RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 029774
(188 letters)
>gnl|CDD|178534 PLN02948, PLN02948, phosphoribosylaminoimidazole carboxylase.
Length = 577
Score = 106 bits (266), Expect = 5e-27
Identities = 42/79 (53%), Positives = 50/79 (63%)
Query: 108 DSTGKNDTPIVGIIMESDSDLPVMNDAARTLSDFGVPYEIKILSPHQNRKGALSYALSAK 167
TP+VGIIM SDSDLP M DAA L FGVPYE+ I+S H+ + SYA SA
Sbjct: 403 PDALPKGTPLVGIIMGSDSDLPTMKDAAEILDSFGVPYEVTIVSAHRTPERMFSYARSAH 462
Query: 168 ERGIKIIIVGDGVEAHLSG 186
RG+++II G G AHL G
Sbjct: 463 SRGLQVIIAGAGGAAHLPG 481
>gnl|CDD|144362 pfam00731, AIRC, AIR carboxylase. Members of this family catalyze
the decarboxylation of
1-(5-phosphoribosyl)-5-amino-4-imidazole-carboxylate
(AIR). This family catalyze the sixth step of de novo
purine biosynthesis. Some members of this family contain
two copies of this domain.
Length = 150
Score = 94.1 bits (235), Expect = 5e-25
Identities = 38/73 (52%), Positives = 50/73 (68%)
Query: 116 PIVGIIMESDSDLPVMNDAARTLSDFGVPYEIKILSPHQNRKGALSYALSAKERGIKIII 175
P VGIIM SDSDLP M AA+ L +FG+PYE++++S H+ + YA A+ RGIK+II
Sbjct: 1 PKVGIIMGSDSDLPTMEKAAKVLKEFGIPYEVRVVSAHRTPERLFEYAKEAEARGIKVII 60
Query: 176 VGDGVEAHLSGTL 188
G G AHL G +
Sbjct: 61 AGAGGAAHLPGMV 73
>gnl|CDD|214965 smart01001, AIRC, AIR carboxylase. Members of this family catalyse
the decarboxylation of
1-(5-phosphoribosyl)-5-amino-4-imidazole-carboxylate
(AIR). This family catalyse the sixth step of de novo
purine biosynthesis. Some members of this family contain
two copies of this domain.
Length = 152
Score = 93.8 bits (234), Expect = 8e-25
Identities = 39/71 (54%), Positives = 50/71 (70%)
Query: 116 PIVGIIMESDSDLPVMNDAARTLSDFGVPYEIKILSPHQNRKGALSYALSAKERGIKIII 175
P+VGIIM S SDLPVM +AA+TL +FG+PYE+ + S H+ YA A++RGIK+II
Sbjct: 1 PLVGIIMGSTSDLPVMEEAAKTLEEFGIPYEVGVASAHRTPDRLFEYAKEAEDRGIKVII 60
Query: 176 VGDGVEAHLSG 186
G G AHL G
Sbjct: 61 AGAGGAAHLPG 71
>gnl|CDD|223119 COG0041, PurE, Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase
[Nucleotide transport and metabolism].
Length = 162
Score = 93.1 bits (232), Expect = 2e-24
Identities = 36/73 (49%), Positives = 46/73 (63%)
Query: 114 DTPIVGIIMESDSDLPVMNDAARTLSDFGVPYEIKILSPHQNRKGALSYALSAKERGIKI 173
P VGIIM S SD M AA L +FGVPYE++++S H+ + YA A+ERG+K+
Sbjct: 1 MPPKVGIIMGSKSDWDTMKKAAEILEEFGVPYEVRVVSAHRTPEKMFEYAEEAEERGVKV 60
Query: 174 IIVGDGVEAHLSG 186
II G G AHL G
Sbjct: 61 IIAGAGGAAHLPG 73
>gnl|CDD|130230 TIGR01162, purE, phosphoribosylaminoimidazole carboxylase, PurE
protein. Phosphoribosylaminoimidazole carboxylase is a
fusion protein in plants and fungi, but consists of two
non-interacting proteins in bacteria, PurK and PurE.
This model represents PurK, an N5-CAIR mutase [Purines,
pyrimidines, nucleosides, and nucleotides, Purine
ribonucleotide biosynthesis].
Length = 156
Score = 87.3 bits (217), Expect = 4e-22
Identities = 39/69 (56%), Positives = 49/69 (71%)
Query: 118 VGIIMESDSDLPVMNDAARTLSDFGVPYEIKILSPHQNRKGALSYALSAKERGIKIIIVG 177
VGIIM SDSDLP M AA L +FG+PYE++++S H+ + L YA A+ERGIK+II G
Sbjct: 1 VGIIMGSDSDLPTMKKAADILEEFGIPYELRVVSAHRTPELMLEYAKEAEERGIKVIIAG 60
Query: 178 DGVEAHLSG 186
G AHL G
Sbjct: 61 AGGAAHLPG 69
>gnl|CDD|224605 COG1691, COG1691, NCAIR mutase (PurE)-related proteins [General
function prediction only].
Length = 254
Score = 32.0 bits (73), Expect = 0.12
Identities = 22/72 (30%), Positives = 33/72 (45%), Gaps = 8/72 (11%)
Query: 117 IVGIIMESDSDLPVMNDAARTLSDFGVP----YEIKILSPHQNRKGALSYALSAKERGIK 172
VG++ SDLPV +AA T + GV Y++ + H+ LS K
Sbjct: 119 KVGVLSAGTSDLPVAEEAAVTAEELGVEVQKVYDVGVAGIHR----LLSALKRLKIEDAD 174
Query: 173 IIIVGDGVEAHL 184
++IV G+E L
Sbjct: 175 VLIVVAGMEGAL 186
>gnl|CDD|233074 TIGR00655, PurU, formyltetrahydrofolate deformylase. This model
describes formyltetrahydrofolate deformylases. The
enzyme is a homohexamer. Sequences from a related enzyme
formyl tetrahydrofolate-specific enzyme,
phosphoribosylglycinamide formyltransferase, serve as an
outgroup for phylogenetic analysis. Putative members of
this family, scoring below the trusted cutoff, include a
sequence from Rhodobacter capsulatus that lacks an
otherwise conserved C-terminal region [Purines,
pyrimidines, nucleosides, and nucleotides, Purine
ribonucleotide biosynthesis].
Length = 280
Score = 31.2 bits (71), Expect = 0.24
Identities = 27/89 (30%), Positives = 41/89 (46%), Gaps = 10/89 (11%)
Query: 100 FEEENANGDSTGKNDTPIVGIIMESDSDLPVMNDAARTLS-DFGVPYEIKILSPHQNR-- 156
F A D+ +++ + ++ + DL V+ + LS DF Y KI++ H +
Sbjct: 135 FHYIPATKDNRVEHEKRQLELLKQYQVDLVVLAKYMQILSPDFVKRYPNKIINIHHSFLP 194
Query: 157 --KGALSYALSAKERGIKIIIVGDGVEAH 183
GA Y A ERG+KII G AH
Sbjct: 195 AFIGANPYQ-RAYERGVKII----GATAH 218
>gnl|CDD|178528 PLN02940, PLN02940, riboflavin kinase.
Length = 382
Score = 28.6 bits (64), Expect = 2.2
Identities = 20/68 (29%), Positives = 29/68 (42%), Gaps = 1/68 (1%)
Query: 115 TPIVGIIMESDSDLPVMNDAARTLSDFGVPYEIKILSPHQNRKGALSYALSAKERGIKII 174
TP++ + LP N + L GVP + SP N + +S KE +I
Sbjct: 82 TPLLSEQWCNIKALPGANRLIKHLKSHGVPMALASNSPRANIEAKISCHQGWKE-SFSVI 140
Query: 175 IVGDGVEA 182
+ GD VE
Sbjct: 141 VGGDEVEK 148
>gnl|CDD|197223 cd09124, PLDc_like_TrmB_middle, Middle phospholipase D-like domain
of the transcriptional regulator TrmB and similar
proteins. Middle phospholipase D (PLD)-like domain of
the transcriptional regulator TrmB and similar proteins.
TrmB acts as a bifunctional sugar-sensing
transcriptional regulator which controls two operons
encoding maltose/trehalose and maltodextrin ABC
transporters of Pyrococcus fruiosus. It functions as a
dimer. Full length TrmB includes an N-terminal
DNA-binding domain, a C-terminal sugar-binding domain
and middle region that has been named as a PLD-like
domain. The middle domain displays homology to PLD
enzymes, which contain one or two HKD motifs
(H-x-K-x(4)-D, where x represents any amino acid
residue) per chain. The HKD motif characterizes the PLD
superfamily. Due to the lack of key residues related to
PLD activity in the PLD-like domain, members of this
subfamily are unlikely to carry PLD activity.
Length = 126
Score = 27.7 bits (62), Expect = 2.4
Identities = 11/32 (34%), Positives = 17/32 (53%)
Query: 145 YEIKILSPHQNRKGALSYALSAKERGIKIIIV 176
EI I P + + L A ERG+K++I+
Sbjct: 24 EEIYISLPSEELEELLEELEKAAERGVKVVII 55
>gnl|CDD|223859 COG0788, PurU, Formyltetrahydrofolate hydrolase [Nucleotide
transport and metabolism].
Length = 287
Score = 28.3 bits (64), Expect = 2.5
Identities = 23/69 (33%), Positives = 34/69 (49%), Gaps = 10/69 (14%)
Query: 120 IIMESDSDLPVMNDAARTLS-DFGVPYEIKILSPHQNR----KGALSYALSAKERGIKII 174
++ E +DL V+ + LS DF + KI++ H + GA Y A ERG+K+I
Sbjct: 161 LLEEYGADLVVLARYMQILSPDFVERFPGKIINIHHSFLPAFIGANPYH-QAYERGVKLI 219
Query: 175 IVGDGVEAH 183
G AH
Sbjct: 220 ----GATAH 224
>gnl|CDD|205719 pfam13541, ChlI, Subunit ChlI of Mg-chelatase.
Length = 121
Score = 27.0 bits (61), Expect = 3.2
Identities = 10/20 (50%), Positives = 15/20 (75%)
Query: 157 KGALSYALSAKERGIKIIIV 176
+GAL AL+A++ G K +IV
Sbjct: 98 RGALPIALAARKLGFKGLIV 117
>gnl|CDD|197753 smart00481, POLIIIAc, DNA polymerase alpha chain like domain. DNA
polymerase alpha chain like domain, incl. family of
hypothetical proteins.
Length = 67
Score = 26.1 bits (58), Expect = 3.7
Identities = 18/58 (31%), Positives = 29/58 (50%), Gaps = 6/58 (10%)
Query: 125 DSDLPVMNDAARTLSDFGVPYEIKILSPHQNRKGALSYALSAKERGIKIIIVGDGVEA 182
D L + + + G+ I ++ H N GA+ + +AK+ GIK II G+EA
Sbjct: 12 DGALSPE-ELVKRAKELGLKA-I-AITDHGNLFGAVEFYKAAKKAGIKPII---GLEA 63
>gnl|CDD|239152 cd02751, MopB_DMSOR-like, The MopB_DMSOR-like CD contains
dimethylsulfoxide reductase (DMSOR), biotin sulfoxide
reductase (BSOR), trimethylamine N-oxide reductase
(TMAOR) and other related proteins. DMSOR catalyzes the
reduction of DMSO to dimethylsulfide, but its cellular
location and oligomerization state are
organism-dependent. For example, in Rhodobacter
sphaeriodes and Rhodobacter capsulatus, it is an 82-kDa
monomeric soluble protein found in the periplasmic
space; in E. coli, it is membrane-bound and exists as a
heterotrimer. BSOR catalyzes the reduction of biotin
sulfixode to biotin, and is unique among Mo enzymes
because no additional auxiliary proteins or cofactors
are required. TMAOR is similar to DMSOR, but its only
natural substrate is TMAO. Also included in this group
is the pyrogallol-phloroglucinol transhydroxylase from
Pelobacter acidigallici. Members of the MopB_DMSOR-like
CD belong to the molybdopterin_binding (MopB)
superfamily of proteins.
Length = 609
Score = 28.0 bits (63), Expect = 3.7
Identities = 21/115 (18%), Positives = 39/115 (33%), Gaps = 26/115 (22%)
Query: 69 SQGTIPVLASSNGSATSTRKDYSS----VREPSTVFEEENANGDSTGKNDTPIVGIIMES 124
+Q + + G + YS+ V P V +E ++ + +
Sbjct: 117 AQSLLHRFLNLIGGYLGSYGTYSTGAAQVILPHVVGSDEVYEQGTSWDD--------IAE 168
Query: 125 DSDLPVM--NDAARTL-SDFGVPYEIKILSPHQNRKGALSYALSAKERGIKIIIV 176
SDL V+ + +T G P G+ Y AK+ G++ I +
Sbjct: 169 HSDLVVLFGANPLKTRQGGGGGP-----------DHGSYYYLKQAKDAGVRFICI 212
>gnl|CDD|215357 PLN02665, PLN02665, pectinesterase family protein.
Length = 366
Score = 27.7 bits (62), Expect = 4.0
Identities = 17/53 (32%), Positives = 23/53 (43%), Gaps = 5/53 (9%)
Query: 124 SDSDLPVMNDAARTLSDFGVPYEIKILSPHQNRKGALSYALSAKERGIKIIIV 176
SD P+ D ++ F + P+ RKG L AL A E +II V
Sbjct: 25 SDDTTPIPADKSQLNQWFQ-----ANVKPYAQRKGTLDPALEAAEAAPRIIKV 72
>gnl|CDD|200477 cd11338, AmyAc_CMD, Alpha amylase catalytic domain found in
cyclomaltodextrinases and related proteins.
Cyclomaltodextrinase (CDase; EC3.2.1.54), neopullulanase
(NPase; EC 3.2.1.135), and maltogenic amylase (MA; EC
3.2.1.133) catalyze the hydrolysis of alpha-(1,4)
glycosidic linkages on a number of substrates including
cyclomaltodextrins (CDs), pullulan, and starch. These
enzymes hydrolyze CDs and starch to maltose and pullulan
to panose by cleavage of alpha-1,4 glycosidic bonds
whereas alpha-amylases essentially lack activity on CDs
and pullulan. They also catalyze transglycosylation of
oligosaccharides to the C3-, C4- or C6-hydroxyl groups
of various acceptor sugar molecules. Since these
proteins are nearly indistinguishable from each other,
they are referred to as cyclomaltodextrinases (CMDs).
The Alpha-amylase family comprises the largest family of
glycoside hydrolases (GH), with the majority of enzymes
acting on starch, glycogen, and related oligo- and
polysaccharides. These proteins catalyze the
transformation of alpha-1,4 and alpha-1,6 glucosidic
linkages with retention of the anomeric center. The
protein is described as having 3 domains: A, B, C. A is
a (beta/alpha) 8-barrel; B is a loop between the beta 3
strand and alpha 3 helix of A; C is the C-terminal
extension characterized by a Greek key. The majority of
the enzymes have an active site cleft found between
domains A and B where a triad of catalytic residues
(Asp, Glu and Asp) performs catalysis. Other members of
this family have lost the catalytic activity as in the
case of the human 4F2hc, or only have 2 residues that
serve as the catalytic nucleophile and the acid/base,
such as Thermus A4 beta-galactosidase with 2 Glu
residues (GH42) and human alpha-galactosidase with 2 Asp
residues (GH31). The family members are quite extensive
and include: alpha amylase, maltosyltransferase,
cyclodextrin glycotransferase, maltogenic amylase,
neopullulanase, isoamylase, 1,4-alpha-D-glucan
maltotetrahydrolase, 4-alpha-glucotransferase,
oligo-1,6-glucosidase, amylosucrase, sucrose
phosphorylase, and amylomaltase.
Length = 389
Score = 27.4 bits (62), Expect = 4.4
Identities = 8/15 (53%), Positives = 12/15 (80%), Gaps = 2/15 (13%)
Query: 166 AKERGIKIIIVGDGV 180
A +RGI++I+ DGV
Sbjct: 112 AHKRGIRVIL--DGV 124
>gnl|CDD|224409 COG1492, CobQ, Cobyric acid synthase [Coenzyme metabolism].
Length = 486
Score = 27.6 bits (62), Expect = 4.8
Identities = 12/27 (44%), Positives = 15/27 (55%), Gaps = 4/27 (14%)
Query: 166 AKERGIKIIIVGD----GVEAHLSGTL 188
A+ +I+VGD GV A L GTL
Sbjct: 153 AEIADAPVILVGDIDRGGVFASLYGTL 179
>gnl|CDD|237105 PRK12457, PRK12457, 2-dehydro-3-deoxyphosphooctonate aldolase;
Provisional.
Length = 281
Score = 27.4 bits (61), Expect = 5.0
Identities = 21/73 (28%), Positives = 30/73 (41%), Gaps = 5/73 (6%)
Query: 106 NGDSTGKNDTPIV---GI-IMES-DSDLPVMNDAARTLSDFGVPYEIKILSPHQNRKGAL 160
+ T ND P V GI ++ES D L V + G+P+ K NR
Sbjct: 6 SPGITVGNDLPFVLFGGINVLESLDFTLDVCGEYVEVTRKLGIPFVFKASFDKANRSSIH 65
Query: 161 SYALSAKERGIKI 173
SY + G++I
Sbjct: 66 SYRGVGLDEGLRI 78
>gnl|CDD|223840 COG0769, MurE, UDP-N-acetylmuramyl tripeptide synthase [Cell
envelope biogenesis, outer membrane].
Length = 475
Score = 27.3 bits (61), Expect = 5.6
Identities = 22/87 (25%), Positives = 36/87 (41%), Gaps = 10/87 (11%)
Query: 104 NANGDSTGKNDTPIVGIIMESDSDLPVMN-------DAARTLSD--FGVPYEIKILSPHQ 154
G K+ P +G I E +D+ ++ D A L+D G+ K
Sbjct: 365 FGCGGDRDKSKRPDMGAIAEQLADIVIVTSDNPRSEDPAVILADILAGIEAPEKYEIIE- 423
Query: 155 NRKGALSYALSAKERGIKIIIVGDGVE 181
+R+ A+ AL + G ++I G G E
Sbjct: 424 DREEAIRKALDLAKEGDVVLIAGKGHE 450
>gnl|CDD|227396 COG5064, SRP1, Karyopherin (importin) alpha [Intracellular
trafficking and secretion].
Length = 526
Score = 27.2 bits (60), Expect = 5.7
Identities = 23/81 (28%), Positives = 38/81 (46%), Gaps = 15/81 (18%)
Query: 68 VSQGTIPVLASSNGSATSTRKDYSSVREPSTVFEEENANGDSTGKND--------TPIVG 119
V G +P+ +ST D VRE + V+ N GDS G D P++G
Sbjct: 154 VDAGAVPLFIQL---LSSTEDD---VREQA-VWALGNIAGDSEGCRDYVLQCGALEPLLG 206
Query: 120 IIMESDSDLPVMNDAARTLSD 140
+++ S + ++ +A TLS+
Sbjct: 207 LLLSSAIHISMLRNATWTLSN 227
>gnl|CDD|238920 cd01945, ribokinase_group_B, Ribokinase-like subgroup B. Found in
bacteria and plants, this subgroup is part of the
ribokinase/pfkB superfamily. Its oligomerization state
is unknown at this time. .
Length = 284
Score = 26.9 bits (60), Expect = 6.1
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 158 GALSYALSAKERGIKIIIVGDG 179
AL A A+ RGI I + DG
Sbjct: 139 AALHLAQEARARGIPIPLDLDG 160
>gnl|CDD|233039 TIGR00594, polc, DNA-directed DNA polymerase III (polc). All
proteins in this family for which functions are known
are DNA polymerases. This family is based on the
phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis,
Stanford University) [DNA metabolism, DNA replication,
recombination, and repair].
Length = 1022
Score = 27.3 bits (61), Expect = 6.4
Identities = 14/34 (41%), Positives = 20/34 (58%), Gaps = 3/34 (8%)
Query: 150 LSPHQNRKGALSYALSAKERGIKIIIVGDGVEAH 183
L+ H N GA+ + + K+ GIK II G EA+
Sbjct: 36 LTDHGNMFGAVEFYKACKKAGIKPII---GCEAY 66
>gnl|CDD|180306 PRK05889, PRK05889, putative acetyl-CoA carboxylase biotin carboxyl
carrier protein subunit; Provisional.
Length = 71
Score = 25.5 bits (56), Expect = 6.7
Identities = 16/48 (33%), Positives = 26/48 (54%), Gaps = 4/48 (8%)
Query: 97 STVFEEENANGDSTGKNDTPIVGIIMES-DSDLPVMNDAARTLSDFGV 143
++V E GD GK DT +++ES ++PV+ + A T+S V
Sbjct: 11 ASVLEVVVNEGDQIGKGDTL---VLLESMKMEIPVLAEVAGTVSKVSV 55
>gnl|CDD|129465 TIGR00368, TIGR00368, Mg chelatase-related protein. The N-terminal
end matches very strongly a pfam Mg_chelatase domain
[Unknown function, General].
Length = 499
Score = 27.1 bits (60), Expect = 6.9
Identities = 19/67 (28%), Positives = 31/67 (46%), Gaps = 7/67 (10%)
Query: 111 GKNDTPI-VGIIMESDSDLPVMNDAARTLSDFGVPYEIKILSPHQNRKGALSYALSAKER 169
G+ D PI +GI+ S+ A+ L ++ E+ + + KG L A++
Sbjct: 74 GRFDLPIAIGILAASEQL------DAKNLGEYLFLGELALDGKLRGIKGVLPAIALAQKS 127
Query: 170 GIKIIIV 176
G K IIV
Sbjct: 128 GRKFIIV 134
>gnl|CDD|107205 cd01562, Thr-dehyd, Threonine dehydratase: The first step in amino
acid degradation is the removal of nitrogen. Although
the nitrogen atoms of most amino acids are transferred
to alpha-ketoglutarate before removal, the alpha-amino
group of threonine can be directly converted into NH4+.
The direct deamination is catalyzed by threonine
dehydratase, in which pyridoxal phosphate (PLP) is the
prosthetic group. Threonine dehydratase is widely
distributed in all three major phylogenetic divisions.
Length = 304
Score = 26.7 bits (60), Expect = 7.4
Identities = 12/36 (33%), Positives = 14/36 (38%), Gaps = 9/36 (25%)
Query: 150 LSPHQNRKG---------ALSYALSAKERGIKIIIV 176
LS + KG A A +AK GI IV
Sbjct: 59 LSEEERAKGVVAASAGNHAQGVAYAAKLLGIPATIV 94
>gnl|CDD|143587 cd07197, nitrilase, Nitrilase superfamily, including nitrile- or
amide-hydrolyzing enzymes and amide-condensing enzymes.
This superfamily (also known as the C-N hydrolase
superfamily) contains hydrolases that break
carbon-nitrogen bonds; it includes nitrilases, cyanide
dihydratases, aliphatic amidases, N-terminal amidases,
beta-ureidopropionases, biotinidases, pantotheinase,
N-carbamyl-D-amino acid amidohydrolases, the glutaminase
domain of glutamine-dependent NAD+ synthetase,
apolipoprotein N-acyltransferases, and
N-carbamoylputrescine amidohydrolases, among others.
These enzymes depend on a Glu-Lys-Cys catalytic triad,
and work through a thiol acylenzyme intermediate.
Members of this superfamily generally form homomeric
complexes, the basic building block of which is a
homodimer. These oligomers include dimers, tetramers,
hexamers, octamers, tetradecamers, octadecamers, as well
as variable length helical arrangements and
homo-oligomeric spirals. These proteins have roles in
vitamin and co-enzyme metabolism, in detoxifying small
molecules, in the synthesis of signaling molecules, and
in the post-translational modification of proteins. They
are used industrially, as biocatalysts in the fine
chemical and pharmaceutical industry, in cyanide
remediation, and in the treatment of toxic effluent.
This superfamily has been classified previously in the
literature, based on global and structure-based sequence
analysis, into thirteen different enzyme classes
(referred to as 1-13). This hierarchy includes those
thirteen classes and a few additional subfamilies. A
putative distant relative, the plasmid-borne TraB
family, has not been included in the hierarchy.
Length = 253
Score = 26.5 bits (59), Expect = 7.6
Identities = 12/41 (29%), Positives = 17/41 (41%), Gaps = 3/41 (7%)
Query: 146 EIKILSPHQNRKGALSYALSAKERGIKIIIVGDGVEAHLSG 186
KI N AL A E+G +I++ E L+G
Sbjct: 7 APKIGDVEANLAKALRLIKEAAEQGADLIVLP---ELFLTG 44
>gnl|CDD|235404 PRK05319, rplD, 50S ribosomal protein L4; Provisional.
Length = 205
Score = 26.2 bits (59), Expect = 9.7
Identities = 9/21 (42%), Positives = 14/21 (66%)
Query: 156 RKGALSYALSAKERGIKIIIV 176
R+ AL ALS K R ++++V
Sbjct: 105 RRLALRSALSEKAREGRLVVV 125
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 0.132 0.367
Gapped
Lambda K H
0.267 0.0817 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,125,626
Number of extensions: 808382
Number of successful extensions: 926
Number of sequences better than 10.0: 1
Number of HSP's gapped: 924
Number of HSP's successfully gapped: 40
Length of query: 188
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 97
Effective length of database: 6,901,388
Effective search space: 669434636
Effective search space used: 669434636
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: 56 (25.2 bits)