RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 027832
(218 letters)
>gnl|CDD|211589 TIGR00588, ogg, 8-oxoguanine DNA-glycosylase (ogg). All proteins
in this family for which functions are known are
8-oxo-guanaine DNA glycosylases that function in base
excision repair. This family is based on the
phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis,
Stanford University). This family is distantly realted
to the Nth-MutY superfamily [DNA metabolism, DNA
replication, recombination, and repair].
Length = 310
Score = 118 bits (297), Expect = 3e-32
Identities = 64/183 (34%), Positives = 102/183 (55%), Gaps = 7/183 (3%)
Query: 37 KWTPLNLTQSELSLPLTFPTGQTFRWK-KTGPLQYTGPI---GPHLISLKHLQNGDVCY- 91
+W + + +SEL L L +GQ+FRW+ + P ++G + + +L + +C
Sbjct: 4 RWASIPIPRSELRLDLVLRSGQSFRWRWEESPAHWSGLLVIADQPVWTLTQTEEQLLCTV 63
Query: 92 HIHTSPSEPAAKSALLDFLNMGISLGELWEGFSASDCRFAELAKYLAGARVLRQDPVECL 151
+ P++ ++ L + + +SL +L+ + + D F +A+ G R+LRQDP ECL
Sbjct: 64 YRGDKPTQDELETKLEKYFQLDVSLAQLYTHWGSVDKHFQYVAQKFQGVRLLRQDPFECL 123
Query: 152 LQFLCSSNNNIARITKMVDFLASL-GSHLGNVEGFEFHEFPSLERL-SLVSEVELRNAGF 209
+ F+CSSNNNIARIT+MV+ L G L ++G +H FPSL L +E LR G
Sbjct: 124 ISFICSSNNNIARITRMVERLCQAFGPRLITLDGVTYHGFPSLHALTGPEAEAHLRKLGL 183
Query: 210 GYR 212
GYR
Sbjct: 184 GYR 186
>gnl|CDD|219650 pfam07934, OGG_N, 8-oxoguanine DNA glycosylase, N-terminal domain.
The presence of 8-oxoguanine residues in DNA can give
rise to G-C to T-A transversion mutations. This enzyme
is found in archaeal, bacterial and eukaryotic species,
and is specifically responsible for the process which
leads to the removal of 8-oxoguanine residues. It has
DNA glycosylase activity (EC:3.2.2.23) and DNA lyase
activity (EC:4.2.99.18). The region featured in this
family is the N-terminal domain, which is organised into
a single copy of a TBP-like fold. The domain contributes
residues to the 8-oxoguanine binding pocket.
Length = 113
Score = 108 bits (273), Expect = 1e-30
Identities = 44/114 (38%), Positives = 61/114 (53%), Gaps = 3/114 (2%)
Query: 40 PLNLTQSELSLPLTFPTGQTFRWKKTGPLQYTGPIGPHLISLKHLQNGDVCYHIHTSP-- 97
L L++ EL L LT +GQ+FRWKKT YTG IG ++ LK D+ Y
Sbjct: 1 SLPLSKEELDLKLTLLSGQSFRWKKTEDTSYTGVIGGRVVELKQ-DEDDLEYRFLGKEDL 59
Query: 98 SEPAAKSALLDFLNMGISLGELWEGFSASDCRFAELAKYLAGARVLRQDPVECL 151
A+ L D+ ++ + L +L+E +S D F + A G R+LRQDP ECL
Sbjct: 60 KGKDAEEFLRDYFDLDVDLNDLYEQWSKKDPLFKKAADKFRGLRILRQDPFECL 113
>gnl|CDD|223200 COG0122, AlkA, 3-methyladenine DNA glycosylase/8-oxoguanine DNA
glycosylase [DNA replication, recombination, and
repair].
Length = 285
Score = 57.8 bits (140), Expect = 3e-10
Identities = 29/123 (23%), Positives = 42/123 (34%), Gaps = 6/123 (4%)
Query: 96 SPSEPAAKSALLDFLNMGISLGELWEGFSASDCRFAELAKYLAGARVLRQDPVECLLQFL 155
S S + L L + L L DP E L++ +
Sbjct: 55 SASREPVAEDIEAALRRLFDLDPDLAPIIDALGPLPLLRAP-GLRLPLAPDPFEALVRAI 113
Query: 156 CSSNNNIARITKMVDFLASLGSHLGNVEGFEFHEFPSLERLSLVSEVELRNAGF-GYRCF 214
S ++A K+ L SL GN +H FP+ E+L+ E LR G G +
Sbjct: 114 LSQQVSVAAAAKIWARLVSL---YGNALE-IYHSFPTPEQLAAADEEALRRCGLSGRKAE 169
Query: 215 AIK 217
I
Sbjct: 170 YII 172
>gnl|CDD|238013 cd00056, ENDO3c, endonuclease III; includes endonuclease III
(DNA-(apurinic or apyrimidinic site) lyase), alkylbase
DNA glycosidases (Alka-family) and other DNA
glycosidases.
Length = 158
Score = 34.9 bits (81), Expect = 0.012
Identities = 15/66 (22%), Positives = 21/66 (31%), Gaps = 15/66 (22%)
Query: 149 ECLLQFLCSSNNNIARITKMVDFLASLGSHLGNVEGFEFHEFPSLERLSLVSEVELRNAG 208
E L+ + S + K + L P+ E L+ E ELR
Sbjct: 2 EVLVSEILSQQTTDKAVNKAYERLFERY-------------GPTPEALAAADEEELRELI 48
Query: 209 F--GYR 212
GYR
Sbjct: 49 RSLGYR 54
>gnl|CDD|223017 PHA03235, PHA03235, DNA packaging protein UL33; Provisional.
Length = 409
Score = 32.1 bits (73), Expect = 0.19
Identities = 11/48 (22%), Positives = 16/48 (33%)
Query: 3 SLKNSPSPLKRPRLTPQPPPTPPNPQTLTTNKPSKWTPLNLTQSELSL 50
S +KR + P TP N + L+QS +L
Sbjct: 359 SSGTRQQKIKRSQSLNLPNATPKNKPKTRCAQNDTDNATRLSQSHHNL 406
>gnl|CDD|223021 PHA03247, PHA03247, large tegument protein UL36; Provisional.
Length = 3151
Score = 30.3 bits (68), Expect = 0.92
Identities = 8/39 (20%), Positives = 11/39 (28%)
Query: 3 SLKNSPSPLKRPRLTPQPPPTPPNPQTLTTNKPSKWTPL 41
++ S P P+ PP P P P
Sbjct: 2890 AVSRSTESFALPPDQPERPPQPQAPPPPQPQPQPPPPPQ 2928
>gnl|CDD|237862 PRK14948, PRK14948, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 620
Score = 29.9 bits (68), Expect = 1.0
Identities = 15/53 (28%), Positives = 19/53 (35%), Gaps = 6/53 (11%)
Query: 7 SPSPLKRPRLTPQPPPTPPNPQTLTTNKPSKWTPLNLTQ------SELSLPLT 53
SP P K P P T N + LNL + ++L LP T
Sbjct: 405 SPPPAKASPPIPVPAEPTEPSPTPPANAANAPPSLNLEELWQQILAKLELPST 457
>gnl|CDD|212824 cd11891, MIAL, Melanoma Inhibitory Activity-Like protein. MIAL is
specifically expressed in the cochlea and the vestibule
of the inner ear and may contribute to inner ear
dysfunction in humans. MIAL is a member of the recently
identified family that also includes MIA, MIA2, and MIA3
(also called TANGO); MIA is the most studied member of
the family. MIA is a single domain protein that adopts a
Src Homology 3 (SH3) domain-like fold; it contains an
additional antiparallel beta sheet and two disulfide
bonds compared to classical SH3 domains. MIA is secreted
from malignant melanoma cells and it plays an important
role in melanoma development and invasion. MIA is
expressed by chondrocytes in normal tissues and may be
important in the cartilage cell phenotype. Unlike
classical SH3 domains, MIA does not bind proline-rich
ligands.
Length = 83
Score = 27.5 bits (61), Expect = 1.6
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 114 ISLGELWEGFSASDCRFAELAK 135
ISL + ++A DCRF + K
Sbjct: 11 ISLARAEDDYNAPDCRFINIKK 32
>gnl|CDD|215145 PLN02258, PLN02258, 9-cis-epoxycarotenoid dioxygenase NCED.
Length = 590
Score = 29.3 bits (66), Expect = 1.7
Identities = 12/40 (30%), Positives = 18/40 (45%), Gaps = 1/40 (2%)
Query: 2 QSLKNSPSPLKRPRLTPQPPPTPPNPQTLTTNKPSKWTPL 41
SL ++PS L P+L+ P P T + + PL
Sbjct: 42 SSLLHTPSILPLPKLSS-PSPPSVTLPPAATTQTPQLNPL 80
>gnl|CDD|214684 smart00478, ENDO3c, endonuclease III. includes endonuclease III
(DNA-(apurinic or apyrimidinic site) lyase), alkylbase
DNA glycosidases (Alka-family) and other DNA
glycosidases.
Length = 149
Score = 28.0 bits (63), Expect = 2.6
Identities = 16/61 (26%), Positives = 21/61 (34%), Gaps = 18/61 (29%)
Query: 156 CSSNNNIARITKMVDFLASLGSHLGNVEGFEFHEFPSLERLSLVSEVEL----RNAGFGY 211
S R+ K + L F +FP+ E L+ E EL R GF
Sbjct: 1 LSQQTTDERVNKATERL--------------FEKFPTPEDLAAADEEELEELIRGLGFYR 46
Query: 212 R 212
R
Sbjct: 47 R 47
>gnl|CDD|189052 cd09882, PIN_MtRv0301, PIN domain of the Rv0301 toxin of
Mycobacterium tuberculosis and other uncharacterized,
annotated PilT protein domain proteins. Virulence
associated protein C (VapC)-like PIN (PilT N terminus)
domain of Mycobacterium tuberculosis protein Rv0301 and
similar bacterial proteins are included in this
subfamily. They are PIN domain homologs of the
Mycobacterium tuberculosis VapC and Neisseria
gonorrhoeae FitB toxins of the prokaryotic
toxin/antitoxin operons, VapBC and FitAB, respectively,
which are believed to be involved in growth inhibition
by regulating translation. These toxins are nearly
always co-expressed with an antitoxin, a cognate protein
inhibitor, forming an inert protein complex.
Disassociation of the protein complex activates the
ribonuclease activity of the toxin by an, as yet
undefined mechanism. VapC-like PIN domains are homologs
of flap endonuclease-1 (FEN1)-like PIN domains, but lack
the extensive arch/clamp region and the H3TH
(helix-3-turn-helix) domain, an atypical
helix-hairpin-helix-2-like region, seen in FEN1-like PIN
domains. PIN domains within this subgroup contain four
highly conserved acidic residues. These putative active
site residues are thought to bind Mg2+ and/or Mn2+ ions
and be essential for single-stranded ribonuclease
activity.
Length = 128
Score = 27.6 bits (62), Expect = 2.8
Identities = 18/67 (26%), Positives = 22/67 (32%), Gaps = 10/67 (14%)
Query: 112 MGISLGELWEGFSA-SDCRFAELAKYLAGARVLRQDP-----VECLLQFLCSSNNNIARI 165
GI L E+ A S+ FA L +YL +L LQ R
Sbjct: 34 TGIILLEV--LQGAKSEKDFARLRRYLDSLFLLPPTTARDFIRAAELQRALRKKGITIR- 90
Query: 166 TKMVDFL 172
VD L
Sbjct: 91 -STVDLL 96
>gnl|CDD|225815 COG3276, SelB, Selenocysteine-specific translation elongation
factor [Translation, ribosomal structure and
biogenesis].
Length = 447
Score = 28.1 bits (63), Expect = 3.4
Identities = 13/54 (24%), Positives = 18/54 (33%), Gaps = 1/54 (1%)
Query: 91 YHIHTSPSEPAAKSALLDFLNMGISLGELWEGFSASDC-RFAELAKYLAGARVL 143
HIH + L+ + + G + R LAGARVL
Sbjct: 284 VHIHVGLRSVTGRIVPLEKNAELNLVKPIALGDNDRLVLRDNSAVIKLAGARVL 337
>gnl|CDD|240521 cd13394, Syo1_like, Fungal symportin 1 (syo1) and similar proteins.
This family of eukaryotic proteins includes
Saccharomyces cerevisiae Ydl063c and Chaetomium
thermophilum Syo1, which mediate the co-import of two
ribosomal proteins, Rpl5 and Rpl11 (which both interact
with 5S rRNA) into the nucleus. Import precedes their
association with rRNA and subsequent ribosome assembly
in the nucleolus. The primary structure of syo1 is a
mixture of Armadillo- (ARM, N-terminal part of syo1) and
HEAT-repeats (C-terminal part of syo1).
Length = 597
Score = 28.4 bits (64), Expect = 3.6
Identities = 14/54 (25%), Positives = 27/54 (50%), Gaps = 4/54 (7%)
Query: 133 LAKYLAGARVLRQDP---VECLLQFLCSSNNNIARITKMVDFLASLGSHLGNVE 183
L K L G +L+Q+ ++ L++ ++ ++ + V L SL GN+E
Sbjct: 446 LLKSLGGEILLQQNTHDFIQSLIEA-SKTDADLELRVRCVGVLGSLAQVPGNIE 498
>gnl|CDD|180523 PRK06305, PRK06305, DNA polymerase III subunits gamma and tau;
Validated.
Length = 451
Score = 28.2 bits (63), Expect = 4.0
Identities = 11/67 (16%), Positives = 20/67 (29%), Gaps = 3/67 (4%)
Query: 2 QSLKNSPSPLKRPRLTPQPPPTPPNPQTLTTNKPS-KWTPLNLTQSELSLPLTFPTGQTF 60
+K+ + RL PP + T + P + S L+ +T
Sbjct: 360 SQIKSPA--FTQLRLESCPPQIKSSNSQQTVSSPQPQPVAKLEQGSLLTAASPQTKKETI 417
Query: 61 RWKKTGP 67
+ P
Sbjct: 418 HQEVPSP 424
>gnl|CDD|217006 pfam02382, RTX, RTX N-terminal domain. The RTX family of bacterial
toxins are a group of cytolysins and cytotoxins. This
Pfam family represents the N-terminal domain which is
found in association with a glycine-rich repeat domain
and hemolysinCabind pfam00353.
Length = 653
Score = 28.2 bits (63), Expect = 4.5
Identities = 18/47 (38%), Positives = 21/47 (44%), Gaps = 9/47 (19%)
Query: 161 NIARITKMVD-F---LASLGSHLGNVEGF-----EFHEFPSLERLSL 198
NIA T VD F L LGS L NV+G + P L + L
Sbjct: 191 NIASSTNTVDAFSEQLNKLGSKLQNVKGLGGLGDKLQNLPDLGKAGL 237
>gnl|CDD|188899 cd09500, SAM_AIDA1AB-like_repeat2, SAM domain of AIDA1AB-like
proteins, repeat 2. SAM (sterile alpha motif) domain
repeat 2 of AIDA1AB-like proteins is a protein-protein
interaction domain. AIDA1AB-like proteins have two
tandem SAM domains. They may form an intramolecular
head-to-tail homodimer. One of two basic motifs of the
nuclear localization signal (NLS) is located within
helix 5 of the SAM2 (motif HKRK). This signal plays a
role in decoupling of SAM2 from SAM1, thus facilitating
translocation of this type proteins into the nucleus.
SAM domains of the AIDA1AB-like subfamily can directly
bind ubiquitin and participate in regulating the
degradation of ubiquitinated EphA receptors,
particularly EPH-A8 receptor. Additionally AIDA1AB-like
proteins may participate in the regulation of
nucleoplasmic coilin protein interactions.
Length = 65
Score = 25.7 bits (57), Expect = 4.8
Identities = 15/38 (39%), Positives = 24/38 (63%), Gaps = 3/38 (7%)
Query: 170 DFLASLGSHLGN-VEGFEFHEFPSLERLSLVSEVELRN 206
++L S+ LG+ +E F H + S+ER+ + EVEL N
Sbjct: 10 EWLDSI--GLGDYIETFLKHGYTSMERVKRIWEVELTN 45
>gnl|CDD|218658 pfam05616, Neisseria_TspB, Neisseria meningitidis TspB protein.
This family consists of several Neisseria meningitidis
TspB virulence factor proteins.
Length = 502
Score = 27.6 bits (61), Expect = 5.5
Identities = 11/34 (32%), Positives = 16/34 (47%), Gaps = 3/34 (8%)
Query: 5 KNSPSPLKRPRLTPQPPPTP---PNPQTLTTNKP 35
N+P+P + P P P P P P+ T +P
Sbjct: 342 ANNPNPRENPGTRPNPEPDPDLNPDANPDTDGQP 375
>gnl|CDD|129574 TIGR00483, EF-1_alpha, translation elongation factor EF-1 alpha.
This model represents the counterpart of bacterial EF-Tu
for the Archaea (aEF-1 alpha) and Eukaryotes (eEF-1
alpha). The trusted cutoff is set fairly high so that
incomplete sequences will score between suggested and
trusted cutoff levels [Protein synthesis, Translation
factors].
Length = 426
Score = 27.5 bits (61), Expect = 6.1
Identities = 26/94 (27%), Positives = 42/94 (44%), Gaps = 12/94 (12%)
Query: 79 ISLKHLQNGDVCYHIHTSPSEPAAKSALLDFLNM--GISLG--ELWEGFSAS-DCRFAEL 133
+S K ++ GDVC H P +A + L I++G ++ +A CRF EL
Sbjct: 297 VSKKDIRRGDVCGHPDNPPKVAKEFTAQIVVLQHPGAITVGYTPVFHCHTAQIACRFDEL 356
Query: 134 AKYL--AGARVLRQDPVECLLQFLCSSNNNIARI 165
K +VL ++P QFL + + I +
Sbjct: 357 LKKNDPRTGQVLEENP-----QFLKTGDAAIVKF 385
>gnl|CDD|219448 pfam07522, DRMBL, DNA repair metallo-beta-lactamase. The
metallo-beta-lactamase fold contains five sequence
motifs. The first four motifs are found in pfam00753 and
are common to all metallo-beta-lactamases. The fifth
motif appears to be specific to function. This entry
represents the fifth motif from metallo-beta-lactamases
involved in DNA repair.
Length = 107
Score = 26.5 bits (59), Expect = 6.2
Identities = 19/56 (33%), Positives = 22/56 (39%), Gaps = 12/56 (21%)
Query: 55 PTGQTFRWKKTGPLQYTGPIGPHLISLKHLQNGDVCYHIHTSPSEPAAKSALLDFL 110
PTG TFR KT L P + V Y H+S SE L DF+
Sbjct: 48 PTGWTFRPPKTNVLDRIKPSRGKITIY------GVPYSEHSSFSE------LKDFV 91
>gnl|CDD|215044 PLN00063, PLN00063, photosystem II core complex proteins psbY;
Provisional.
Length = 194
Score = 26.8 bits (59), Expect = 6.9
Identities = 8/42 (19%), Positives = 15/42 (35%), Gaps = 3/42 (7%)
Query: 6 NSPSPLKRPRLTPQPPPT---PPNPQTLTTNKPSKWTPLNLT 44
N+ + +P P+ LT +K + T + T
Sbjct: 15 NARKNPNPSKTKTKPIILLSMQNKPKGLTISKSADNTNVAGT 56
>gnl|CDD|107373 cd06378, PBP1_iGluR_NMDA_NR2, N-terminal
leucine/isoleucine/valine-binding protein (LIVBP)-like
domain of the NR2 subunit of NMDA receptor family.
N-terminal leucine/isoleucine/valine-binding protein
(LIVBP)-like domain of the NR2 subunit of NMDA receptor
family. The ionotropic N-methyl-d-asparate (NMDA)
subtype of glutamate receptor serves critical functions
in neuronal development, functioning, and degeneration
in the mammalian central nervous system. The functional
NMDA receptor is a heterotetramer composed of two NR1
and two NR2 (A, B, C, and D) or of NR3 (A and B)
subunits. The receptor controls a cation channel that
is highly permeable to monovalent ions and calcium and
exhibits voltage-dependent inhibition by magnesium.
Dual agonists, glutamate and glycine, are required for
efficient activation of the NMDA receptor. Among NMDA
receptor subtypes, the NR2B subunit containing
receptors appear particularly important for pain
perception; thus NR2B-selective antagonists may be
useful in the treatment of chronic pain.
Length = 362
Score = 27.3 bits (61), Expect = 7.5
Identities = 9/27 (33%), Positives = 11/27 (40%), Gaps = 3/27 (11%)
Query: 13 RPRLTPQPPPTPP---NPQTLTTNKPS 36
R RLT + P N TL N+
Sbjct: 20 RGRLTKEDFLDLPLDVNVVTLLVNETD 46
>gnl|CDD|216648 pfam01690, PLRV_ORF5, Potato leaf roll virus readthrough protein.
This family consists mainly of the potato leaf roll
virus readthrough protein. This is generated via a
readthrough of open reading frame 3 a coat protein
allowing transcription of open reading frame 5 to give
an extended coat protein with a large c-terminal
addition or read through domain. The readthrough
protein is thought to play a role in the circulative
aphid transmission of potato leaf roll virus. Also in
the family is open reading frame 6 from beet western
yellows virus and potato leaf roll virus both
luteovirus and an unknown protein from cucurbit
aphid-borne yellows virus a closterovirus.
Length = 460
Score = 27.0 bits (60), Expect = 7.9
Identities = 9/22 (40%), Positives = 9/22 (40%)
Query: 7 SPSPLKRPRLTPQPPPTPPNPQ 28
P P P TP PP P P
Sbjct: 4 EPGPKPGPTPTPPPPAPTPEPT 25
>gnl|CDD|217835 pfam03999, MAP65_ASE1, Microtubule associated protein (MAP65/ASE1
family).
Length = 619
Score = 27.1 bits (60), Expect = 8.0
Identities = 16/54 (29%), Positives = 22/54 (40%)
Query: 6 NSPSPLKRPRLTPQPPPTPPNPQTLTTNKPSKWTPLNLTQSELSLPLTFPTGQT 59
P P P T N + +T+N PS NLT+S LS + + T
Sbjct: 457 MEPPYGSTESSVPSTPSTRRNDRNITSNTPSLKRTPNLTKSSLSQEASLISKST 510
>gnl|CDD|199842 cd03858, M14_CP_N-E_like, Peptidase M14 carboxypeptidase subfamily
N/E-like. Carboxypeptidase (CP) N/E-like subfamily of
the M14 family of metallocarboxypeptidases (MCPs). The
M14 family are zinc-binding CPs which hydrolyze single,
C-terminal amino acids from polypeptide chains, and have
a recognition site for the free C-terminal carboxyl
group, which is a key determinant of specificity. The
N/E subfamily includes eight members, of which five
(CPN, CPE, CPM, CPD, CPZ) are considered enzymatically
active, while the other three are non-active (CPX1,
PCX2, ACLP/AEBP1) and lack the critical active site and
substrate-binding residues considered necessary for CP
activity. These non-active members may function as
binding proteins or display catalytic activity towards
other substrates. Unlike the A/B CP subfamily, enzymes
belonging to the N/E subfamily are not produced as
inactive precursors that require proteolysis to produce
the active form; rather, they rely on their substrate
specificity and subcellular compartmentalization to
prevent inappropriate cleavages that would otherwise
damage the cell. In addition, all members of the N/E
subfamily contain an extra C-terminal domain that is not
present in the A/B subfamily. This domain has structural
homology to transthyretin and other proteins and has
been proposed to function as a folding domain. The
active N/E enzymes fulfill a variety of cellular
functions, including prohormone processing, regulation
of peptide hormone activity, alteration of
protein-protein or protein-cell interactions and
transcriptional regulation.
Length = 293
Score = 26.8 bits (60), Expect = 8.1
Identities = 12/41 (29%), Positives = 20/41 (48%), Gaps = 10/41 (24%)
Query: 151 LLQFLCSSNNNIARITKMVD-----FLASLGSHLGNVEGFE 186
L Q+LC + RIT +V+ + S+ N +G+E
Sbjct: 75 LAQYLCENYGGDPRITNLVNSTRIHIMPSM-----NPDGYE 110
>gnl|CDD|237540 PRK13880, PRK13880, conjugal transfer coupling protein TraG;
Provisional.
Length = 636
Score = 27.0 bits (60), Expect = 8.8
Identities = 12/28 (42%), Positives = 18/28 (64%)
Query: 189 EFPSLERLSLVSEVELRNAGFGYRCFAI 216
EFPSL +L ++ E AG+G +C+ I
Sbjct: 451 EFPSLGKLEILQESLAFVAGYGIKCYLI 478
>gnl|CDD|216421 pfam01299, Lamp, Lysosome-associated membrane glycoprotein (Lamp).
Length = 305
Score = 27.0 bits (60), Expect = 9.3
Identities = 14/58 (24%), Positives = 22/58 (37%), Gaps = 12/58 (20%)
Query: 5 KNSPSPLKRPRLTPQPPPTPPNPQTLTTNKPSKWTPLN------LTQSELSLPLTFPT 56
++PSP +P P P P +P ++ N L L L +T+ T
Sbjct: 83 ADTPSPTTVATPSPSPTPVPSSP------AVGNYSVTNGNGTCLLASMGLQLNITYET 134
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
0.318 0.135 0.419
Gapped
Lambda K H
0.267 0.0753 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,022,859
Number of extensions: 981854
Number of successful extensions: 1493
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1442
Number of HSP's successfully gapped: 51
Length of query: 218
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 125
Effective length of database: 6,812,680
Effective search space: 851585000
Effective search space used: 851585000
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 57 (25.7 bits)