RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy652
(331 letters)
>gnl|CDD|217464 pfam03265, DNase_II, Deoxyribonuclease II.
Length = 324
Score = 218 bits (557), Expect = 3e-69
Identities = 104/311 (33%), Positives = 159/311 (51%), Gaps = 30/311 (9%)
Query: 21 QWTLSKYSVSDPASLPGKILSPYLFNASYAPEFSADGVKILYNDQTPIRTTV-KFGHSKG 79
W LS Y+++D S G+ L+ +++ + +LYNDQ P + GH+KG
Sbjct: 41 TWKLSAYNINDTESALGRTLAQLYPSSN-----KNNTAYLLYNDQPPNSSYSSDRGHTKG 95
Query: 80 LVVGNSRGGIWIVHSVPHF-VDDSQTSYTYPHTGLMYGQNFLCLSLNASQLDSVGDNLGH 138
+++ + G W+VHSVP F S +Y+YP +G YGQ+FLC+SL+ QL+++ L +
Sbjct: 96 VLLWDKEQGFWLVHSVPRFPPLPSLGNYSYPSSGTKYGQHFLCISLSYEQLNAIAKQLIY 155
Query: 139 NQIYKYSTFLSAGNKGVFPTLARVIAGEYATSGDNFFQSTIFTRFNQIPFHTFAKTRELG 198
N+ YS L + P L +++ G F S T F +FAK+ +
Sbjct: 156 NEPNVYSCNLPSAFANQLPNLQQLVNGSSVIETP-FNSSVTLTSLKGQKFKSFAKSGKFS 214
Query: 199 DDLYKR-ISDNLNVNLLVETWPNGPGRLRTDCESPAHEVMNVEGVALSGVVEFRSTHDHA 257
DD+Y ++ L VNLLVETW G G L ++C P V NV+ + + G +F T DH+
Sbjct: 215 DDIYSDWLAPTLKVNLLVETWQRGAGILPSNCSGPYK-VYNVKPITVDGP-QFSRTKDHS 272
Query: 258 KWTISFGNETRSNLNQDSISKHKTDGARHFVCNGDINRAEDQLKRGGGSVCIDNEALWSL 317
KW +S + + +VC GDINR Q KRGGG+VCI N ++
Sbjct: 273 KWAVS-------------------ESGKPWVCIGDINRQTTQAKRGGGTVCIQNANVYKA 313
Query: 318 YHSIISAVEPC 328
+ ++ EPC
Sbjct: 314 FRKSVTNYEPC 324
>gnl|CDD|197220 cd09121, PLDc_DNaseII_2, Catalytic domain, repeat 2, of
Deoxyribonuclease II and similar proteins. Catalytic
domain, repeat 2, of Deoxyribonuclease II (DNase II, EC
3.1.22.1), an endodeoxyribonuclease with ubiquitous
tissue distribution. It is essential for accessory
apoptotic DNA fragmentation and DNA clearance during
development, as well as in tissue regeneration in higher
eukaryotes. Unlike the majority of nucleases, DNase II
functions optimally at acidic pH in the absence of
divalent metal ion cofactors. It hydrolyzes the
phosphodiester backbone of DNA by a single strand
cleavage mechanism to generate 3'-phosphate termini. The
majority of family members contain an N-terminal
signal-peptide leader sequence, which is critical for
N-glycosylation and DNase II activity. DNase II is a
monomeric nuclease that contains two copies of a variant
HKD motif, where the aspartic acid residue is not
conserved. The HKD motif (H-x-K-x(4)-D, where x
represents any amino acid residue) characterizes the
phospholipase D (PLD, EC 3.1.4.4) superfamily. The
catalytic center of DNase II is formed by the two
variant HKD motifs from the N- and C-terminal domains in
a pseudodimeric way. Members of this family are mainly
found in metazoans, and vertebrate proteins have been
further classified into DNase II alpha and beta (also
known as DNase II-like acid DNase, DLAD) subtypes. A few
homologs are found in non-metazoan species, but none are
found in fungi, plants or prokaryotes, with the sole
exception of Burkholderia pseudomallei. Among those
homologs, the Caenorhabditis elegans C07B5.5 ORF
encoding NUC-1 apoptotic nuclease, the uncharacterized
C. elegans crn-6 (cell death related nuclease) gene
encoding protein, and the putative gene CG7780 encoding
Drosophila DNase II (dDNase II) have similar cleavage
activity and specificity to mammalian DNase II enzymes.
They may function like an acid DNase implicated in
degrading DNA from apoptotic cells engulfed by
macrophages. Plancitoxin I, the major lethal factor from
the Acanthaster planci venom, is a unique homolog of
mammalian DNase II. It has potent hepatotoxicity and the
optimum pH for its activity is 7.2, unlike the optimum
acidic PH for mammalian DNase II. Some members of this
family contain substitutions of conserved residues found
in the putative active site, which suggest that these
proteins may have diverged from the canonical DNase II
activity and may perform other functions.
Length = 139
Score = 146 bits (370), Expect = 1e-43
Identities = 59/153 (38%), Positives = 83/153 (54%), Gaps = 20/153 (13%)
Query: 177 STIFTRFNQIPFHTFAKTRELGDDLYKR-ISDNLNVNLLVETWPNGPGRLRTDCESPAHE 235
S + F +FAK+ + G DLY ++ L +LLVETW G G L +DC S ++
Sbjct: 6 SLELKSLGGVSFTSFAKSSKWGKDLYSDLVAPTLKTDLLVETWRGGGGNLPSDCSSK-YK 64
Query: 236 VMNVEGVALSGVVEFRSTHDHAKWTISFGNETRSNLNQDSISKHKTDGARHFVCNGDINR 295
V NV+ ++L G + F+ST DH+KW +S D ++ +VC GDINR
Sbjct: 65 VYNVKSISLPGDIAFKSTKDHSKWAVS------------------VDSSKPWVCIGDINR 106
Query: 296 AEDQLKRGGGSVCIDNEALWSLYHSIISAVEPC 328
E Q KRGGG+VC N+ LW + + VEPC
Sbjct: 107 QESQFKRGGGTVCFKNKKLWKAFRKSVIDVEPC 139
>gnl|CDD|197219 cd09120, PLDc_DNaseII_1, Catalytic domain, repeat 1, of
Deoxyribonuclease II and similar proteins. Catalytic
domain, repeat 1, of Deoxyribonuclease II (DNase II, EC
3.1.22.1), an endodeoxyribonuclease with ubiquitous
tissue distribution. It is essential for accessory
apoptotic DNA fragmentation and DNA clearance during
development, as well as in tissue regeneration in higher
eukaryotes. Unlike the majority of nucleases, DNase II
functions optimally at acidic pH in the absence of
divalent metal ion cofactors. It hydrolyzes the
phosphodiester backbone of DNA by a single strand
cleavage mechanism to generate 3'-phosphate termini. The
majority of family members contain an N-terminal
signal-peptide leader sequence, which is critical for
N-glycosylation and DNase II activity. DNase II is a
monomeric nuclease that contains two copies of a variant
HKD motif, where the aspartic acid residue is not
conserved. The HKD motif (H-x-K-x(4)-D, where x
represents any amino acid residue) characterizes the
phospholipase D (PLD, EC 3.1.4.4) superfamily. The
catalytic center of DNase II is formed by the two
variant HKD motifs from the N- and C-terminal domains in
a pseudodimeric way. Members of this family are mainly
found in metazoans, and vertebrate proteins have been
further classified into DNase II alpha and beta (also
known as DNase II-like acid DNase, DLAD) subtypes. A few
homologs are found in non-metazoan species, but none are
found in fungi, plants or prokaryotes, with the sole
exception of Burkholderia pseudomallei. Among those
homologs, the Caenorhabditis elegans C07B5.5 ORF
encoding NUC-1 apoptotic nuclease, the uncharacterized
C. elegans crn-6 (cell death related nuclease) gene
encoding protein, and the putative gene CG7780 encoding
Drosophila DNase II (dDNase II) have similar cleavage
activity and specificity to mammalian DNase II enzymes.
They may function like an acid DNase implicated in
degrading DNA from apoptotic cells engulfed by
macrophages. Plancitoxin I, the major lethal factor from
the Acanthaster planci venom, is a unique homolog of
mammalian DNase II. It has potent hepatotoxicity and the
optimum pH for its activity is 7.2, unlike the optimum
acidic PH for mammalian DNase II. Some members of this
family contain substitutions of conserved residues found
in the putative active site, which suggest that these
proteins may have diverged from a canonical DNase II
activity and may perform other functions.
Length = 141
Score = 95.4 bits (238), Expect = 4e-24
Identities = 41/109 (37%), Positives = 62/109 (56%), Gaps = 7/109 (6%)
Query: 17 VNTLQWTLSKYSVSDPASLPGKILSPYLFNASYAPEFSADGVKILYNDQTPIRTT-VKFG 75
+W LS +++D S G+ L+ + + + +LYNDQ P T+ G
Sbjct: 39 STNGEWQLSLDNINDNNSALGRTLAQIYDS------NKENILYVLYNDQPPNGTSSSSRG 92
Query: 76 HSKGLVVGNSRGGIWIVHSVPHFVDDSQTSYTYPHTGLMYGQNFLCLSL 124
H+KG+V ++ G W+VHSVP F ++ SY+YP TG YGQ+FLC+SL
Sbjct: 93 HAKGVVAFDNTSGFWLVHSVPKFPPLAEKSYSYPSTGTKYGQHFLCVSL 141
>gnl|CDD|197287 cd09191, PLDc_DNaseII_alpha_2, Catalytic domain, repeat 2, of
Deoxyribonuclease II alpha and similar proteins.
Catalytic domain, repeat 2, of Deoxyribonuclease II
alpha (DNase II alpha, EC 3.1.22.1) and similar
proteins. DNase II is a monomeric nuclease that contains
two copies of a variant HKD motif, where the aspartic
acid residue is not conserved. The HKD motif
(H-x-K-x(4)-D, where x represents any amino acid
residue) characterizes the phospholipase D (PLD, EC
3.1.4.4) superfamily. The catalytic center of DNase II
is formed by the two variant HKD motifs from the N- and
C-terminal domains in a pseudodimeric way. Members of
this family are mainly found in metazoans, and
vertebrate proteins have been further classified into
DNase II alpha and beta. DNase II alpha is an acidic
endonuclease found in lysosomes, nuclei, and various
secretions. It plays a critical role in the degradation
of nuclear DNA expelled from erythroid precursor cells,
as well as in the degradation of the apoptotic DNA after
macrophages engulf them. It cleaves double-stranded DNA
to short 3'-phosphoryl oligonucleotides, rather than
3'-hydroxyl groups, and functions optimally at acidic pH
in the absence of divalent metal ion cofactors.
Length = 137
Score = 88.8 bits (220), Expect = 1e-21
Identities = 43/142 (30%), Positives = 70/142 (49%), Gaps = 22/142 (15%)
Query: 188 FHTFAKTRELGDDLYKR-ISDNLNVNLLVETWPNGPGRLRTDCESPAHEVMNVEGVALSG 246
F +FAK GDDLY ++ L +LLV+ W G L ++C +V++V +
Sbjct: 17 FISFAKGASFGDDLYSGWVAPALQSDLLVQFWVRSTGVLPSNCSLG-WKVLDVTRINFPK 75
Query: 247 VVEFRSTHDHAKWTISFGNETRSNLNQDSISKHKTDGARHFVCNGDINRAEDQLKRGGGS 306
F+S+ DH+KW +S A +VC GD+NR + +RGGG+
Sbjct: 76 TSSFKSSQDHSKWCVS-------------------TKA-GWVCVGDMNRNMAEEQRGGGT 115
Query: 307 VCIDNEALWSLYHSIISAVEPC 328
VC+ + A+W + +++ E C
Sbjct: 116 VCLRDPAVWKAFRTLVVDYEDC 137
>gnl|CDD|197288 cd09192, PLDc_DNaseII_beta_2, Catalytic domain, repeat 2, of
Deoxyribonuclease II beta and similar proteins.
Catalytic domain, repeat 2, of Deoxyribonuclease II beta
(DNase II beta, EC 3.1.22.1), also known as DNase
II-like acid DNase (DLAD), and similar proteins. DNase
II is a monomeric nuclease that contains two copies of a
variant HKD motif, where the aspartic acid residue is
not conserved. The HKD motif (H-x-K-x(4)-D, where x
represents any amino acid residue) characterizes the
phospholipase D (PLD, EC 3.1.4.4) superfamily. The
catalytic center of DNase II is formed by the two
variant HKD motifs from the N- and C-terminal domains in
a pseudodimeric way. Members of this family are mainly
found in metazoans, and vertebrate proteins have been
further classified into DNase II alpha and beta. DNase
II beta, or DLAD, is a novel mammalian divalent
cation-independent endonuclease with homology to DNase
II alpha. It is highly expressed in the eye lens and in
salivary glands and is responsible for the degradation
of nuclear DNA during lens cell differentiation. DLAD
mainly exists as a cytoplasmic protein and cleaves DNA
to produce 3'-phosphoryl/5'-hydroxyl ends. Like DNase II
alpha, DLAD is active under acidic conditions with
maximum activity at pH 5.2. Aurintricarboxylic acid and
Zn2+ are effective inhibitors of DLAD activity. Mice
deficient in DLAD develop cataracts as they are unable
to degrade DNA during differentiation of the lens cells.
Length = 139
Score = 81.8 bits (202), Expect = 4e-19
Identities = 40/142 (28%), Positives = 70/142 (49%), Gaps = 20/142 (14%)
Query: 188 FHTFAKTRELGDDLYKR-ISDNLNVNLLVETWPNGPGRLRTDCESPAHEVMNVEGVALSG 246
F FAK++ DD++ ++ L +LLVETW + L ++C P H V N+ + L G
Sbjct: 17 FLHFAKSKYFVDDIFTAWVAQKLKTDLLVETWQHKGQELPSNCSLPYH-VYNINRIGLPG 75
Query: 247 VVEFRSTHDHAKWTISFGNETRSNLNQDSISKHKTDGARHFVCNGDINRAEDQLKRGGGS 306
+ F S +DH+KW +S + + + C GD+NR+ +Q R GG
Sbjct: 76 LSTFSSRYDHSKWCVSQKFKDQ------------------WTCIGDLNRSPEQAWRSGGF 117
Query: 307 VCIDNEALWSLYHSIISAVEPC 328
+C N+ ++ + ++ + C
Sbjct: 118 ICTQNKHIYKAFRKLVLYYKSC 139
>gnl|CDD|197285 cd09189, PLDc_DNaseII_alpha_1, Catalytic domain, repeat 1, of
Deoxyribonuclease II alpha and similar proteins.
Catalytic domain, repeat 1, of Deoxyribonuclease II
alpha (DNase II alpha, EC 3.1.22.1) and similar
proteins. DNase II is a monomeric nuclease that contains
two copies of a variant HKD motif, where the aspartic
acid residue is not conserved. The HKD motif
(H-x-K-x(4)-D, where x represents any amino acid
residue) characterizes the phospholipase D (PLD, EC
3.1.4.4) superfamily. The catalytic center of DNase II
is formed by the two variant HKD motifs from the N- and
C-terminal domains in a pseudodimeric way. Members of
this family are mainly found in metazoans, and
vertebrate proteins have been further classified into
DNase II alpha and beta. DNase II alpha is an acidic
endonuclease found in lysosomes, nuclei, and various
secretions. It plays a critical role in the degradation
of nuclear DNA expelled from erythroid precursor cells,
as well as in the degradation of the apoptotic DNA after
macrophages engulf them. It cleaves double-stranded DNA
to short 3'-phosphoryl oligonucleotides, rather than
3'-hydroxyl groups, and functions optimally at acidic pH
in the absence of divalent metal ion cofactors.
Length = 162
Score = 78.0 bits (192), Expect = 2e-17
Identities = 39/141 (27%), Positives = 61/141 (43%), Gaps = 22/141 (15%)
Query: 1 MLLGSESRQERDKQSTVNTLQWTLSKYSVSDPASLPGKILSPYLFNASYAPEFSADGVKI 60
+ L S + Q VN G+ + Y+ + + I
Sbjct: 37 LYLDKSSGGWSNGQGLVN------------STTGAVGRTVGQL-----YSQGKNTERAYI 79
Query: 61 LYNDQTP----IRTTVKFGHSKGLVVGNSRGGIWIVHSVPHFVD-DSQTSYTYPHTGLMY 115
LYNDQ P + GH+KG+++ + G W+VHS PHF + Y +PH+ L+
Sbjct: 80 LYNDQPPTVSLTDSGSSRGHTKGVLLLDKHQGFWLVHSTPHFPPPAKEGQYYWPHSALIN 139
Query: 116 GQNFLCLSLNASQLDSVGDNL 136
GQNFLC++ Q ++G L
Sbjct: 140 GQNFLCVTYPLEQFQTIGKQL 160
>gnl|CDD|197286 cd09190, PLDc_DNaseII_beta_1, Catalytic domain, repeat 1, of
Deoxyribonuclease II beta and similar proteins.
Catalytic domain, repeat 1, of Deoxyribonuclease II beta
(DNase II beta, EC 3.1.22.1), also known as DNase
II-like acid DNase (DLAD), and similar proteins. DNase
II is a monomeric nuclease that contains two copies of a
variant HKD motif, where the aspartic acid residue is
not conserved. The HKD motif (H-x-K-x(4)-D, where x
represents any amino acid residue) characterizes the
phospholipase D (PLD, EC 3.1.4.4) superfamily. The
catalytic center of DNase II is formed by the two
variant HKD motifs from the N- and C-terminal domains in
a pseudodimeric way. Members of this family are mainly
found in metazoans, and vertebrate proteins have been
further classified into DNase II alpha and beta. DNase
II beta, or DLAD, is a novel mammalian divalent
cation-independent endonuclease with homology to DNase
II alpha. It is highly expressed in the eye lens and in
salivary glands and is responsible for the degradation
of nuclear DNA during lens cell differentiation. DLAD
mainly exists as a cytoplasmic protein and cleaves DNA
to produce 3'-phosphoryl/5'-hydroxyl ends. Like DNase II
alpha, DLAD is active under acidic conditions with
maximum activity at pH 5.2. Aurintricarboxylic acid and
Zn2+ are effective inhibitors of DLAD activity. Mice
deficient in DLAD develop cataracts as they are unable
to degrade DNA during differentiation of the lens cells.
Length = 165
Score = 73.7 bits (181), Expect = 7e-16
Identities = 43/121 (35%), Positives = 65/121 (53%), Gaps = 5/121 (4%)
Query: 18 NTLQWTLSKYSVSDPASLPGKILSPYLFNASYAPEFSADGVKILYNDQTPIRTTV--KFG 75
T W SKY V+ S G+ L L+ A YA + S + V +YND P + K+G
Sbjct: 43 TTQSWQKSKYLVNTTKSALGQTLQQ-LYEA-YASK-SNNTVYAIYNDAVPKPVNISRKYG 99
Query: 76 HSKGLVVGNSRGGIWIVHSVPHFVDDSQTSYTYPHTGLMYGQNFLCLSLNASQLDSVGDN 135
H+KGL++ + G W++HSVPHF + Y YP TG GQ +C++ + +Q + +
Sbjct: 100 HTKGLLLWDRSQGFWLIHSVPHFPPFPEDGYGYPSTGKRNGQTAICITFSYNQFEEIDSQ 159
Query: 136 L 136
L
Sbjct: 160 L 160
>gnl|CDD|217957 pfam04196, Bunya_RdRp, Bunyavirus RNA dependent RNA polymerase.
The bunyaviruses are enveloped viruses with a genome
consisting of 3 ssRNA segments (called L, M and S). The
nucleocapsid protein is encode on the small (S) genomic
RNA. The L segment codes for an RNA polymerase. This
family contains the RNA dependent RNA polymerase on the
L segment.
Length = 735
Score = 30.1 bits (68), Expect = 2.0
Identities = 21/90 (23%), Positives = 28/90 (31%), Gaps = 21/90 (23%)
Query: 90 WIVHSVPHFVDDSQTSYTYPHTGLMYGQNFLCLSLNASQLDSVGDNLGHNQIY---KY-- 144
++VHS DDS TS ++P F + L AS + IY K
Sbjct: 559 FMVHS-----DDSSTSISFPEPVDDKTAWFNYVLLAASAFRLKEHLGKYLGIYLSPKKTT 613
Query: 145 ---------STFLSAGNKGVFPTLARVIAG 165
S F G V R +
Sbjct: 614 VTLTVMEFNSEFFFHGC--VVSPFIRWLLA 641
>gnl|CDD|225815 COG3276, SelB, Selenocysteine-specific translation elongation
factor [Translation, ribosomal structure and
biogenesis].
Length = 447
Score = 29.3 bits (66), Expect = 3.4
Identities = 30/127 (23%), Positives = 43/127 (33%), Gaps = 28/127 (22%)
Query: 188 FHTFAKTRELGDDLYKRISDNLNVNLLVETWPNGPGRLRTDCESPAHEVMNVEGV----- 242
F T AKT ++L + D L E P R+ D V+GV
Sbjct: 140 FKTSAKTGRGIEELKNELIDLLEEIERDE---QKPFRIAID------RAFTVKGVGTVVT 190
Query: 243 --ALSGVVEFRSTHDHAKWTISFGN---ETRSNLNQDSISKHKTDGAR-HFVCNGDINRA 296
LSG V+ K +S N RS D + G R G
Sbjct: 191 GTVLSGEVK-----VGDKLYLSPINKEVRVRSIQAHDVDVEEAKAGQRVGLALKGV---E 242
Query: 297 EDQLKRG 303
+++++RG
Sbjct: 243 KEEIERG 249
>gnl|CDD|233075 TIGR00656, asp_kin_monofn, aspartate kinase, monofunctional class.
This model describes a subclass of aspartate kinases.
These are mostly Lys-sensitive and not fused to
homoserine dehydrogenase, unlike some Thr-sensitive and
Met-sensitive forms. Homoserine dehydrogenase is part of
Thr and Met but not Lys biosynthetic pathways. Aspartate
kinase catalyzes a first step in the biosynthesis from
Asp of Lys (and its precursor diaminopimelate), Met, and
Thr. In E. coli, a distinct isozyme is inhibited by each
of the three amino acid products. The Met-sensitive (I)
and Thr-sensitive (II) forms are bifunctional enzymes
fused to homoserine dehydrogenases and form
homotetramers, while the Lys-sensitive form (III) is a
monofunctional homodimer. The Lys-sensitive enzyme of
Bacillus subtilis resembles the E. coli form but is an
alpha 2/beta 2 heterotetramer, where the beta subunit is
translated from an in-phase alternative initiator at
Met-246. The protein slr0657 from Synechocystis PCC6803
is extended by a duplication of the C-terminal region
corresponding to the beta chain. Incorporation of a
second copy of the C-terminal domain may be quite common
in this subgroup of aspartokinases [Amino acid
biosynthesis, Aspartate family].
Length = 401
Score = 28.9 bits (65), Expect = 3.6
Identities = 13/63 (20%), Positives = 23/63 (36%), Gaps = 2/63 (3%)
Query: 58 VKILYNDQTPIRTTVKFGHSKGLVVGNSRGGIWIVHSVPHFVDDSQTSYTYPHTGLMYGQ 117
V+ PI F +G ++ NS +V + + T T G++ +
Sbjct: 217 VEPAMRSGVPIEVRSSFDPEEGTLITNSMENPPLVKGIAL--RKNVTRVTVHGLGMLGKR 274
Query: 118 NFL 120
FL
Sbjct: 275 GFL 277
>gnl|CDD|181139 PRK07832, PRK07832, short chain dehydrogenase; Provisional.
Length = 272
Score = 28.1 bits (63), Expect = 6.1
Identities = 9/26 (34%), Positives = 16/26 (61%), Gaps = 1/26 (3%)
Query: 236 VMNVEGVALSGVVEFRSTHDHAKWTI 261
VMN+ G++ G V+ R TH+ + +
Sbjct: 82 VMNIAGISAWGTVD-RLTHEQWRRMV 106
>gnl|CDD|130820 TIGR01759, MalateDH-SF1, malate dehydrogenase. This model
represents a family of malate dehydrogenases in bacteria
and eukaryotes which utilize either NAD or NADP
depending on the species and context. MDH interconverts
malate and oxaloacetate and is a part of the citric acid
cycle as well as the C4 cycle in certain photosynthetic
organisms.
Length = 323
Score = 27.7 bits (62), Expect = 8.4
Identities = 31/117 (26%), Positives = 46/117 (39%), Gaps = 19/117 (16%)
Query: 207 DNLNVNLLVETWPNGPGRLRTDCESPAHEVMNVEGVALSGVVEFRSTHDHAKWTISF--- 263
+++ LLV +P PG R D S ++ +G AL+ AK +
Sbjct: 78 KDVDAALLVGAFPRKPGMERADLLSKNGKIFKEQGKALN---------KVAKKDVKVLVV 128
Query: 264 GNETRSNLNQDSISKHKTDGAR---HFVCNGDINRAEDQL--KRGGGSVCIDNEALW 315
GN +N N SK+ D + D NRA+ QL K G + N +W
Sbjct: 129 GNP--ANTNALIASKNAPDIPPKNFSAMTRLDHNRAKYQLAAKAGVPVSDVKNVIIW 183
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 0.134 0.405
Gapped
Lambda K H
0.267 0.0745 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 16,210,518
Number of extensions: 1491018
Number of successful extensions: 1021
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1001
Number of HSP's successfully gapped: 16
Length of query: 331
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 234
Effective length of database: 6,635,264
Effective search space: 1552651776
Effective search space used: 1552651776
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: 59 (26.5 bits)