RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16896
(423 letters)
>gnl|CDD|187700 cd09276, Rnase_HI_RT_non_LTR, non-LTR RNase HI domain of reverse
transcriptases. Ribonuclease H (RNase H) is classified
into two families, type 1 (prokaryotic RNase HI,
eukaryotic RNase H1 and viral RNase H) and type 2
(prokaryotic RNase HII and HIII, and eukaryotic RNase
H2). Ribonuclease HI (RNase HI) is an endonuclease that
cleaves the RNA strand of an RNA/DNA hybrid in a
sequence non-specific manner. RNase H is widely present
in various organisms, including bacteria, archaea and
eukaryotes. RNase HI has also been observed as an
adjunct domain to the reverse transcriptase gene in
retroviruses, long-term repeat (LTR)-bearing
retrotransposons and non-LTR retrotransposons. RNase HI
in LTR retrotransposons perform degradation of the
original RNA template, generation of a polypurine tract
(the primer for plus-strand DNA synthesis), and final
removal of RNA primers from newly synthesized minus and
plus strands. The catalytic residues for RNase H
enzymatic activity, three aspartatic acids and one
glutamatic acid residue (DEDD), are unvaried across all
RNase H domains. The position of the RNase domain of
non-LTR and LTR transposons is at the carboxyl terminal
of the reverse transcriptase (RT) domain and their RNase
domains group together, indicating a common evolutionary
origin. Many non-LTR transposons have lost the RNase
domain because their activity is at the nucleus and
cellular RNase may suffice; however LTR retotransposons
always encode their own RNase domain because it requires
RNase activity in RNA-protein particles in the
cytoplasm. RNase H inhibitors have been explored as an
anti-HIV drug target because RNase H inactivation
inhibits reverse transcription.
Length = 128
Score = 106 bits (266), Expect = 1e-27
Identities = 51/166 (30%), Positives = 69/166 (41%), Gaps = 42/166 (25%)
Query: 60 IYTDGSKDETGVGCALTIPQLNETKR-FALNKHSSVFHAELFSILQSLNHVKEL--NTRK 116
IYTDGSK E G I + R + L + SVF AEL +IL++L RK
Sbjct: 2 IYTDGSKLEGRTGAGFAIVRKGTISRSYKLGPYCSVFDAELLAILEALQLALREGRRARK 61
Query: 117 ILIISDSLSSFQAISNLHHPNPLVKKIHEEYSNSQANIKFLWCPSHVDSLSSFQAISNLH 176
I I SDS ++ +A+ + +PLV +I +AI L
Sbjct: 62 ITIFSDSQAALKALRSPRSSSPLVLRIR-------------------------KAIRELA 96
Query: 177 HPNPLVKKIQEEYSNSQANIKFLWCPSHVGISGNERADVEAKKATK 222
+ ++ W P H GI GNERAD AK+A K
Sbjct: 97 NHG--------------VKVRLHWVPGHSGIEGNERADRLAKEAAK 128
>gnl|CDD|215695 pfam00075, RNase_H, RNase H. RNase H digests the RNA strand of an
RNA/DNA hybrid. Important enzyme in retroviral
replication cycle, and often found as a domain
associated with reverse transcriptases. Structure is a
mixed alpha+beta fold with three a/b/a layers.
Length = 126
Score = 57.3 bits (139), Expect = 3e-10
Identities = 36/167 (21%), Positives = 59/167 (35%), Gaps = 44/167 (26%)
Query: 55 EDHLKIYTDGS-KDETGVGCALTIPQLNETKRFALNKHSSVFHAELFSILQSLNHVKELN 113
+ + +YTDGS G G A + + + L ++ AEL +++++L + L+
Sbjct: 1 PEAVTVYTDGSCNGNPGPGGAGYVTDGGKQRSKPLP-GTTNQRAELLALIEAL---EALS 56
Query: 114 TRKILIISDSLSSFQAISNLHHPNPLVKKIHEEYSNSQANIKFLWCPSHVDSLSSFQAIS 173
+K+ I +DS I+N S
Sbjct: 57 GQKVNIYTDSQYVIGGITN----------------------------GWPTKSES----- 83
Query: 174 NLHHPNPLVKKIQEEYSNSQANIKFLWCPSHVGISGNERADVEAKKA 220
P+ +I E + W P H GI GNE AD AK+
Sbjct: 84 -----KPIKNEIWELLQKKHK-VYIQWVPGHSGIPGNELADKLAKQG 124
>gnl|CDD|223405 COG0328, RnhA, Ribonuclease HI [DNA replication, recombination, and
repair].
Length = 154
Score = 48.5 bits (116), Expect = 6e-07
Identities = 32/172 (18%), Positives = 68/172 (39%), Gaps = 34/172 (19%)
Query: 56 DHLKIYTDG-SKDETGVGCALTIPQLNETKRF---ALNKHSSVFH-AELFSILQSLNHVK 110
++I+TDG G G + + + ++ + ++ + AEL +++++L +K
Sbjct: 2 KKVEIFTDGACLGNPGPGGWGAVLRYGDGEKELSGGEGRTTN--NRAELRALIEALEALK 59
Query: 111 ELNTRKILIISDSLSSFQAISNLHHPNPLVKKIHEEYSNSQANIKFLWCPSHVDSLSSFQ 170
EL ++ + +DS + I+ I + K W + +
Sbjct: 60 ELGACEVTLYTDSKYVVEGITRW---------IVK-------WKKNGWKTA------DKK 97
Query: 171 AISNLHHPNPLVKKIQEEYSNSQANIKFLWCPSHVGISGNERADVEAKKATK 222
+ N L +++ E + + W H G NERAD A++A +
Sbjct: 98 PVKNKD----LWEELDELLKR-HELVFWEWVKGHAGHPENERADQLAREAAR 144
>gnl|CDD|187690 cd06222, RNase_H, RNase H is an endonuclease that cleaves the RNA
strand of an RNA/DNA hybrid in a sequence non-specific
manner. Ribonuclease H (RNase H) enzymes are divided
into two major families, Type 1 and Type 2, based on
amino acid sequence similarities and biochemical
properties. RNase H is an endonuclease that cleaves the
RNA strand of an RNA/DNA hybrid in a sequence
non-specific manner in the presence of divalent cations.
RNase H is widely present in various organisms,
including bacteria, archaea and eukaryotes. Most
prokaryotic and eukaryotic genomes contain multiple
RNase H genes. Despite the lack of amino acid sequence
homology, Type 1 and type 2 RNase H share a main-chain
fold and steric configurations of the four acidic
active-site residues and have the same catalytic
mechanism and functions in cells. RNase H is involved in
DNA replication, repair and transcription. One of the
important functions of RNase H is to remove Okazaki
fragments during DNA replication. RNase H inhibitors
have been explored as an anti-HIV drug target because
RNase H inactivation inhibits reverse transcription.
Length = 123
Score = 46.2 bits (110), Expect = 2e-06
Identities = 24/108 (22%), Positives = 44/108 (40%), Gaps = 8/108 (7%)
Query: 61 YTDGSKDE----TGVGCALTIPQLNETKRFALNKH-SSVFHAELFSILQSLNHVKELNTR 115
TDGS G G L + +L+ ++ AEL ++L++L +L +
Sbjct: 1 NTDGSCKGNPGPAGAGGVLRDHEGAWLFAGSLSIPAATNNEAELLALLEALELALDLGLK 60
Query: 116 KILIISDSLSSFQAISN---LHHPNPLVKKIHEEYSNSQANIKFLWCP 160
K++I +DS I++ N L+ + +I+F P
Sbjct: 61 KLIIETDSKYVVDLINSWSKGWKKNNLLLWDILLLLSKFIDIRFEHVP 108
>gnl|CDD|187702 cd09278, RNase_HI_prokaryote_like, RNase HI family found mainly in
prokaryotes. Ribonuclease H (RNase H) is classified
into two evolutionarily unrelated families, type 1
(prokaryotic RNase HI, eukaryotic RNase H1 and viral
RNase H) and type 2 (prokaryotic RNase HII and HIII, and
eukaryotic RNase H2). RNase H is an endonuclease that
cleaves the RNA strand of an RNA/DNA hybrid in a
sequence non-specific manner. RNase H is involved in DNA
replication, repair and transcription. RNase H is widely
present in various organisms, including bacteria,
archaea and eukaryotes and most prokaryotic and
eukaryotic genomes contain multiple RNase H genes.
Despite the lack of amino acid sequence homology, Type 1
and type 2 RNase H share a main-chain fold and steric
configurations of the four acidic active-site (DEDD),
residues and have the same catalytic mechanism and
functions in cells. One of the important functions of
RNase H is to remove Okazaki fragments during DNA
replication. Prokaryotic RNase H varies greatly in
domain structures and substrate specificities.
Prokaryotes and some single-cell eukaryotes do not
require RNase H for viability.
Length = 139
Score = 38.3 bits (90), Expect = 0.001
Identities = 13/40 (32%), Positives = 19/40 (47%), Gaps = 2/40 (5%)
Query: 181 LVKKIQEEYSNSQANIKFLWCPSHVGISGNERADVEAKKA 220
L +++ + Q + + W H G GNERAD A A
Sbjct: 100 LWQELDALLAKHQ--VTWHWVKGHAGHPGNERADELANAA 137
>gnl|CDD|205634 pfam13456, RVT_3, Reverse transcriptase-like. This domain is found
in plants and appears to be part of a retrotransposon.
Length = 88
Score = 37.2 bits (87), Expect = 0.002
Identities = 15/57 (26%), Positives = 26/57 (45%), Gaps = 4/57 (7%)
Query: 93 SVFHAELFSILQSLNHVKELNTRKILIISDSLSSFQAISN----LHHPNPLVKKIHE 145
S AE ++L+ L EL R++++ SDS Q I L+++I +
Sbjct: 1 SPLEAEAEALLEGLQLALELGIRRLIVESDSQLVVQQIQGEYEARSRLAALLREIRK 57
>gnl|CDD|187704 cd09280, RNase_HI_eukaryote_like, Eukaryotic RNase H is longer and
more complex than their prokaryotic counterparts and
unlike prokaryote, RNase H are essential in higher
eukaryote. Ribonuclease H (RNase H) is classified into
two families, type 1 (prokaryotic RNase HI, eukaryotic
RNase H1 and viral RNase H) and type 2 (prokaryotic
RNase HII and HIII, and eukaryotic RNase H2). RNase H is
an endonuclease that cleaves the RNA strand of an
RNA/DNA hybrid in a sequence non-specific manner. RNase
H is involved in DNA replication, repair and
transcription. One of the important functions of RNase H
is to remove Okazaki fragments during DNA replication.
RNase H is widely present in various organisms,
including bacteria, archaea and eukaryote and most
prokaryotic and eukaryotic genomes contain multiple
RNase H genes. Despite the lack of amino acid sequence
homology, Type 1 and type 2 RNase H share a main-chain
fold and steric configurations of the four acidic
active-site (DEDD) residues and have the same catalytic
mechanism and functions in cells. Eukaryotic RNase H is
longer and more complex than in prokaryotes. Almost all
eukaryotic RNase HI have highly conserved regions at the
N-terminal called hybrid binding domain (HBD). It is
speculated that the HBD contributes to binding the
RNA/DNA hybrid. Prokaryotes and some single-cell
eukaryotes do not require RNase H for viability, but
RNase H is essential in higher eukaryotes. RNase H
knockout mice lack mitochondrial DNA replication and die
as embryos.
Length = 150
Score = 38.0 bits (89), Expect = 0.002
Identities = 17/43 (39%), Positives = 20/43 (46%), Gaps = 1/43 (2%)
Query: 180 PLVKKIQEEYSNSQANIKFLWCPSHVGISGNERADVEAKKATK 222
L K ++E +KF P H GI GNE AD AKK
Sbjct: 109 ELDKLLEELE-ERGIRVKFWHVPGHSGIYGNEEADRLAKKGAD 150
>gnl|CDD|187697 cd09273, RNase_HI_RT_Bel, Bel/Pao family of RNase HI in long-term
repeat retroelements. Ribonuclease H (RNase H) enzymes
are divided into two major families, Type 1 and Type 2,
based on amino acid sequence similarities and
biochemical properties. RNase H is an endonuclease that
cleaves the RNA strand of an RNA/DNA hybrid in a
sequence non-specific manner in the presence of divalent
cations. RNase H is widely present in various organisms,
including bacteria, archaea and eukaryote. RNase HI has
also been observed as adjunct domains to the reverse
transcriptase gene in retroviruses, in long-term repeat
(LTR)-bearing retrotransposons and non-LTR
retrotransposons. RNase HI in LTR retrotransposons
perform degradation of the original RNA template,
generation of a polypurine tract (the primer for
plus-strand DNA synthesis), and final removal of RNA
primers from newly synthesized minus and plus strands.
The catalytic residues for RNase H enzymatic activity,
three aspartatic acids and one glutamatic acid residue
(DEDD), are unvaried across all RNase H domains.
Phylogenetic patterns of RNase HI of LTR retroelements
is classified into five major families, Ty3/Gypsy,
Ty1/Copia, Bel/Pao, DIRS1 and the vertebrate
retroviruses. Bel/Pao family has been described only in
metazoan genomes. RNase H inhibitors have been explored
as an anti-HIV drug target because RNase H inactivation
inhibits reverse transcription.
Length = 135
Score = 37.2 bits (87), Expect = 0.003
Identities = 30/169 (17%), Positives = 54/169 (31%), Gaps = 44/169 (26%)
Query: 60 IYTDGSKDETGVGCALTIPQLNETKRFALNKHSSVFHAELFSILQSLNHVKELNTRKILI 119
++TDGS G A+ + + L +S AEL +++++L K + + I
Sbjct: 2 VFTDGSSFVRKAGYAVVTGP-DVLEIATLPYGTSAQRAELIALIRALELAK---GKPVNI 57
Query: 120 ISDSLSSFQAISNLHH---PNPLVKKIHEEYSNSQANIKFLWCPSHVDSLSSFQAISNLH 176
+DS +F + L + ++ L Q
Sbjct: 58 YTDSAYAFGILHALETIWKERGFLTGKPIALAS-------LIL--------QLQKAIQRP 102
Query: 177 HPNPLVKKIQEEYSNSQANIKFLWCPSHVG-----ISGNERADVEAKKA 220
P + + +H G GN RAD A++A
Sbjct: 103 KP-----------------VAVIHIRAHSGLPGPLALGNARADQAARQA 134
>gnl|CDD|187701 cd09277, RNase_HI_bacteria_HBD, Bacterial RNase HI containing a
hybrid binding domain (HBD) at the N-terminus.
Ribonuclease H (RNase H) enzymes are divided into two
major families, Type 1 and Type 2, based on amino acid
sequence similarities and biochemical properties. RNase
H is an endonuclease that cleaves the RNA strand of an
RNA/DNA hybrid in a sequence non-specific manner in the
presence of divalent cations. RNase H is involved in
DNA replication, repair and transcription. RNase H is
widely present in various organisms, including bacteria,
archaea and eukaryotes and most prokaryotic and
eukaryotic genomes contain multiple RNase H genes.
Despite the lack of amino acid sequence homology, Type 1
and type 2 RNase H share a main-chain fold and steric
configurations of the four acidic active-site (DEDD)
residues and have the same catalytic mechanism and
functions in cells. One of the important functions of
RNase H is to remove Okazaki fragments during DNA
replication. Prokaryotic RNase H varies greatly in
domain structures and substrate specificities.
Prokaryotes and some single-cell eukaryotes do not
require RNase H for viability. Some bacteria
distinguished from other bacterial RNase HI in the
presence of a hybrid binding domain (HBD) at the
N-terminus which is commonly present at the N-termini of
eukaryotic RNase HI. It has been reported that this
domain is required for dimerization and processivity of
RNase HI upon binding to RNA-DNA hybrids.
Length = 133
Score = 35.2 bits (82), Expect = 0.018
Identities = 15/45 (33%), Positives = 20/45 (44%), Gaps = 2/45 (4%)
Query: 179 NPLVKKIQEEYSNSQANIK--FLWCPSHVGISGNERADVEAKKAT 221
K+ +E + IK F+ +H G NE AD AKKA
Sbjct: 89 KEGTKEYKEFMDKIKKKIKISFVKVKAHSGDKYNELADKLAKKAL 133
>gnl|CDD|187699 cd09275, RNase_HI_RT_DIRS1, DIRS1 family of RNase HI in long-term
repeat retroelements. Ribonuclease H (RNase H) enzymes
are divided into two major families, Type 1 and Type 2,
based on amino acid sequence similarities and
biochemical properties. RNase H is an endonuclease that
cleaves the RNA strand of an RNA/DNA hybrid in a
sequence non-specific manner in the presence of divalent
cations. RNase H is widely present in various organisms,
including bacteria, archaea and eukaryotes. RNase HI
has also been observed as adjunct domains to the reverse
transcriptase gene in retroviruses, in long-term repeat
(LTR)-bearing retrotransposons and non-LTR
retrotransposons. RNase HI in LTR retrotransposons
perform degradation of the original RNA template,
generation of a polypurine tract (the primer for
plus-strand DNA synthesis), and final removal of RNA
primers from newly synthesized minus and plus strands.
The catalytic residues for RNase H enzymatic activity,
three aspartatic acids and one glutamatic acid residue
(DEDD), are unvaried across all RNase H domains.
Phylogenetic patterns of RNase HI of LTR retroelements
is classified into five major families, Ty3/Gypsy,
Ty1/Copia, Bel/Pao, DIRS1 and the vertebrate
retroviruses. The structural features of DIRS1-group
elements are different from typical LTR elements. RNase
H inhibitors have been explored as an anti-HIV drug
target because RNase H inactivation inhibits reverse
transcription.
Length = 120
Score = 30.7 bits (70), Expect = 0.53
Identities = 21/76 (27%), Positives = 36/76 (47%), Gaps = 6/76 (7%)
Query: 60 IYTDGSKDETGVGCALTIPQLNETKRFA-LNKHSSVFHAELFSILQSLNH-VKELNTRKI 117
++TD S +G G L+ NKH + EL ++L +L H L+ RK+
Sbjct: 2 LFTDAS--LSGWGAVLSGSWAQGLWSAEERNKHIN--FLELLAVLLALQHWGARLSNRKV 57
Query: 118 LIISDSLSSFQAISNL 133
L+ SD+ ++ I+
Sbjct: 58 LVRSDNTTAVAYINRQ 73
>gnl|CDD|178927 PRK00203, rnhA, ribonuclease H; Reviewed.
Length = 150
Score = 30.9 bits (71), Expect = 0.66
Identities = 10/26 (38%), Positives = 12/26 (46%)
Query: 195 NIKFLWCPSHVGISGNERADVEAKKA 220
IK+ W H G NER D A+
Sbjct: 114 QIKWHWVKGHAGHPENERCDELARAG 139
>gnl|CDD|188688 cd08734, RGS-like_1, Uncharacterized Regulator of G protein
Signaling (RGS) domain subfamily, child 1. These
uncharacterized RGS-like domains consists largely of
hypothetical proteins. The RGS domain is an essential
part of the Regulator of G-protein Signaling (RGS)
protein family, a diverse group of multifunctional
proteins that regulate cellular signaling events
downstream of G-protein coupled receptors (GPCRs). RGS
proteins play critical regulatory role as GTPase
activating proteins (GAPs) of the heterotrimeric
G-protein G-alpha-subunits. As a major G-protein
regulator, the RGS domain containing proteins that are
involved in many crucial cellular processes. RGS
proteins play critical regulatory role as GTPase
activating proteins (GAPs) of the heterotrimeric
G-protein G-alpha-subunits. RGS proteins regulate many
aspects of embryonic development such as glial
differentiation, embryonic axis formation, skeletal and
muscle development, cell migration during early
embryogenesis, as well as apoptosis, cell proliferation,
and modulation of cardiac development. Several RGS
proteins can fine-tune immune responses, while others
play an important role in neuronal signal modulation.
Some RGS proteins are the principal elements needed for
proper vision.
Length = 109
Score = 29.7 bits (67), Expect = 0.81
Identities = 15/64 (23%), Positives = 26/64 (40%), Gaps = 13/64 (20%)
Query: 150 SQANIKFLWCPSHVDSLSSFQAISNLHHPNPLVKKIQEEYSNSQANIKFLWCPSHVGISG 209
S N+ FL + V ++ +SN L KI +E+ +S++ P + IS
Sbjct: 17 SGENLSFL---TLVKE---YKRLSNPAEKFTLASKIYKEFISSES-------PFQINISS 63
Query: 210 NERA 213
Sbjct: 64 AMLR 67
>gnl|CDD|187703 cd09279, RNase_HI_archaeal_like, RNAse HI family that includes
Archaeal RNase HI. Ribonuclease H (RNase H) is
classified into two evolutionarily unrelated families,
type 1 (prokaryotic RNase HI, eukaryotic RNase H1 and
viral RNase H) and type 2 (prokaryotic RNase HII and
HIII, and eukaryotic RNase H2). RNase H is an
endonuclease that cleaves the RNA strand of an RNA/DNA
hybrid in a sequence non-specific manner. RNase H is
involved in DNA replication, repair and transcription.
RNase H is widely present in various organisms,
including bacteria, archaea and eukaryotes and most
prokaryotic and eukaryotic genomes contain multiple
RNase H genes. Despite the lack of amino acid sequence
homology, Type 1 and type 2 RNase H share a main-chain
fold and steric configurations of the four acidic
active-site (DEDD) residues and have the same catalytic
mechanism and functions in cells. One of the important
functions of RNase H is to remove Okazaki fragments
during DNA replication. Most archaeal genomes contain
only type 2 RNase H (RNase HII); however, a few contain
RNase HI as well. Although archaeal RNase HI sequences
conserve the DEDD active-site motif, they lack other
common features important for catalytic function, such
as the basic protrusion region. Archaeal RNase HI
homologs are more closely related to retroviral RNase HI
than bacterial and eukaryotic type I RNase H in
enzymatic properties.
Length = 128
Score = 29.8 bits (68), Expect = 0.99
Identities = 17/72 (23%), Positives = 28/72 (38%), Gaps = 7/72 (9%)
Query: 58 LKIYTDGSKD----ETGVGCALTIPQLNETKRFA--LNKHSSVFHAELFSILQSLNHVKE 111
+Y DG+ G G + P E + L ++ AE +++ L E
Sbjct: 1 WTLYFDGASRGNPGPAGAGIVIKSPD-GEVLEQSIPLGFPATNNEAEYEALIAGLELALE 59
Query: 112 LNTRKILIISDS 123
L +K+ I DS
Sbjct: 60 LGIKKLEIYGDS 71
>gnl|CDD|218876 pfam06054, CoiA, Competence protein CoiA-like family. Many of the
members of this family are described as transcription
factors. CoiA falls within a competence-specific operon
in Streptococcus. CoiA is an uncharacterized protein.
Length = 348
Score = 30.2 bits (68), Expect = 2.3
Identities = 11/35 (31%), Positives = 15/35 (42%), Gaps = 3/35 (8%)
Query: 356 RLRIGHTKITHSHLFKREERPECDTCHEPVTVEHL 390
L+ G KI H F + +C E + EHL
Sbjct: 35 ILKQGQIKIPH---FAHKSLKDCAFSSENESAEHL 66
>gnl|CDD|236321 PRK08645, PRK08645, bifunctional homocysteine
S-methyltransferase/5,10-methylenetetrahydrofolate
reductase protein; Reviewed.
Length = 612
Score = 29.4 bits (67), Expect = 3.6
Identities = 10/23 (43%), Positives = 15/23 (65%), Gaps = 1/23 (4%)
Query: 132 NLHHPNPLVKKIHEEYSNSQANI 154
NL HP L+ +IH EY + A++
Sbjct: 38 NLSHPE-LILRIHREYIEAGADV 59
>gnl|CDD|235878 PRK06851, PRK06851, hypothetical protein; Provisional.
Length = 367
Score = 28.8 bits (65), Expect = 5.2
Identities = 13/28 (46%), Positives = 18/28 (64%)
Query: 139 LVKKIHEEYSNSQANIKFLWCPSHVDSL 166
L+KKI EE+ +++FL C S DSL
Sbjct: 46 LMKKIGEEFLEKGYDVEFLHCSSDNDSL 73
>gnl|CDD|134568 PRK01533, PRK01533, histidinol-phosphate aminotransferase;
Validated.
Length = 366
Score = 28.1 bits (62), Expect = 9.2
Identities = 17/67 (25%), Positives = 29/67 (43%), Gaps = 7/67 (10%)
Query: 229 QYKHKADVEAKKATSEPISNHSLLLDEMKSIIKKHFYQKWNTVWTSINP-----NENKLR 283
QY+H A +E + ++N LDE+ S++ W + NP N+ KL
Sbjct: 117 QYRHHAIIEGCEVKEVALNNGVYDLDEISSVVDNDTKIVW--ICNPNNPTGTYVNDRKLT 174
Query: 284 RIKSSIT 290
+ I+
Sbjct: 175 QFIEGIS 181
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
0.319 0.131 0.400
Gapped
Lambda K H
0.267 0.0732 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 20,565,275
Number of extensions: 1900252
Number of successful extensions: 1691
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1687
Number of HSP's successfully gapped: 30
Length of query: 423
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 323
Effective length of database: 6,502,202
Effective search space: 2100211246
Effective search space used: 2100211246
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: 60 (26.9 bits)