDD|217388 pfam03144, GTP_EFTU_D2, Elongation factor Tu domain 2. Elongation
factor Tu consists of three structural domains, this is
the second domain. This domain adopts a beta barrel
structure. This the second domain is involved in binding
to charged tRNA. This domain is also found in other
proteins such as elongation factor G and translation
initiation factor IF-2. This domain is structurally
related to pfam03143, and in fact has weak sequence
matches to this domain.
Length = 70
Score = 26.8 bits (60), Expect = 2.4
Identities = 10/31 (32%), Positives = 16/31 (51%), Gaps = 2/31 (6%)
Query: 72 GTI--GDKVLVAIKGEKKKGIIVGVKKHQKP 100
GT+ GDKV++ G KKG + ++
Sbjct: 11 GTLKKGDKVVIGPNGTGKKGRVTSLEMFHGD 41
>gnl|CDD|238652 cd01342, Translation_Factor_II_like, Translation_Factor_II_like:
Elongation factor Tu (EF-Tu) domain II-like proteins.
Elongation factor Tu consists of three structural
domains, this family represents the second domain.
Domain II adopts a beta barrel structure and is involved
in binding to charged tRNA. Domain II is found in other
proteins such as elongation factor G and translation
initiation factor IF-2. This group also includes the C2
subdomain of domain IV of IF-2 that has the same fold as
domain II of (EF-Tu). Like IF-2 from certain prokaryotes
such as Thermus thermophilus, mitochondrial IF-2 lacks
domain II, which is thought to be involved in binding
of E.coli IF-2 to 30S subunits.
Length = 83
Score = 26.9 bits (60), Expect = 2.8
Identities = 12/51 (23%), Positives = 19/51 (37%), Gaps = 12/51 (23%)
Query: 62 VIAIYNQTHIGTI------------GDKVLVAIKGEKKKGIIVGVKKHQKP 100
V ++ GT+ GDKV V G KG + +K+ +
Sbjct: 5 VFKVFKDKGRGTVATGRVESGTLKKGDKVRVGPGGGGVKGKVKSLKRFKGE 55
>gnl|CDD|224191 COG1272, COG1272, Predicted membrane protein, hemolysin III
homolog [General function prediction only].
Length = 226
Score = 27.6 bits (62), Expect = 3.6
Identities = 12/32 (37%), Positives = 15/32 (46%), Gaps = 2/32 (6%)
Query: 18 ALKLCSDLYHTTPCLHHIKLLTRLRVVDNCEI 49
L L S LYH+ P + K LR D+ I
Sbjct: 67 LLFLVSTLYHSIP--NGQKAKAILRKFDHSGI 96
>gnl|CDD|233599 TIGR01853, lipid_A_lpxD, UDP-3-O-[3-hydroxymyristoyl] glucosamine
N-acyltransferase. This model describes LpxD, an enzyme
for the biosynthesis of lipid A, a component
oflipopolysaccharide (LPS) in the outer membrane outer
leaflet of most Gram-negative bacteria. Some differences
are found between lipid A of different species. This
protein represents the third step from
UDP-N-acetyl-D-glucosamine. The group added at this step
generally is 14:0(3-OH) (myristate) but may vary; in
Aquifex it appears to be 16:0(3-OH) (palmitate) [Cell
envelope, Biosynthesis and degradation of surface
polysaccharides and lipopolysaccharides].
Length = 324
Score = 27.6 bits (62), Expect = 4.8
Identities = 17/71 (23%), Positives = 28/71 (39%), Gaps = 19/71 (26%)
Query: 26 YHTTPCLHHIKL--LTRLRVVDNCEIG------RQAMAEGKPPRVIA----IYNQTHIG- 72
Y T H+K+ + R+ + D+ EIG R A + +I I N I
Sbjct: 179 YAHTANGGHVKIPQIGRVIIEDDVEIGANTTIDRGAFDD----TIIGEGTKIDNLVQIAH 234
Query: 73 --TIGDKVLVA 81
IG+ ++
Sbjct: 235 NCRIGENCIIV 245
>gnl|CDD|233258 TIGR01065, hlyIII, channel protein, hemolysin III family. This
family includes proteins from pathogenic and
non-pathogenic bacteria, Homo sapiens and Drosophila.
In Bacillus cereus, a pathogen, it has been show to
function as a channel-forming cytolysin. The human
protein is expressed preferentially in mature
macrophages, consistent with a role cytolytic role.
Length = 204
Score = 27.3 bits (61), Expect = 5.2
Identities = 12/32 (37%), Positives = 15/32 (46%), Gaps = 2/32 (6%)
Query: 18 ALKLCSDLYHTTPCLHHIKLLTRLRVVDNCEI 49
L L S LYH+ P K LR +D+ I
Sbjct: 48 LLFLVSTLYHSIPKGSKAKNW--LRKIDHSMI 77
>gnl|CDD|215030 PLN00019, PLN00019, photosystem I reaction center subunit III;
Provisional.
Length = 223
Score = 27.1 bits (60), Expect = 5.7
Identities = 17/49 (34%), Positives = 24/49 (48%), Gaps = 4/49 (8%)
Query: 50 GRQA-MAEGKPPRVIAIYNQTHIGTIGDKVLVAIKGEKK---KGIIVGV 94
G QA + E P + +Y IG +G L+A+ E K K II+ V
Sbjct: 139 GDQAHLGEFITPGLGFLYIAGWIGWVGRSYLIAVSTEAKPTEKEIIIDV 187
>gnl|CDD|217315 pfam03006, HlyIII, Haemolysin-III related. Members of this
family are integral membrane proteins. This family
includes a protein with hemolytic activity from
Bacillus cereus. It has been proposed that YOL002c
encodes a Saccharomyces cerevisiae protein that plays a
key role in metabolic pathways that regulate lipid and
phosphate metabolism. In eukaryotes, members are
seven-transmembrane pass molecules found to encode
functional receptors with a broad range of apparent
ligand specificities, including progestin and adipoQ
receptors, and hence have been named PAQR proteins. The
mammalian members include progesterone binding
proteins. Unlike the case with GPCR receptor proteins,
the evolutionary ancestry of the members of this family
can be traced back to the Archaea.
Length = 207
Score = 26.8 bits (60), Expect = 6.7
Identities = 12/38 (31%), Positives = 16/38 (42%)
Query: 12 YQTTPSALKLCSDLYHTTPCLHHIKLLTRLRVVDNCEI 49
Y + L L S LYH C + LR +D+ I
Sbjct: 46 YGLSLFLLLLVSTLYHLFSCHSEGRAKYVLRKLDHSGI 83
>gnl|CDD|148769 pfam07349, DUF1478, Protein of unknown function (DUF1478). This
family consists of several hypothetical Sapovirus
proteins of around 165 residues in length. The function
of this family is unknown.
Length = 162
Score = 26.3 bits (58), Expect = 7.9
Identities = 9/27 (33%), Positives = 12/27 (44%)
Query: 14 TTPSALKLCSDLYHTTPCLHHIKLLTR 40
TT +L DLY P L ++R
Sbjct: 75 TTDCPRELILDLYRFIPTLTRTLRISR 101
>gnl|CDD|216579 pfam01573, Bromo_MP, Bromovirus movement protein.
Length = 276
Score = 26.9 bits (60), Expect = 8.4
Identities = 7/30 (23%), Positives = 10/30 (33%)
Query: 158 SMNVAKLLKFSRCSPLHFSPSYSHSSFRLQ 187
S +V L C+ L S + L
Sbjct: 25 SSSVMLNLPTKGCAALELKNSEAFQCLELV 54
>gnl|CDD|232912 TIGR00306, apgM, 2,3-bisphosphoglycerate-independent
phosphoglycerate mutase, archaeal form. Experimentally
characterized in archaea as
2,3-bisphosphoglycerate-independent phosphoglycerate
mutase. This model describes a set of proteins in the
Archaea (two each in Methanococcus jannaschii,
Methanobacterium thermoautotrophicum, and Archaeoglobus
fulgidus) and in Aquifex aeolicus (1 member) [Energy
metabolism, Glycolysis/gluconeogenesis].
Length = 396
Score = 26.7 bits (59), Expect = 8.8
Identities = 16/60 (26%), Positives = 21/60 (35%), Gaps = 8/60 (13%)
Query: 70 HIGTIGDKVLVAIKGEKKKGIIVGVKKHQKPHIPKTDTNNVVLIDDSGTPLGTRIHVPIP 129
H G KV EK IVG +T ++ D S TP+ + H P
Sbjct: 303 HDGDPELKVRAI---EKIDSKIVGPLLALDLD----ETRLILTADHS-TPVEVKDHSADP 354
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 0.395
Gapped
Lambda K H
0.267 0.0627 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,163,098
Number of extensions: 918034
Number of successful extensions: 803
Number of sequences better than 10.0: 1
Number of HSP's gapped: 797
Number of HSP's successfully gapped: 26
Length of query: 205
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 113
Effective length of database: 6,857,034
Effective search space: 774844842
Effective search space used: 774844842
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 (21.7 bits)
S2: 57 (26.0 bits)