RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 002141
(960 letters)
>gnl|CDD|223255 COG0177, Nth, Predicted EndoIII-related endonuclease [DNA
replication, recombination, and repair].
Length = 211
Score = 92.6 bits (231), Expect = 3e-21
Identities = 51/172 (29%), Positives = 73/172 (42%), Gaps = 27/172 (15%)
Query: 441 DWEAVRCADVNKIANTIKERGMNNMLAGRIKDFLNRLVRDHGSVDLEWLRDVPPDKAKEY 500
E + AD ++ IK G+ A IK+ L+ G +VP +E
Sbjct: 60 TPEDLLNADEEELEELIKSIGLYRNKAKNIKELARILLEKFGG-------EVP--DTREE 110
Query: 501 LLSFRGLGLKSVECVRLLTLHHLAFPVDTNVGRIAVRLGWVPLQPLPESLQLHLLELYPV 560
LLS G+G K+ V A VDT+V R++ RLG VP PE ++ L++L P
Sbjct: 111 LLSLPGVGRKTANVVLSFAFGIPAIAVDTHVHRVSNRLGLVP-GKTPEEVEEALMKLIP- 168
Query: 561 LESIQKYLWPRLCKLDQRTLYELHYQMITFGKVFCTKSKPNCNACPMRGECR 612
K LW +LH+ +I G+ C KP C CP+ C
Sbjct: 169 -----KELW-----------TDLHHWLILHGRYICKARKPRCEECPLADLCP 204
>gnl|CDD|216088 pfam00730, HhH-GPD, HhH-GPD superfamily base excision DNA repair
protein. This family contains a diverse range of
structurally related DNA repair proteins. The
superfamily is called the HhH-GPD family after its
hallmark Helix-hairpin-helix and Gly/Pro rich loop
followed by a conserved aspartate. This includes
endonuclease III, EC:4.2.99.18 and MutY an A/G-specific
adenine glycosylase, both have a C terminal 4Fe-4S
cluster. The family also includes 8-oxoguanine DNA
glycosylases. The methyl-CPG binding protein MBD4 also
contains a related domain that is a thymine DNA
glycosylase. The family also includes
DNA-3-methyladenine glycosylase II EC:3.2.2.21 and other
members of the AlkA family.
Length = 144
Score = 77.8 bits (192), Expect = 8e-17
Identities = 37/120 (30%), Positives = 55/120 (45%), Gaps = 10/120 (8%)
Query: 443 EAVRCADVNKIANTIKERGMNNMLAGRIKDFLNRLVRDHGSVDLEWLRDVPPD-KAKEYL 501
E + AD ++ IK G A IK+ LV + VP D + E L
Sbjct: 31 EDLAEADEEELRELIKGLGFYRRKAKYIKELARILVEGYLG-------LVPLDLEELEAL 83
Query: 502 LSFRGLGLKSVECVRLLTLHH--LAFPVDTNVGRIAVRLGWVPLQPLPESLQLHLLELYP 559
L+ G+G + E V L L + VDT+V R+A RLG + +P + ++ L EL+P
Sbjct: 84 LALPGVGRWTAEAVLLFALGRPDVFPAVDTHVRRVAKRLGLIDTKPPKKEVERELEELWP 143
>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 = 75.8 bits (187), Expect = 5e-16
Identities = 41/150 (27%), Positives = 61/150 (40%), Gaps = 26/150 (17%)
Query: 443 EAVRCADVNKIANTIKERGMNNMLAGRIKDFLNRLVRDHGSVDLEWLRDVPPDKAKEYLL 502
E + AD ++ I+ G A + + LV ++G PD +E LL
Sbjct: 25 EDLAAADEEELEELIRGLGFYRRKARYLIELARILVEEYGGE--------VPDDREE-LL 75
Query: 503 SFRGLGLKSVECVRLLTLHHLAFPVDTNVGRIAVRLGWVPLQPLPESLQLHLLELYPVLE 562
G+G K+ V L PVDT+V RIA RLG V + PE ++ L +L P
Sbjct: 76 KLPGVGRKTANAVLSFALGKPFIPVDTHVLRIAKRLGLVDKKSTPEEVEKLLEKLLP--- 132
Query: 563 SIQKYLWPRLCKLDQRTLYELHYQMITFGK 592
+ EL+ +I FG+
Sbjct: 133 --------------EEDWRELNLLLIDFGR 148
>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 = 73.0 bits (180), Expect = 6e-15
Identities = 40/119 (33%), Positives = 57/119 (47%), Gaps = 7/119 (5%)
Query: 441 DWEAVRCADVNKIANTIKERGMNNMLAGRIKDFLNRLVRDHGSVDLEWLRDVPPDKAKEY 500
EA+ AD ++ I+ G A +K+ +V G + L A+E
Sbjct: 32 TPEALAAADEEELRELIRSLGYRRK-AKYLKELARAIVEGFGGLVL------DDPDAREE 84
Query: 501 LLSFRGLGLKSVECVRLLTLHHLAFPVDTNVGRIAVRLGWVPLQPLPESLQLHLLELYP 559
LL+ G+G K+ V L L AFPVDT+V R+ RLG +P + PE L+ L EL P
Sbjct: 85 LLALPGVGRKTANVVLLFALGPDAFPVDTHVRRVLKRLGLIPKKKTPEELEELLEELLP 143
>gnl|CDD|225140 COG2231, COG2231, Uncharacterized protein related to Endonuclease
III [DNA replication, recombination, and repair].
Length = 215
Score = 60.8 bits (148), Expect = 3e-10
Identities = 40/177 (22%), Positives = 72/177 (40%), Gaps = 22/177 (12%)
Query: 437 KDSLDWEAVRCADVNKIANTIKERGMNNMLAGRIKDFLNRLVRDHGSVDLEWLRDVPPDK 496
+ L+ + + D ++A I+ G N A R+K L + +++ +
Sbjct: 58 EGILNLKKILKLDEEELAELIRPSGFYNQKAKRLKALSKNLAKFFINLE-----SFKSEV 112
Query: 497 AKEYLLSFRGLGLKSVECVRLLTLHHLAFPVDTNVGRIAVRLGWVPLQPLPESLQLHLLE 556
+E LLS +G+G ++ + + L L F VD R+ RLG
Sbjct: 113 LREELLSIKGIGKETADSILLYALDRPVFVVDKYTRRLLSRLG---------------GI 157
Query: 557 LYPVLESIQKYLWPRLCKLDQRTLYELHYQMITFGKVFCTKSKPNCNACPMRGECRH 613
+ I++ L + + R E H ++ K FC K KP C CP++ +C+
Sbjct: 158 EEKKYDEIKELFEENLPE-NLRLYQEFHALIVEHAKHFCKK-KPLCEKCPLKEKCKK 212
>gnl|CDD|130155 TIGR01083, nth, endonuclease III. This equivalog model identifes
nth members of the pfam00730 superfamily (HhH-GPD:
Helix-hairpin-helix and Gly/Pro rich loop followed by a
conserved aspartate). The major members of the
superfamily are nth and mutY [DNA metabolism, DNA
replication, recombination, and repair].
Length = 191
Score = 52.0 bits (125), Expect = 2e-07
Identities = 39/155 (25%), Positives = 62/155 (40%), Gaps = 27/155 (17%)
Query: 448 ADVNKIANTIKERGMNNMLAGRIKDFLNRLVRDHGSVDLEWLRDVPPDKAKEYLLSFRGL 507
A + ++ IK G+ A I LV +G VP D+ + L+ G+
Sbjct: 64 AGLEELEEYIKSIGLYRNKAKNIIALCRILVERYGGE-------VPEDREE--LVKLPGV 114
Query: 508 GLKSVECVRLLTLHHLAFPVDTNVGRIAVRLGWVPLQPLPESLQLHLLELYPVLESIQKY 567
G K+ V + A VDT+V R++ RLG P+ ++ LL+L P
Sbjct: 115 GRKTANVVLNVAFGIPAIAVDTHVFRVSNRLGLSK-GKDPDKVEEELLKLIP-------- 165
Query: 568 LWPRLCKLDQRTLYELHYQMITFGKVFCTKSKPNC 602
+ +LH+ +I G+ C KP C
Sbjct: 166 ---------REFWTKLHHWLILHGRYTCKARKPLC 191
>gnl|CDD|223200 COG0122, AlkA, 3-methyladenine DNA glycosylase/8-oxoguanine DNA
glycosylase [DNA replication, recombination, and
repair].
Length = 285
Score = 45.5 bits (108), Expect = 6e-05
Identities = 32/156 (20%), Positives = 56/156 (35%), Gaps = 10/156 (6%)
Query: 416 WDSLRRQVEANGGKKERPEHTKDSLDWEAVRCADVNKIANTIKERGMNNMLAGRIKDFLN 475
+ ++ + G H+ + E + AD ++ G++ A I
Sbjct: 123 AAKIWARLVSLYGNALEIYHSFPTP--EQLAAADEE----ALRRCGLSGRKAEYIISLAR 176
Query: 476 RLVRDHGSVDLEWLRDVPPDKAKEYLLSFRGLGLKSVECVRLLTLHHL-AFPVDTNVGRI 534
G +DL L+ + ++A E L + +G+G + E L L FP D R
Sbjct: 177 AAAE--GELDLSELKPLSDEEAIEELTALKGIGPWTAEMFLLFGLGRPDVFPADDLGLRR 234
Query: 535 AVRLGWVPLQPLPESLQLHLLELYPVLESI-QKYLW 569
A++ + E L E + S YLW
Sbjct: 235 AIKKLYRLPTRPTEKEVRELAERWGPYRSYAALYLW 270
>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 = 43.4 bits (102), Expect = 3e-04
Identities = 21/57 (36%), Positives = 30/57 (52%), Gaps = 1/57 (1%)
Query: 482 GSVDLEWLRDVPPDKAKEYLLSFRGLGLKSVECVRLLTLHHL-AFPVDTNVGRIAVR 537
G L+ +R + A+E L G+G K +C+ L+ L A PVD +V RIA R
Sbjct: 203 GRAWLQQIRGASYEDAREALCELPGVGPKVADCICLMGLDKPQAVPVDVHVWRIANR 259
>gnl|CDD|197771 smart00525, FES, iron-sulpphur binding domain in DNA-(apurinic or
apyrimidinic site) lyase (subfamily of ENDO3).
Length = 21
Score = 35.6 bits (83), Expect = 0.003
Identities = 8/21 (38%), Positives = 12/21 (57%)
Query: 594 FCTKSKPNCNACPMRGECRHF 614
CT KP C+ CP++ C +
Sbjct: 1 ICTARKPRCDECPLKDLCPAY 21
>gnl|CDD|224115 COG1194, MutY, A/G-specific DNA glycosylase [DNA replication,
recombination, and repair].
Length = 342
Score = 40.0 bits (94), Expect = 0.005
Identities = 22/88 (25%), Positives = 29/88 (32%), Gaps = 16/88 (18%)
Query: 527 VDTNVGRIAVRLGWVPLQPLPESLQLHLLELYPVLESIQKYLWPRL-CKLDQRTLYELHY 585
+D NV R+ RL + +K LW L
Sbjct: 141 LDGNVKRVLSRL--------------FAISGDIGKPKTKKELWELAEQLLTPDRRPGDFN 186
Query: 586 Q-MITFGKVFCTKSKPNCNACPMRGECR 612
Q M+ G CT KP C+ CP+R C
Sbjct: 187 QAMMDLGATICTAKKPKCSLCPLRDNCA 214
>gnl|CDD|219668 pfam07964, Red1, Rec10 / Red1. Rec10 / Red1 is involved in meiotic
recombination and chromosome segregation during
homologous chromosome formation. This protein localises
to the synaptonemal complex in S. cerevisiae and the
analogous structures (linear elements) in S. pombe. This
family is currently only found in fungi.
Length = 706
Score = 38.3 bits (89), Expect = 0.022
Identities = 57/328 (17%), Positives = 115/328 (35%), Gaps = 36/328 (10%)
Query: 144 FADGTISSSNSNSDAGDSSNVPTLNSFNGSNSFVELLQMVGSTMLHGNYNHRNGHMSSDE 203
F D I SS + + +NVPT + + + L M ++ N + + E
Sbjct: 244 FEDEIIESSVQDEECSREANVPTQDIEANTK---DSLHMSAQD-----NHYDNTQLQTPE 295
Query: 204 NSKDEHSQFQTLESNTQRVKVKDIDDPKVLSRVSSIPPSSFHPCLTQDLS--VEVESYEM 261
S S L+ + + K+K + K+ S SIP +S+ L ++ S V ++ ++
Sbjct: 296 RSTKRKSPIWDLKEDQKESKIKSGTNLKLSSEKESIPETSYVNVLEEEQSPLVRLQKRKL 355
Query: 262 RREETRSSGI-SDVTDKIALMPEFASQTTDATKLIVAGPEAPRHGNKQSRNSMQANKNSI 320
R +++ +V + + +S + E+P+ + + + I
Sbjct: 356 ARSTSKTLESLKEVFED-----QASSVKNKQAQSEENLNESPKTPIAVTGDPHLKDPTII 410
Query: 321 AQHE--SELFGDSRFAMEPPAHAQKNDLNLPKISSGSIDAIESHNALYNRENTQLKSSVS 378
A + ++L + P + + S D N +T S VS
Sbjct: 411 AGKKLMNKLTSEKINN--PVKVVKVSKYK-GNKSEKKRDI--------NVLDTIFASPVS 459
Query: 379 DQNKY--DHSFSKELNGIDDATSKSKSTRVSKEKQNDFD-----WDSLRRQVEANGGKKE 431
+ + S +L +KSK + QN + + + G+
Sbjct: 460 KELRKKVGKSKQTKLKNFKPVPNKSKKQLANNNSQNIKSKKVVKAKTNNKANLQDVGECS 519
Query: 432 RPEHTKDSLDWEAVRCADVNKIANTIKE 459
P + K+ D + + V K + E
Sbjct: 520 SPPNNKEKNDKQTSTSSSVLKSDRSSIE 547
>gnl|CDD|204516 pfam10576, EndIII_4Fe-2S, Iron-sulfur binding domain of
endonuclease III. Escherichia coli endonuclease III (EC
4.2.99.18) is a DNA repair enzyme that acts both as a
DNA N-glycosylase, removing oxidized pyrimidines from
DNA, and as an apurinic/apyrimidinic (AP) endonuclease,
introducing a single-strand nick at the site from which
the damaged base was removed. Endonuclease III is an
iron-sulfur protein that binds a single 4Fe-4S cluster.
The 4Fe-4S cluster does not seem to be important for
catalytic activity, but is probably involved in the
proper positioning of the enzyme along the DNA strand.
The 4Fe-4S cluster is bound by four cysteines which are
all located in a 17 amino acid region at the C-terminal
end of endonuclease III. A similar region is also
present in the central section of mutY and in the
C-terminus of ORF-10 and of the Micro-coccus UV
endonuclease.
Length = 17
Score = 32.8 bits (76), Expect = 0.027
Identities = 8/17 (47%), Positives = 9/17 (52%)
Query: 595 CTKSKPNCNACPMRGEC 611
CT KP C CP+ C
Sbjct: 1 CTARKPKCEECPLADLC 17
>gnl|CDD|130156 TIGR01084, mutY, A/G-specific adenine glycosylase. This equivalog
model identifies mutY members of the pfam00730
superfamily (HhH-GPD: Helix-hairpin-helix and Gly/Pro
rich loop followed by a conserved aspartate). The major
members of the superfamily are nth and mutY [DNA
metabolism, DNA replication, recombination, and repair].
Length = 275
Score = 36.2 bits (84), Expect = 0.058
Identities = 13/55 (23%), Positives = 22/55 (40%), Gaps = 5/55 (9%)
Query: 587 MITFGKVFCTKSKPNCNACPMRGECRHFASAFASSRLA-LPGPEEKAIVSANENR 640
++ G + CT+ KP C+ CP++ C A+ P + KA
Sbjct: 180 LMDLGAMICTRKKPKCDLCPLQDFC----LAYQQGTWEEYPVKKPKAAPPERTTY 230
>gnl|CDD|182661 PRK10702, PRK10702, endonuclease III; Provisional.
Length = 211
Score = 35.4 bits (81), Expect = 0.088
Identities = 36/162 (22%), Positives = 62/162 (38%), Gaps = 27/162 (16%)
Query: 450 VNKIANTIKERGMNNMLAGRIKDFLNRLVRDHGSVDLEWLRDVPPDKAKEYLLSFRGLGL 509
V + IK G+ N A + L+ H +VP D+A L + G+G
Sbjct: 69 VEGVKTYIKTIGLYNSKAENVIKTCRILLEQHNG-------EVPEDRAA--LEALPGVGR 119
Query: 510 KSVECVRLLTLHHLAFPVDTNVGRIAVRLGWVPLQPLPESLQLHLLELYPVLESIQKYLW 569
K+ V VDT++ R+ R + P + + E ++ LL++ P +
Sbjct: 120 KTANVVLNTAFGWPTIAVDTHIFRVCNRTQFAPGKNV-EQVEEKLLKVVPAEFKV----- 173
Query: 570 PRLCKLDQRTLYELHYQMITFGKVFCTKSKPNCNACPMRGEC 611
+ H+ +I G+ C KP C +C + C
Sbjct: 174 ------------DCHHWLILHGRYTCIARKPRCGSCIIEDLC 203
>gnl|CDD|217595 pfam03514, GRAS, GRAS family transcription factor. Sequence
analysis of the products of the GRAS (GAI, RGA, SCR)
gene family indicates that they share a variable
amino-terminus and a highly conserved carboxyl-terminus
that contains five recognisable motifs. Proteins in the
GRAS family are transcription factors that seem to be
involved in development and other processes. Mutation of
the SCARECROW (SCR) gene results in a radial pattern
defect, loss of a ground tissue layer, in the root. The
PAT1 protein is involved in phytochrome A signal
transduction.
Length = 372
Score = 35.7 bits (83), Expect = 0.099
Identities = 19/64 (29%), Positives = 32/64 (50%), Gaps = 6/64 (9%)
Query: 12 LLHSFDCFSSAFMSLAANFPLNSKQKP-----CHGEEITSVIE-EPAEYVLDPEDTIEWK 65
+ + +S+ F SL A P +S+++ G EI +V+ E AE V E +W+
Sbjct: 255 FVEALHYYSALFDSLEATLPRDSEERRKVERELLGREIVNVVACEGAERVERHETFGKWR 314
Query: 66 EKMS 69
E+M
Sbjct: 315 ERMR 318
>gnl|CDD|188941 cd09542, SAM_EPH-A1, SAM domain of EPH-A1 subfamily of tyrosine
kinase receptors. SAM (sterile alpha motif) domain of
EPH-A1 subfamily of the receptor tyrosine kinases is a
C-terminal protein-protein interaction domain. This
domain is located in the cytoplasmic region of EPH-A1
receptors and appears to mediate cell-cell initiated
signal transduction. Activation of these receptors leads
to inhibition of cell spreading and migration in a
RhoA-ROCK-dependent manner. EPH-A1 receptors are known
to bind ILK (integrin-linked kinase) which is the
mediator of interactions between integrin and the actin
cytoskeleton. However SAM is not sufficient for this
interaction; it rather plays an ancillary role. SAM
domains of Eph-A1 receptors do not form homo/hetero
dimers/oligomers. EphA1 gene was found expressed widely
in differentiated epithelial cells. In a number of
different malignant tumors EphA1 genes are
downregulated. In breast carcinoma the downregulation is
associated with invasive behavior of the cell.
Length = 63
Score = 31.9 bits (72), Expect = 0.16
Identities = 16/37 (43%), Positives = 20/37 (54%), Gaps = 3/37 (8%)
Query: 487 EWLRDVPPDKAKEYLLSFRGLGLKSVECVRLLTLHHL 523
EWL + K Y+L FR GL ++ECV LT L
Sbjct: 9 EWLESIR---MKRYILHFRSAGLDTMECVLELTAEDL 42
>gnl|CDD|182805 PRK10880, PRK10880, adenine DNA glycosylase; Provisional.
Length = 350
Score = 34.7 bits (80), Expect = 0.21
Identities = 12/29 (41%), Positives = 18/29 (62%)
Query: 587 MITFGKVFCTKSKPNCNACPMRGECRHFA 615
M+ G + CT+SKP C CP++ C +A
Sbjct: 184 MMDLGAMVCTRSKPKCELCPLQNGCIAYA 212
>gnl|CDD|184113 PRK13526, PRK13526, glutamine amidotransferase subunit PdxT;
Provisional.
Length = 179
Score = 31.5 bits (71), Expect = 1.3
Identities = 14/27 (51%), Positives = 18/27 (66%)
Query: 228 DDPKVLSRVSSIPPSSFHPCLTQDLSV 254
+ VL R ++I SSFHP LTQD +V
Sbjct: 146 QNSPVLLRQANILVSSFHPELTQDPTV 172
>gnl|CDD|211591 TIGR00632, vsr, DNA mismatch endonuclease Vsr. All proteins in
this family for which functions are known are G:T
mismatch endonucleases that function in a specialized
mismatch repair process used usually to repair G:T
mismatches in specific sections of the genome. This
family was based on the phylogenomic analysis of JA
Eisen (1999, Ph.D. Thesis, Stanford University). Members
of this family typically are found near to a DNA
cytosine methyltransferase [DNA metabolism, DNA
replication, recombination, and repair].
Length = 117
Score = 29.0 bits (65), Expect = 4.6
Identities = 9/20 (45%), Positives = 11/20 (55%)
Query: 913 IQHCFWRGYVCVRGFDQKSR 932
I CFW G+ C G K+R
Sbjct: 62 IHGCFWHGHHCYLGKVPKTR 81
>gnl|CDD|219500 pfam07655, Secretin_N_2, Secretin N-terminal domain. This is a
short domain found in bacterial type II/III secretory
system proteins. The architecture of these proteins
suggest that this family may be functionally analogous
to pfam03958.
Length = 95
Score = 28.4 bits (64), Expect = 5.2
Identities = 13/29 (44%), Positives = 17/29 (58%), Gaps = 1/29 (3%)
Query: 147 GTISSSNSNSDAGDSSNVPTLNSFNGSNS 175
G++SSS SNS SSN S + S+S
Sbjct: 24 GSVSSSGSNSS-SSSSNSSNGGSSSSSSS 51
>gnl|CDD|220339 pfam09674, DUF2400, Protein of unknown function (DUF2400). Members
of this uncharacterized protein family are found
sporadically, so far only among spirochetes, epsilon and
delta proteobacteria, and Bacteroides. The function is
unknown and its gene neighborhoods show little
conservation.
Length = 230
Score = 29.9 bits (68), Expect = 6.1
Identities = 16/71 (22%), Positives = 24/71 (33%), Gaps = 26/71 (36%)
Query: 469 RIKDFLNRLVRDHGSVDLEWLRDVPPDKAKEYLLSFRGLGLKSVECVRLLTLHHLAFPVD 528
R+ FL +VR VD + + P L P+D
Sbjct: 145 RLNMFLRWMVRKDDGVDFGIWKSISPS--------------------------QLIIPLD 178
Query: 529 TNVGRIAVRLG 539
T+ R+A +LG
Sbjct: 179 THTHRVARKLG 189
>gnl|CDD|193456 pfam12983, DUF3867, Protein of unknown function (DUF3867). This
family of proteins is functionally uncharacterized. This
family of proteins is found in bacteria. Proteins in
this family are approximately 190 amino acids in length.
Length = 186
Score = 29.3 bits (66), Expect = 6.1
Identities = 8/18 (44%), Positives = 13/18 (72%)
Query: 712 KLNMKEFTQTLQNYMQEN 729
KL M +F++ + YM+EN
Sbjct: 36 KLTMSDFSKKIMEYMEEN 53
>gnl|CDD|177642 PHA03414, PHA03414, virion protein; Provisional.
Length = 1337
Score = 30.1 bits (67), Expect = 7.8
Identities = 20/74 (27%), Positives = 33/74 (44%), Gaps = 3/74 (4%)
Query: 397 ATSKSKSTRVSKEKQNDFDWDSLRRQVEANGGKKERPEHTKDSLDWEAVRCADVNKIANT 456
A + RV ++ D DW + +V + R S++W A ADVN + NT
Sbjct: 1102 AQGDEAALRVLQQYGKDVDWTPVLARVRGYVTYRGR---NAQSMNWGAWSQADVNTVMNT 1158
Query: 457 IKERGMNNMLAGRI 470
+++L GR+
Sbjct: 1159 ALRIMDDSLLYGRV 1172
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
0.314 0.130 0.380
Gapped
Lambda K H
0.267 0.0806 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 46,818,741
Number of extensions: 4445617
Number of successful extensions: 2742
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2724
Number of HSP's successfully gapped: 32
Length of query: 960
Length of database: 10,937,602
Length adjustment: 106
Effective length of query: 854
Effective length of database: 6,236,078
Effective search space: 5325610612
Effective search space used: 5325610612
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 64 (28.3 bits)