RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11202
(360 letters)
>gnl|CDD|131299 TIGR02245, HAD_IIID1, HAD-superfamily subfamily IIID hydrolase,
TIGR02245. This family of sequences appears to belong
to the Haloacid Dehalogenase (HAD) superfamily of
enzymes by virtue of the presence of three catalytic
domains , in this case: LLVLD(ILV)D(YH)T, I(VMG)IWS, and
(DN)(VC)K(PA)Lx{15-17}T(IL)(MH)(FV)DD(IL)(GRS)(RK)N.
Since this family has no large "cap" domain between
motifs 1 and 2 or between 2 and 3, it is formally a
"class III" HAD.
Length = 195
Score = 313 bits (803), Expect = e-108
Identities = 130/195 (66%), Positives = 158/195 (81%)
Query: 118 KIDKRIQDYQIDILNEPRPGKKLLVLDIDYTLFDHRSAAEQGYELMRPYLHEFLTSAYKN 177
K+ +RI+ Y+I +LN PR GKKLLVLDIDYTLFDHRS AE G ELMRPYLHEFLTSAY++
Sbjct: 1 KLLRRIEQYKIKLLNPPREGKKLLVLDIDYTLFDHRSPAETGEELMRPYLHEFLTSAYED 60
Query: 178 YDIAIWSATGMKWIEEKMKLLGVTVNPNYKIAFYVDYSAMISVHLPKYGVVEVKPLGVIW 237
YDI IWSAT MKWIE KM LGV NPNYKI F +D +AMI+VH P+ G +VKPLGVIW
Sbjct: 61 YDIVIWSATSMKWIEIKMTELGVLTNPNYKITFLLDSTAMITVHTPRRGKFDVKPLGVIW 120
Query: 238 GKFPSLYNPTNTIMFDDIRRNFLMNPRNGLRIRPFREAHLNRGSDRELKRLGRYLDEIAT 297
P Y+ NTIMFDD+RRNFLMNP+NGL+IRPF++AH NRG+D+EL +L +YL IA
Sbjct: 121 ALLPEFYSMKNTIMFDDLRRNFLMNPKNGLKIRPFKKAHANRGTDQELLKLTQYLKTIAE 180
Query: 298 VEDLTALNHRNWEKY 312
+ED ++L+H+ WE+Y
Sbjct: 181 LEDFSSLDHKEWERY 195
>gnl|CDD|217328 pfam03031, NIF, NLI interacting factor-like phosphatase. This
family contains a number of NLI interacting factor
isoforms and also an N-terminal regions of RNA
polymerase II CTC phosphatase and FCP1 serine
phosphatase. This region has been identified as the
minimal phosphatase domain.
Length = 153
Score = 103 bits (258), Expect = 1e-26
Identities = 45/175 (25%), Positives = 74/175 (42%), Gaps = 33/175 (18%)
Query: 139 KLLVLDIDYTLFDHRSAAEQGYEL-----------MRPYLHEFLTSAYKNYDIAIWSATG 187
K LVLD+D TL + ++ RP L EFL K Y+I I++A+
Sbjct: 1 KTLVLDLDETLVHSSFEPDLPFDFVLNFNHGVYVKKRPGLDEFLQELSKYYEIVIFTASS 60
Query: 188 MKWIEEKMKLLGVTVNPNYKIAFYVDYSAMISVHLPKYGVVEVKPLGVIWGKFPSLYNPT 247
++ + + L +K Y + Y VK L ++ + +
Sbjct: 61 KEYADPVLDKLDPKKKY-FKHRLYRE-------SCTFY----VKDLSLLG------RDLS 102
Query: 248 NTIMFDDIRRNFLMNPRNGLRIRPFREAHLNRGSDRELKRLGRYLDEIATVEDLT 302
++ D+ R+FL+ P NG+ I PF D EL +L +L E+A V+D+
Sbjct: 103 RVVIVDNSPRSFLLQPDNGIPIPPFYGD----PDDTELLKLLPFLKELAKVDDVR 153
>gnl|CDD|214729 smart00577, CPDc, catalytic domain of ctd-like phosphatases.
Length = 148
Score = 78.8 bits (195), Expect = 9e-18
Identities = 33/156 (21%), Positives = 59/156 (37%), Gaps = 33/156 (21%)
Query: 137 GKKLLVLDIDYTLF--DHRSAAEQGYE-----------------LMRPYLHEFLTSAYKN 177
KK LVLD+D TL HRS E RP + EFL A +
Sbjct: 1 KKKTLVLDLDETLVHSTHRSFKEWTNRDFIVPVLIDGHPHGVYVKKRPGVDEFLKRASEL 60
Query: 178 YDIAIWSATGMKWIEEKMKLLGVTVNPNYKIAFYVDYSAMISVHLPKYGVVEVKPLGVIW 237
+++ +++A + + + LL +P + + VK L ++
Sbjct: 61 FELVVFTAGLRMYADPVLDLL----DPKKYFGYRRLF----RDECVFVKGKYVKDLSLLN 112
Query: 238 GKFPSLYNPTNTIMFDDIRRNFLMNPRNGLRIRPFR 273
+ + I+ DD ++ +P N + I+P+
Sbjct: 113 R------DLSKVIIIDDSPDSWPFHPENLIPIKPWF 142
>gnl|CDD|176408 cd01813, UBP_N, UBP ubiquitin processing protease. The UBP
(ubiquitin processing protease) domain (also referred
to as USP which stands for "ubiquitin-specific
protease") is present at in a large family of cysteine
proteases that specifically cleave ubiquitin
conjugates. This family includes Rpn11, UBP6 (USP14),
USP7 (HAUSP). This domain is closely related to the
amino-terminal ubiquitin-like domain of BAG1
(Bcl2-associated anthanogene1) protein and is found
only in eukaryotes.
Length = 74
Score = 74.5 bits (183), Expect = 5e-17
Identities = 33/74 (44%), Positives = 45/74 (60%)
Query: 5 LNLIIKWNSKEYKTSLSKSNTVLELKQEILKQTGVNPERQKLLNLKHAGKIPSDDTKLAD 64
+ +I+KW +EY + +TVL+LKQ I TGV PERQKLL LK GK DD K++
Sbjct: 1 VPVIVKWGGQEYSVTTLSEDTVLDLKQFIKTLTGVLPERQKLLGLKVKGKPAEDDVKISA 60
Query: 65 TNATDGFKLMVMGS 78
K+M+MG+
Sbjct: 61 LKLKPNTKIMMMGT 74
>gnl|CDD|176364 cd01769, UBL, Ubiquitin-like domain of UBL. UBLs function by
remodeling the surface of their target proteins,
changing their target's half-life, enzymatic activity,
protein-protein interactions, subcellular localization
or other properties. At least 10 different
ubiquitin-like modifications exist in mammals, and
attachment of different ubls to a target leads to
different biological consequences. Ubl-conjugation
cascades are initiated by activating enzymes, which
also coordinate the ubls with their downstream
pathways.
Length = 69
Score = 55.0 bits (133), Expect = 4e-10
Identities = 25/67 (37%), Positives = 38/67 (56%), Gaps = 3/67 (4%)
Query: 12 NSKEYKTSLSKSNTVLELKQEILKQTGVNPERQKLLNLKHAGKIPSDDTKLADTNATDGF 71
K ++ +S +TV ELK +I + GV PE+Q+L+ +AGKI DD L+D DG
Sbjct: 6 TGKTFELEVSPDDTVAELKAKIAAKEGVPPEQQRLI---YAGKILKDDKTLSDYGIQDGS 62
Query: 72 KLMVMGS 78
L ++
Sbjct: 63 TLHLVLR 69
>gnl|CDD|214563 smart00213, UBQ, Ubiquitin homologues. Ubiquitin-mediated
proteolysis is involved in the regulated turnover of
proteins required for controlling cell cycle
progression.
Length = 72
Score = 53.0 bits (128), Expect = 2e-09
Identities = 25/75 (33%), Positives = 42/75 (56%), Gaps = 4/75 (5%)
Query: 5 LNLIIKW-NSKEYKTSLSKSNTVLELKQEILKQTGVNPERQKLLNLKHAGKIPSDDTKLA 63
+ L +K + K + S+TV ELK++I + TG+ PE+Q+L+ + GK+ DD LA
Sbjct: 1 IELTVKTLDGKTITLEVKPSDTVSELKEKIAELTGIPPEQQRLI---YKGKVLEDDRTLA 57
Query: 64 DTNATDGFKLMVMGS 78
D DG + ++
Sbjct: 58 DYGIQDGSTIHLVLR 72
>gnl|CDD|215813 pfam00240, ubiquitin, Ubiquitin family. This family contains a
number of ubiquitin-like proteins: SUMO (smt3
homologue), Nedd8, Elongin B, Rub1, and Parkin. A
number of them are thought to carry a distinctive
five-residue motif termed the proteasome-interacting
motif (PIM), which may have a biologically significant
role in protein delivery to proteasomes and recruitment
of proteasomes to transcription sites.
Length = 69
Score = 49.5 bits (119), Expect = 4e-08
Identities = 21/68 (30%), Positives = 38/68 (55%), Gaps = 3/68 (4%)
Query: 12 NSKEYKTSLSKSNTVLELKQEILKQTGVNPERQKLLNLKHAGKIPSDDTKLADTNATDGF 71
+ K + S+TV ELK++I + G+ ++Q+L+ +GK+ DDT L++ DG
Sbjct: 4 DGKTITLEVDPSDTVSELKEKIEDKEGIPVDQQRLI---FSGKVLEDDTTLSEYGIQDGS 60
Query: 72 KLMVMGSL 79
L ++ L
Sbjct: 61 TLHLVLRL 68
>gnl|CDD|233045 TIGR00601, rad23, UV excision repair protein Rad23. All proteins
in this family for which functions are known are
components of a multiprotein complex used for targeting
nucleotide excision repair to specific parts of the
genome. In humans, Rad23 complexes with the XPC
protein. 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 = 378
Score = 47.6 bits (113), Expect = 5e-06
Identities = 22/83 (26%), Positives = 39/83 (46%), Gaps = 6/83 (7%)
Query: 16 YKTSLSKSNTVLELKQEILKQTGVNP---ERQKLLNLKHAGKIPSDDTKLADTNATDGFK 72
+K + TV ELK++I + G + +QKL+ ++GKI SDD + + +
Sbjct: 13 FKIDMEPDETVKELKEKIEAEQGKDAYPVAQQKLI---YSGKILSDDKTVKEYKIKEKDF 69
Query: 73 LMVMGSLEQSIQEASTKPLDIPE 95
++VM S ++ P P
Sbjct: 70 VVVMVSKPKTGTGKVAPPAATPT 92
>gnl|CDD|176404 cd01809, Scythe_N, Ubiquitin-like domain of Scythe protein.
Scythe protein (also known as Bat3) is an apoptotic
regulator that is highly conserved in eukaryotes and
contains a ubiquitin-like domain near its N-terminus.
Scythe binds reaper, a potent apoptotic inducer, and
Scythe/Reaper are thought to signal apoptosis, in part
through regulating the folding and activity of
apoptotic signaling molecules.
Length = 72
Score = 42.2 bits (100), Expect = 1e-05
Identities = 18/67 (26%), Positives = 42/67 (62%), Gaps = 4/67 (5%)
Query: 5 LNLIIK-WNSKEYKTSLSKSNTVLELKQEILKQTGVNPERQKLLNLKHAGKIPSDDTKLA 63
+ + +K +S+ + ++ + TVL+LK++I ++ G+ E+Q+L+ ++G++ DD L+
Sbjct: 1 IEIKVKTLDSQTHTFTVEEEITVLDLKEKIAEEVGIPVEQQRLI---YSGRVLKDDETLS 57
Query: 64 DTNATDG 70
+ DG
Sbjct: 58 EYKVEDG 64
>gnl|CDD|176400 cd01805, RAD23_N, Ubiquitin-like domain of RAD23. RAD23 belongs
to a family of adaptor molecules having affinity for
both the proteasome and ubiquitinylated proteins and
thought to shuttle these ubiquitinylated proteins to
the proteasome for destruction. RAD23 interacts with
ubiquitin through its C-terminal ubiquitin-associated
domains (UBA) and with the proteasome through its
N-terminal ubiquitin-like domain (UBL).
Length = 77
Score = 41.5 bits (98), Expect = 3e-05
Identities = 21/63 (33%), Positives = 37/63 (58%), Gaps = 5/63 (7%)
Query: 16 YKTSLSKSNTVLELKQEILKQTGVN--PERQKLLNLKHAGKIPSDDTKLADTNATDGFKL 73
+ + +TV ELK++I ++ G + PE+QKL+ ++GKI DDT L + + +
Sbjct: 13 FPIEVDPDDTVAELKEKIEEEKGCDYPPEQQKLI---YSGKILKDDTTLEEYKIDEKDFV 69
Query: 74 MVM 76
+VM
Sbjct: 70 VVM 72
>gnl|CDD|176352 cd00196, UBQ, Ubiquitin-like proteins. Ubiquitin homologs;
Includes ubiquitin and ubiquitin-like proteins.
Ubiquitin-mediated proteolysis is part of the regulated
turnover of proteins required for controlling cell
cycle progression. Other family members are protein
modifiers that perform a wide range of functions.
Ubiquitination usually results in a covalent bond
between the C-terminus of ubiquitin and the
epsilon-amino group of a substrate lysine. The
three-step mechanism requires an activating enzyme (E1)
that forms a thiol ester with the C-terminal carboxy
group, a conjugating enzyme (E2) that transiently
carries the activated ubiquitin molecule as a thiol
ester, and a ligase (E3) that transfers the activated
ubiquitin from the E2 to the substrate lysine residue.
In poly-ubiquitination, ubiquitin itself is the
substrate.
Length = 69
Score = 40.2 bits (94), Expect = 8e-05
Identities = 21/69 (30%), Positives = 37/69 (53%), Gaps = 3/69 (4%)
Query: 8 IIKWNSKEYKTSLSKSNTVLELKQEILKQTGVNPERQKLLNLKHAGKIPSDDTKLADTNA 67
+ + K + + TV +LK+++ K+ G+ PE+Q+LL GKI D L D
Sbjct: 2 VKLNDGKTVELLVPSGTTVADLKEKLAKKLGLPPEQQRLL---VNGKILPDSLTLEDYGL 58
Query: 68 TDGFKLMVM 76
DG +L+++
Sbjct: 59 QDGDELVLV 67
>gnl|CDD|233801 TIGR02251, HIF-SF_euk, Dullard-like phosphatase domain. This model
represents the putative phosphatase domain of a family
of eukaryotic proteins including "Dullard" , and the NLI
interacting factor (NIF)-like phosphatases. This domain
is a member of the haloacid dehalogenase (HAD)
superfamily by virtue of a conserved set of three
catalytic motifs and a conserved fold as predicted by
PSIPRED. The third motif in this family is distinctive
(hhhhDNxPxxa) and aparrently lacking the last aspartate.
This domain is classified as a "Class III" HAD, since
there is no large "cap" domain found between motifs 1
and 2 or motifs 2 and 3. This domain is related to
domains found in FCP1-like phosphatases (TIGR02250), and
together both are detected by the pfam03031.
Length = 162
Score = 38.8 bits (91), Expect = 0.001
Identities = 18/65 (27%), Positives = 29/65 (44%), Gaps = 17/65 (26%)
Query: 138 KKLLVLDIDYTLFD---HRSAAEQGYELM--------------RPYLHEFLTSAYKNYDI 180
KK LVLD+D TL + +++ RP++ EFL K Y++
Sbjct: 1 KKTLVLDLDETLVHSTFKMPKVDADFKVPVLIDGKIIPVYVFKRPHVDEFLERVSKWYEL 60
Query: 181 AIWSA 185
I++A
Sbjct: 61 VIFTA 65
>gnl|CDD|233526 TIGR01681, HAD-SF-IIIC, HAD-superfamily phosphatase, subfamily
IIIC. This model represents the IIIC subfamily of the
Haloacid Dehalogenase (HAD) superfamily of aspartate
nucleophile hydrolases. Subfamily III (also including
IIIA - TIGR01662 and IIIB - pfam03767) contains
sequences which do not contain either of the insert
domains (between the 1st and 2nd conserved catalytic
motifs, subfamily I - TIGR01493, TIGR01509, TIGR01549,
TIGR01488, TIGR01494, TIGR01658, TIGR01544 and
TIGR01545, or between the 2nd and 3rd, subfamily II -
TIGR01460 and TIGR01484). Subfamily IIIC contains five
relatively distantly related clades: a family of viral
proteins (TIGR01684), a family of eukaryotic proteins
called MDP-1 and a family of archaeal proteins most
closely related to MDP-1 (TIGR01685), a family of
bacteria including the Streptomyces FkbH protein
(TIGR01686), and a small clade including the Pasteurella
BcbF and EcbF proteins. The overall lack of species
overlap among these clades may indicate a conserved
function, but the degree of divergence between the
clades and the differences in archetecture outside of
the domain in some clades warns against such a
conclusion. No member of this subfamily is characterized
with respect to function, however the MDP-1 protein is a
characterized phosphatase. All of the characterized
enzymes within subfamily III are phosphatases, and all
of the active site residues characteristic of
HAD-superfamily phosphatases are present in subfamily
IIIC.
Length = 128
Score = 33.9 bits (78), Expect = 0.037
Identities = 24/129 (18%), Positives = 43/129 (33%), Gaps = 16/129 (12%)
Query: 139 KLLVLDIDYTLFDHR-----SAAEQGYELMRPYLHEFLTSAYKN-YDIAIWSATGM-KWI 191
K++V D+D TL+ E+ + + L + KN + +A+ S
Sbjct: 1 KVIVFDLDNTLWTGENIVVGEDPIIDLEVTIKEIRDKLQTLKKNGFLLALASYNDDPHVA 60
Query: 192 EEKMKLLGVTVNPNYKIAFYVDYSAMISVHLPKYGVVEVKPLGVIWGKFPSLYNPTNTIM 251
E +K+ ++ I LPK + V + +I+
Sbjct: 61 YELLKIFEDFGIIFPLAEYFDP--LTIGYWLPKSPRL------VEIALKLNGVLKPKSIL 112
Query: 252 F-DDIRRNF 259
F DD N
Sbjct: 113 FVDDRPDNN 121
>gnl|CDD|185411 PTZ00044, PTZ00044, ubiquitin; Provisional.
Length = 76
Score = 32.5 bits (74), Expect = 0.044
Identities = 15/48 (31%), Positives = 29/48 (60%), Gaps = 3/48 (6%)
Query: 23 SNTVLELKQEILKQTGVNPERQKLLNLKHAGKIPSDDTKLADTNATDG 70
NTV ++K + ++ G++ ++ +L+ ++GK SDD KL+D G
Sbjct: 20 DNTVQQVKMALQEKEGIDVKQIRLI---YSGKQMSDDLKLSDYKVVPG 64
>gnl|CDD|221779 pfam12803, G-7-MTase, mRNA (guanine-7-)methyltransferase
(G-7-MTase). The Sendai virus RNA-dependent RNA
polymerase complex, which consists of L and P proteins,
participates in the synthesis of viral mRNAs that
possess a methylated cap structure. The N-terminal of
the L protein acts as the RNA-dependent RNA polymerase
part of the molecule, family Paramyx_RNA_pol, pfam00946.
This domain is the C-terminal part of the L protein and
it catalyzes cap methylation through its mRNA
(guanine-7-)methyltransferase (G-7-MTase) activity.
Length = 320
Score = 34.9 bits (81), Expect = 0.044
Identities = 26/107 (24%), Positives = 37/107 (34%), Gaps = 14/107 (13%)
Query: 77 GSLEQSIQEASTKPLDIPEIVDDFDIEEDQVAIENKDIYLAKIDKRIQDYQIDILNEPRP 136
L+Q I+ P I ++ + DIEED + +N D +D+
Sbjct: 182 KLLKQ-IRLREEDPGLIADLYESQDIEEDNLIEDNIPAENPPSDTSETLTGLDLSTSATS 240
Query: 137 GKKLLVLDIDYTLFDHRSAAEQGYELMRPYLHEFL-------TSAYK 176
KL S++E L P LH L TS YK
Sbjct: 241 LHKLPTPL------PSVSSSESTLPLAGPPLHHVLRRVGLNSTSWYK 281
>gnl|CDD|176396 cd01801, Tsc13_N, Ubiquitin-like domain of Tsc13. Tsc13_N
N-terminal domain of Tsc13. Tsc13 is an enoyl
reductase involved in elongation of long chain fatty
acids that localizes to the endoplasmic reticulum and
is highly enriched in a novel structure marking
nuclear-vacuolar junctions.
Length = 77
Score = 31.7 bits (72), Expect = 0.079
Identities = 19/57 (33%), Positives = 24/57 (42%), Gaps = 2/57 (3%)
Query: 20 LSKSNTVLELKQEILKQTGVN-PERQKLLNLKHAGKIPSDDTKLADTNATDGFKLMV 75
S T+ +LK+ I K + RQ L L+ GK DD L D G L V
Sbjct: 19 SSGDATIADLKKLIAKSSPQLTVNRQS-LRLEPKGKSLKDDDTLVDLGVGAGATLYV 74
>gnl|CDD|176407 cd01812, BAG1_N, Ubiquitin-like domain of BAG1. BAG1_N
N-terminal ubiquitin-like (Ubl) domain of the BAG1
protein. This domain occurs together with the BAG
domain and is closely related to the Ubl domain of a
family of deubiquitinases that includes Rpn11, UBP6
(USP14), USP7 (HAUSP).
Length = 71
Score = 31.5 bits (72), Expect = 0.083
Identities = 21/70 (30%), Positives = 33/70 (47%), Gaps = 3/70 (4%)
Query: 9 IKWNSKEYKTSLSKSNTVLELKQEILKQTGVNPERQKLLNLKHAGKIPSDDTKLADTNAT 68
+K + + S+S T +LK+ + TGV P QKL+ GK D L +
Sbjct: 5 VKHGGESHDLSISSQATFGDLKKMLAPVTGVEPRDQKLI---FKGKERDDAETLDMSGVK 61
Query: 69 DGFKLMVMGS 78
DG K+M++
Sbjct: 62 DGSKVMLLED 71
>gnl|CDD|176389 cd01794, DC_UbP_C, dendritic cell derived ubiquitin-like protein.
DC_UbP (dendritic cell derived ubiquitin-like protein)
is a ubiquitin-like protein from human dendritic cells
that is expressed in the mitochondrion. The
ubiquitin-like domain of this protein is found at the
C-terminus and lacks the canonical gly-gly motif of
ubiquitin required for ubiquitinization. DC_UbP is
expressed in tumor cells but not in normal human adult
tissue suggesting a role for DC_UbP in tumorogenesis.
Length = 70
Score = 31.7 bits (72), Expect = 0.085
Identities = 19/63 (30%), Positives = 36/63 (57%), Gaps = 3/63 (4%)
Query: 14 KEYKTSLSKSNTVLELKQEILKQTGVNPERQKLLNLKHAGKIPSDDTKLADTNATDGFKL 73
K+ K S+S +TV +LK+++ GV+P Q+ +GK+ +D T+L +T + +
Sbjct: 9 KDVKLSVSSKDTVGQLKKQLQAAEGVDPCCQRWF---FSGKLLTDKTRLQETKIQKDYVV 65
Query: 74 MVM 76
V+
Sbjct: 66 QVI 68
>gnl|CDD|240618 cd12219, UBL_TBK1_like, Ubiquitin-Like Domain Of Human Tbk1 and
similar proteins. This family contains ubiquitin-like
domain (UBL) found in TANK-binding kinase 1 (TBK1) and
similar proteins. TBK1 regulates factors such as IRF3
and IRF7, promoting antiviral activity in the
interferon signaling pathways. In addition to the
central UBL, these proteins have an N-terminal kinase
domain and a C-terminal elongated helical domain. The
ubiquitin-like domain acts as a protein-protein
interaction domain, and has been implicated in
regulating kinase activity, which modulates
interactions in the IFN pathway.
Length = 89
Score = 31.5 bits (72), Expect = 0.13
Identities = 8/24 (33%), Positives = 15/24 (62%)
Query: 24 NTVLELKQEILKQTGVNPERQKLL 47
T++ ++ + +QT V P Q+LL
Sbjct: 34 ETLVNFQELVFEQTEVPPSNQELL 57
>gnl|CDD|176387 cd01792, ISG15_repeat1, ISG15 ubiquitin-like protein, first
repeat of 2. ISG15 is a ubiquitin-like protein
containing two ubiquitin homology domains that becomes
conjugated to a variety of proteins when cells are
treated with type I interferon or lipopolysaccharide.
Although ISG15 has properties similar to those of other
ubiquitin-like molecules, it is a unique member of the
ubiquitin-like superfamily, whose expression and
conjugation to target proteins are tightly regulated by
specific signaling pathways, indicating it may have
specialized functions in the immune system.
Length = 80
Score = 31.4 bits (71), Expect = 0.13
Identities = 19/63 (30%), Positives = 33/63 (52%), Gaps = 1/63 (1%)
Query: 14 KEYKTSLSKSNTVLELKQEILKQTGVNPERQKLLNLKHAGKIPSDDTKLADTNATDGFKL 73
E+ SL S TV ELKQ+I ++ GV +Q+L +L + ++ D L G +
Sbjct: 13 NEFLVSLRDSMTVSELKQQIAQKIGVPAFQQRLAHL-DSREVLQDGVPLVSQGLGPGSTV 71
Query: 74 MVM 76
+++
Sbjct: 72 LLV 74
>gnl|CDD|119389 cd01427, HAD_like, Haloacid dehalogenase-like hydrolases. The
haloacid dehalogenase-like (HAD) superfamily includes
L-2-haloacid dehalogenase, epoxide hydrolase,
phosphoserine phosphatase, phosphomannomutase,
phosphoglycolate phosphatase, P-type ATPase, and many
others, all of which use a nucleophilic aspartate in
their phosphoryl transfer reaction. All members possess
a highly conserved alpha/beta core domain, and many also
possess a small cap domain, the fold and function of
which is variable. Members of this superfamily are
sometimes referred to as belonging to the DDDD
superfamily of phosphohydrolases.
Length = 139
Score = 32.3 bits (74), Expect = 0.14
Identities = 25/129 (19%), Positives = 44/129 (34%), Gaps = 22/129 (17%)
Query: 140 LLVLDIDYTLFDHRSAAEQGYELMRPYLH----EFLTSAY-KNYDIAIWSATGMKWIEEK 194
++ D+D TL D + EL L+ E L K +A+ + + + E
Sbjct: 1 AVLFDLDGTLLDSEPGIAEIEEL---ELYPGVKEALKELKEKGIKLALATNKSRREVLEL 57
Query: 195 MKLLGVTVNPNYKIAFYVDYSAMISVHLPKYGVVEVKPLGVIWGKFPSLYN--------- 245
++ LG+ + I S +++ PK G+ I P
Sbjct: 58 LEELGLDDYFDPVIT-----SNGAAIYYPKEGLFLGGGPFDIGKPNPDKLLAALKLLGVD 112
Query: 246 PTNTIMFDD 254
P +M D
Sbjct: 113 PEEVLMVGD 121
>gnl|CDD|220681 pfam10302, DUF2407, DUF2407 ubiquitin-like domain. This is a
family of proteins found in fungi. The function is not
known. This domain is related to the ubiquitin domain.
Length = 90
Score = 30.7 bits (70), Expect = 0.22
Identities = 13/39 (33%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 25 TVLELKQEILKQTGVNPERQKLLNLKHAGKIPSDDTKLA 63
TV LK+ I + ++L L +AG++ +D +KLA
Sbjct: 25 TVAWLKKLIRSRLPQELSNRRL-RLIYAGRLLNDSSKLA 62
>gnl|CDD|151909 pfam11470, TUG, GLUT4 regulating protein TUG. TUG is a GLUT4
regulating protein and functions to retain membrane
vesicles containing GLUT4 intracellularly. TUG releases
the GLUT4 containing vesicles to the cellular exocytic
machinery in response to insulin stimulation which
allows translocation to the plasma membrane. TUG has an
N-terminal ubiquitin-like domain (UBL1) which in
similar proteins appears to participate in
protein-protein interactions. The region does have a
area of negative electrostatic potential and increased
backbone motility which leads to suggestions of a
potential protein-protein interaction site.
Length = 65
Score = 29.1 bits (66), Expect = 0.50
Identities = 12/47 (25%), Positives = 24/47 (51%), Gaps = 3/47 (6%)
Query: 8 IIKWNSKEYKTSLSKSNTVLELKQEILKQTGVNPERQKLLNLKHAGK 54
+I +N + ++ S T+ ++ +E K+ G++P LKH K
Sbjct: 1 VITYNFRRVTVKVTPSTTLNQVLEEACKKFGLDPSE---YTLKHNRK 44
>gnl|CDD|237403 PRK13505, PRK13505, formate--tetrahydrofolate ligase; Provisional.
Length = 557
Score = 31.7 bits (73), Expect = 0.58
Identities = 24/65 (36%), Positives = 31/65 (47%), Gaps = 8/65 (12%)
Query: 84 QEASTKPLDIPEIVDDFDIEEDQVAIENKDIYLAKIDKRIQDYQIDILNEPRPGKKLLVL 143
QEA+ KP I EI I ED +E Y AKI +I L + + GK +LV
Sbjct: 10 QEATLKP--ITEIAAKLGIPED--DLEPYGKYKAKISLD----KIKALKDKKDGKLILVT 61
Query: 144 DIDYT 148
I+ T
Sbjct: 62 AINPT 66
>gnl|CDD|176393 cd01798, parkin_N, amino-terminal ubiquitin-like of parkin
protein. parkin_N parkin protein is a RING-type E3
ubiquitin ligase with an amino-terminal ubiquitin-like
(Ubl) domain and an RBR signature consisting of two
RING finger domains separated by an IBR/DRIL domain.
Naturally occurring mutations in parkin are thought to
cause the disease AR_JP (autosomal-recessive juvenile
parkinsonism). Parkin binds the Rpn10 subunit of 26S
proteasomes through its Ubl domain.
Length = 70
Score = 28.9 bits (65), Expect = 0.75
Identities = 11/57 (19%), Positives = 29/57 (50%), Gaps = 4/57 (7%)
Query: 7 LIIKWNS-KEYKTSLSKSNTVLELKQEILKQTGVNPERQKLLNLKHAGKIPSDDTKL 62
+ ++ N+ + + + +LK+ + K+ GV P++ +++ AGK + T +
Sbjct: 1 VYVRTNTGHTFPVEVDPDTDIKQLKEVVAKRQGVPPDQLRVI---FAGKELRNTTTI 54
>gnl|CDD|153127 cd02436, Nodulin-21, Nodulin-21. Nodulin-21: This is a family of
proteins that may be unique to certain plants. The
family member in soybean is found to be nodule-specific
and is abundant during nodule development. The proteins
of this family thus may play a role in symbiotic
nitrogen fixation. .
Length = 152
Score = 30.3 bits (68), Expect = 0.77
Identities = 8/20 (40%), Positives = 9/20 (45%)
Query: 323 ARRRAMMNRERGGEEEGEEE 342
AR NR RG + E E
Sbjct: 67 ARCLRGRNRARGPAPDSEPE 86
>gnl|CDD|223682 COG0609, FepD, ABC-type Fe3+-siderophore transport system, permease
component [Inorganic ion transport and metabolism].
Length = 334
Score = 30.3 bits (69), Expect = 1.4
Identities = 11/28 (39%), Positives = 16/28 (57%)
Query: 20 LSKSNTVLELKQEILKQTGVNPERQKLL 47
LS+ +L L E+ K G+N R +LL
Sbjct: 212 LSRKLNILSLGDELAKSLGINVNRLRLL 239
>gnl|CDD|216652 pfam01698, FLO_LFY, Floricaula / Leafy protein. This family
consists of various plant development proteins which are
homologues of floricaula (FLO) and Leafy (LFY) proteins
which are floral meristem identity proteins. Mutations
in the sequences of these proteins affect flower and
leaf development.
Length = 382
Score = 30.4 bits (69), Expect = 1.4
Identities = 11/41 (26%), Positives = 22/41 (53%)
Query: 314 HAKHKERKRARRRAMMNRERGGEEEGEEEEDEGEGSEITGS 354
H+ E+K+ R++ R + E+ +++EDE + E G
Sbjct: 177 HSSDSEKKKQRKKQRRKRSKELREDDDDDEDEDDDGEGGGE 217
Score = 28.4 bits (64), Expect = 7.0
Identities = 10/34 (29%), Positives = 19/34 (55%)
Query: 317 HKERKRARRRAMMNRERGGEEEGEEEEDEGEGSE 350
K+++R R + + + E+E ++ E GEG E
Sbjct: 187 RKKQRRKRSKELREDDDDDEDEDDDGEGGGEGGE 220
>gnl|CDD|176395 cd01800, SF3a120_C, Ubiquitin-like domain of Mammalian splicing
factor SF3a_120. SF3a120_C Mammalian splicing factor
SF3a consists of three subunits of 60, 66, and 120 kDa
and functions early during pre-mRNA splicing by
converting the U2 snRNP to its active form. The 120kDa
subunit (SF3a120) has a carboxy-terminal ubiquitin-like
domain and two SWAP (suppressor-of-white-apricot)
domains, referred to collectively as the SURP module,
at its amino-terminus.
Length = 76
Score = 28.2 bits (63), Expect = 1.7
Identities = 17/53 (32%), Positives = 27/53 (50%), Gaps = 3/53 (5%)
Query: 18 TSLSKSNTVLELKQEILKQTGVNPERQKLLNLKHAGKIPSDDTKLADTNATDG 70
+L S+ V LK +I ++TG+ +QK L++ G D LA N +G
Sbjct: 12 FTLQLSDPVSVLKVKIHEETGMPAGKQK---LQYEGIFIKDSNSLAYYNLANG 61
>gnl|CDD|176398 cd01803, Ubiquitin, Ubiquitin. Ubiquitin (includes Ubq/RPL40e
and Ubq/RPS27a fusions as well as homopolymeric
multiubiquitin protein chains).
Length = 76
Score = 27.5 bits (61), Expect = 2.5
Identities = 15/44 (34%), Positives = 26/44 (59%), Gaps = 3/44 (6%)
Query: 23 SNTVLELKQEILKQTGVNPERQKLLNLKHAGKIPSDDTKLADTN 66
S+T+ +K +I + G+ P++Q+L+ AGK D L+D N
Sbjct: 20 SDTIENVKAKIQDKEGIPPDQQRLI---FAGKQLEDGRTLSDYN 60
>gnl|CDD|176386 cd01791, Ubl5, UBL5 ubiquitin-like modifier. UBL5 (also known as
HUB1) is a ubiquitin-like modifier that is both widely
expressed and highly phylogenetically conserved. At
the C-terminal end of the ubiquitin-like fold of UBL5
is a di-tyrosine motif followed by a single variable
residue instead of the characteristic di-glycine found
in all other ubiquitin-like modifiers. ULB5 interacts
with a cyclin-like kinase called CLK4 but not with
other cyclin-like kinase family members.
Length = 73
Score = 27.1 bits (60), Expect = 3.3
Identities = 19/60 (31%), Positives = 28/60 (46%), Gaps = 3/60 (5%)
Query: 14 KEYKTSLSKSNTVLELKQEILKQTGVNPERQKLLNLKHAGKIPSDDTKLADTNATDGFKL 73
K+ + + +T+ +LK+ I QTG PE+ + LK I D L D DG L
Sbjct: 12 KKVRVKCNPDDTIGDLKKLIAAQTGTRPEK---IVLKKWYTIFKDHISLGDYEIHDGMNL 68
>gnl|CDD|181629 PRK09057, PRK09057, coproporphyrinogen III oxidase; Provisional.
Length = 380
Score = 29.1 bits (66), Expect = 3.5
Identities = 20/72 (27%), Positives = 28/72 (38%), Gaps = 24/72 (33%)
Query: 241 PSLYNP-TNTIMFDDIRRNFLMNPRNGL--------------RIRPFREAHLNRGS---- 281
PSL P T + D I R + + + R R +R A +NR S
Sbjct: 66 PSLMQPETVAALLDAIARLW--PVADDIEITLEANPTSVEAGRFRGYRAAGVNRVSLGVQ 123
Query: 282 ---DRELKRLGR 290
D +L+ LGR
Sbjct: 124 ALNDADLRFLGR 135
>gnl|CDD|176401 cd01806, Nedd8, Nebb8-like ubiquitin protein. Nedd8 (also known
as Rub1) has a single conserved ubiquitin-like domain
that is part of a protein modification pathway similar
to that of ubiquitin. Nedd8 modifies a family of
molecular scaffold proteins called cullins that are
responsible for assembling the ROC1/Rbx1 RING-based E3
ubiquitin ligases, of which several play a direct role
in tumorigenesis.
Length = 76
Score = 27.1 bits (60), Expect = 3.6
Identities = 16/60 (26%), Positives = 33/60 (55%), Gaps = 3/60 (5%)
Query: 14 KEYKTSLSKSNTVLELKQEILKQTGVNPERQKLLNLKHAGKIPSDDTKLADTNATDGFKL 73
KE + + ++ V +K+ + ++ G+ P++Q+L+ ++GK +DD AD G L
Sbjct: 11 KEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLI---YSGKQMNDDKTAADYKLEGGSVL 67
>gnl|CDD|237955 PRK15389, PRK15389, fumarate hydratase; Provisional.
Length = 536
Score = 29.1 bits (66), Expect = 4.1
Identities = 8/25 (32%), Positives = 14/25 (56%)
Query: 188 MKWIEEKMKLLGVTVNPNYKIAFYV 212
+ ++ EKM+ LG P Y +A +
Sbjct: 208 LAFLVEKMRTLGTAACPPYHLAIVI 232
>gnl|CDD|221064 pfam11294, DUF3095, Protein of unknown function (DUF3095). Some
members in this bacterial family of proteins are
annotated as adenylyl cyclase however this cannot be
confirmed. Currently no function is known.
Length = 373
Score = 28.7 bits (65), Expect = 4.8
Identities = 10/37 (27%), Positives = 15/37 (40%), Gaps = 6/37 (16%)
Query: 173 SAYKNYDIAIWSATGMKWIEEKMKLLGVTVNPNYKIA 209
+A N A++S G+ W E +K Y I
Sbjct: 132 AASPNVSYAMFSGGGLAWAEALIK------AGEYLIP 162
>gnl|CDD|233434 TIGR01484, HAD-SF-IIB, HAD-superfamily hydrolase, subfamily IIB.
This subfamily falls within the Haloacid Dehalogenase
(HAD) superfamily of aspartate-nucleophile hydrolases.
The Class II subfamilies are characterized by a domain
that is located between the second and third conserved
catalytic motifs of the superfamily domain. The IIB
subfamily is distinguished from the IIA subfamily
(TIGR01460) by homology and the predicted secondary
structure of this domain by PSI-PRED. The IIB
subfamily's Class II domain has the following predicted
structure: Helix-Sheet-Sheet-(Helix or
Sheet)-Helix-Sheet-(variable)-Helix-Sheet-Sheet. The IIB
subfamily consists of Trehalose-6-phosphatase
(TIGR00685), plant and cyanobacterial
Sucrose-phosphatase and a closely related group of
bacterial and archaeal sequences, eukaryotic
phosphomannomutase (pfam03332), a large subfamily
("Cof-like hydrolases", TIGR00099) containing many
closely related bacterial sequences, a hypothetical
equivalog containing the E. coli YedP protein, as well
as two small clusters containing OMNI|TC0379 and
OMNI|SA2196 whose relationship to the other groups is
unclear [Unknown function, Enzymes of unknown
specificity].
Length = 204
Score = 28.1 bits (63), Expect = 5.3
Identities = 13/64 (20%), Positives = 23/64 (35%), Gaps = 5/64 (7%)
Query: 140 LLVLDIDYTLFDHRSAAEQGYELMRPYLHEFLTSAYKNYDIAIWSATGMKWIEEKMKLLG 199
LL D+D TL D A + L + + + + I+E +K L
Sbjct: 1 LLFFDLDGTLLDP--NAHELSPETIEALERL---REAGVKVVLVTGRSLAEIKELLKQLP 55
Query: 200 VTVN 203
+ +
Sbjct: 56 LPLI 59
>gnl|CDD|233980 TIGR02712, urea_carbox, urea carboxylase. Members of this family are
ATP-dependent urea carboxylase, including characterized
members from Oleomonas sagaranensis (alpha class
Proteobacterium) and yeasts such as Saccharomyces
cerevisiae. The allophanate hydrolase domain of the yeast
enzyme is not included in this model and is represented
by an adjacent gene in Oleomonas sagaranensis. The fusion
of urea carboxylase and allophanate hydrolase is
designated urea amidolyase. The enzyme from Oleomonas
sagaranensis was shown to be highly active on acetamide
and formamide as well as urea [Central intermediary
metabolism, Nitrogen metabolism].
Length = 1201
Score = 28.8 bits (65), Expect = 5.5
Identities = 26/115 (22%), Positives = 40/115 (34%), Gaps = 26/115 (22%)
Query: 260 LMNPRNGLRIRPFREAHLNRGSDRELKRLGRYLDEIATVEDLTALNHRNWEKYLHAK--- 316
L+ + +R P E L RE GR+ VE+ T + ++++L
Sbjct: 1034 LLRFFDQIRFYPVSEEELLEL--REEFDNGRFKVR---VEE-TVFDLAEYQRFLADNADS 1087
Query: 317 ---HKERKRA---------RRRAMMNRERGGEEEGEEEEDEGEG-----SEITGS 354
KER++ + E EEE D EG SE G+
Sbjct: 1088 IEAFKERQQGAFEAERARWIASGNADLAEEVTEAPEEEADLPEGAEQVESEYAGN 1142
>gnl|CDD|176399 cd01804, midnolin_N, Ubiquitin-like domain of midnolin.
midnolin_N Midnolin (midbrain nucleolar protein) is
expressed in the nucleolus and is thought to regulate
genes involved in neurogenesis. Midnolin contains an
amino-terminal ubiquitin-like domain.
Length = 78
Score = 26.7 bits (59), Expect = 5.7
Identities = 21/65 (32%), Positives = 30/65 (46%), Gaps = 4/65 (6%)
Query: 16 YKTSLSKSNTVLELKQEILKQTGVNPERQKLLNLKHAGKIPSDDTKLADTNATDGFKLMV 75
+ S+ TV LK+ I ++ V ER LL H S KL D DG KL +
Sbjct: 14 FDLSVPPDETVEGLKKRISQRLKVPKERLALL---HRETRLSSG-KLQDLGLGDGSKLTL 69
Query: 76 MGSLE 80
+ ++E
Sbjct: 70 VPTVE 74
>gnl|CDD|234636 PRK00105, cobT, nicotinate-nucleotide--dimethylbenzimidazole
phosphoribosyltransferase; Reviewed.
Length = 335
Score = 28.6 bits (65), Expect = 5.8
Identities = 12/29 (41%), Positives = 14/29 (48%), Gaps = 7/29 (24%)
Query: 146 DYTLFDHRSAAEQGYELM------RPYLH 168
DY +F HRS AE G+ L P L
Sbjct: 270 DYLIFSHRS-AEPGHRLALEHLGLEPLLD 297
>gnl|CDD|129416 TIGR00316, cdhC, CO dehydrogenase/CO-methylating acetyl-CoA
synthase complex, beta subunit. Nomenclature follows
the description for Methanosarcina thermophila. The
CO-methylating acetyl-CoA synthase is considered the
defining enzyme of the Wood-Ljungdahl pathway, used for
acetate catabolism by sulfate reducing bacteria but for
acetate biosynthesis by acetogenic bacteria such as
oorella thermoacetica (f. Clostridium thermoaceticum)
[Energy metabolism, Chemoautotrophy].
Length = 458
Score = 28.7 bits (64), Expect = 6.2
Identities = 25/76 (32%), Positives = 33/76 (43%), Gaps = 9/76 (11%)
Query: 283 RELK-RLGRYL-----DEIATVEDLTALNHRNWEKYLHAK-HKERKRARRRAMMNRERGG 335
+ELK R+ + D+IAT ED + K+L K H KR R
Sbjct: 354 KELKERVKDAIPEDLRDKIATEEDAKTTD--ELRKFLKEKGHPVVKRVVREVDEEEIEEE 411
Query: 336 EEEGEEEEDEGEGSEI 351
EE + EE E EG E+
Sbjct: 412 EEAMQPEEMEMEGFEV 427
>gnl|CDD|216030 pfam00623, RNA_pol_Rpb1_2, RNA polymerase Rpb1, domain 2. RNA
polymerases catalyze the DNA dependent polymerisation of
RNA. Prokaryotes contain a single RNA polymerase
compared to three in eukaryotes (not including
mitochondrial. and chloroplast polymerases). This
domain, domain 2, contains the active site. The
invariant motif -NADFDGD- binds the active site
magnesium ion.
Length = 165
Score = 27.6 bits (62), Expect = 7.1
Identities = 17/59 (28%), Positives = 29/59 (49%), Gaps = 2/59 (3%)
Query: 89 KPLDIPEIVDDFDIEEDQVAIEN-KDIY-LAKIDKRIQDYQIDILNEPRPGKKLLVLDI 145
L PEIV +I++ + + N ++ AK KRI+ + D+ + R +L DI
Sbjct: 31 LELTKPEIVTKLNIKKLRKLVSNGPNVPPGAKYIKRIKGAKRDLEYKKRIAIELWYGDI 89
>gnl|CDD|219900 pfam08553, VID27, VID27 cytoplasmic protein. This is a family of
fungal and plant proteins and contains many hypothetical
proteins. VID27 is a cytoplasmic protein that plays a
potential role in vacuolar protein degradation.
Length = 794
Score = 28.6 bits (64), Expect = 7.2
Identities = 10/20 (50%), Positives = 12/20 (60%)
Query: 336 EEEGEEEEDEGEGSEITGSS 355
EEE EE+EDEG E +
Sbjct: 397 EEEEEEDEDEGPSKEHSDDE 416
>gnl|CDD|234129 TIGR03160, cobT_DBIPRT,
nicotinate-nucleotide--dimethylbenzimidazole
phosphoribosyltransferase. Members of this family are
nicotinate-nucleotide--dimethylbenzimidazole
phosphoribosyltransferase, an enzyme of cobalamin
biosynthesis [Biosynthesis of cofactors, prosthetic
groups, and carriers, Heme, porphyrin, and cobalamin].
Length = 333
Score = 28.3 bits (64), Expect = 7.4
Identities = 10/29 (34%), Positives = 13/29 (44%), Gaps = 7/29 (24%)
Query: 146 DYTLFDHRSAAEQGYELM------RPYLH 168
DY + HRS AE G+ + P L
Sbjct: 270 DYLIASHRS-AEPGHRAVLEALGLEPLLD 297
>gnl|CDD|220786 pfam10501, Ribosomal_L50, Ribosomal subunit 39S. The 39S
ribosomal protein appears to be a subunit of one of the
larger mitochondrial 66S or 70S units. Under conditions
of ethanol-stress in rats the larger subunit is largely
dissociated into its smaller components. In E. coli, in
the absence of the enzyme pseudouridine synthase (RluD)
synthase, there is an accumulation of 50S and 30S
subunits and the appearance of abnormal particles (62S
and 39S), with concomitant loss of 70S ribosomes.
Length = 111
Score = 27.0 bits (60), Expect = 8.0
Identities = 8/24 (33%), Positives = 12/24 (50%)
Query: 20 LSKSNTVLELKQEILKQTGVNPER 43
L +TV +L + K T PE+
Sbjct: 65 LHSLHTVEDLVEFYEKVTPPKPEK 88
>gnl|CDD|176392 cd01797, NIRF_N, amino-terminal ubiquitin-like domain of Np95
and NIRF. NIRF_N This CD represents the
amino-terminal ubiquitin-like domain of a family of
nuclear proteins that includes Np95 and NIRF
(Np95/ICBP90-like RING finger) protein. Both Np95 and
NIRF have a domain architecture consisting of a
ubiquitin-like domain, a PHD finger, a YDG/SRA domain,
Rb-binding motifs and a RING finger domain. Both Np95
and NIRF are ubiquitin ligases that ubiquitinate PCNP
(PEST-containing nuclear proteins). While Np95 is
capable of binding histones, NIRF is involved in cell
cycle regulation.
Length = 78
Score = 25.9 bits (57), Expect = 9.0
Identities = 21/64 (32%), Positives = 31/64 (48%), Gaps = 5/64 (7%)
Query: 19 SLSKSNTVLELKQEILKQTGVNPERQKLLNLKHAGKIPSDDTKLADTNA--TDGFKLMVM 76
SLS+ V EL+++I + V PE Q+L + GK D L D N D +L+V
Sbjct: 18 SLSRLTKVEELREKIQELFNVEPECQRLF---YRGKQMEDGHTLFDYNVGLNDIIQLLVR 74
Query: 77 GSLE 80
+
Sbjct: 75 QDPD 78
>gnl|CDD|216687 pfam01763, Herpes_UL6, Herpesvirus UL6 like. This family consists
of various proteins from the herpesviridae that are
similar to herpes simplex virus type I UL6 virion
protein. UL6 is essential for cleavage and packaging of
the viral genome.
Length = 556
Score = 28.0 bits (63), Expect = 9.5
Identities = 11/31 (35%), Positives = 13/31 (41%), Gaps = 1/31 (3%)
Query: 297 TVEDLTALNHRNWEKYLHAKHKERKRARRRA 327
T+EDL N + K L E R R A
Sbjct: 377 TIEDLKEEN-EDLLKKLRELESELSRLREEA 406
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 0.388
Gapped
Lambda K H
0.267 0.0774 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 19,165,921
Number of extensions: 1947906
Number of successful extensions: 2820
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2779
Number of HSP's successfully gapped: 95
Length of query: 360
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 262
Effective length of database: 6,590,910
Effective search space: 1726818420
Effective search space used: 1726818420
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: 60 (26.8 bits)