RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780384|ref|YP_003064797.1| serralysin [Candidatus
Liberibacter asiaticus str. psy62]
(665 letters)
>gnl|CDD|58577 cd04277, ZnMc_serralysin_like, Zinc-dependent metalloprotease,
serralysin_like subfamily. Serralysins and related
proteases are important virulence factors in pathogenic
bacteria. They may be secreted into the medium via a
mechanism found in gram-negative bacteria, that does not
require n-terminal signal sequences which are cleaved
after the transmembrane translocation. A calcium-binding
domain c-terminal to the metalloprotease domain, which
contains multiple tandem repeats of a nine-residue motif
including the pattern GGxGxD, and which forms a parallel
beta roll may be involved in the translocation mechanism
and/or substrate binding. Serralysin family members may
have a broad spectrum of substrates each, including host
immunoglobulins, complement proteins, cell matrix and
cytoskeletal proteins, as well as antimicrobial
peptides..
Length = 186
Score = 94.4 bits (234), Expect = 9e-20
Identities = 59/171 (34%), Positives = 79/171 (46%), Gaps = 14/171 (8%)
Query: 36 TTHRLSFDITELNPNAQEVARWALGEWSKVVDLTFEETSIHS--DIKFISSNN------- 86
+ + L+ Q AR AL W V D+ F E S +S DI+F +S++
Sbjct: 20 GREEDTTNTAALSAAQQAAARDALEAWEDVADIDFVEVSDNSGADIRFGNSSDPDGNTAG 79
Query: 87 -GYVCTPRYDSRYFMEINFDKADVWRYGIGKGTILSHNALHEIGHALGLMHPGSYNGGYP 145
Y + Y +I F+ + G+ +HEIGHALGL HPG YNGG P
Sbjct: 80 YAYYPGSGSGTAYGGDIWFNSSYDTNSD-SPGSYGYQTIIHEIGHALGLEHPGDYNGGDP 138
Query: 146 VYGVDNDYENDSFLTSVMSYFMPQDSMMDASFGYCATPMVSDIVAVQKIYG 196
V Y DS +VMSY + A GY TPM+ DI A+Q +YG
Sbjct: 139 V---PPTYALDSREYTVMSYNSGYGNGASAGGGYPQTPMLLDIAALQYLYG 186
>gnl|CDD|58578 cd04278, ZnMc_MMP, Zinc-dependent metalloprotease, matrix
metalloproteinase (MMP) sub-family. MMPs are responsible
for a great deal of pericellular proteolysis of
extracellular matrix and cell surface molecules, playing
crucial roles in morphogenesis, cell fate specification,
cell migration, tissue repair, tumorigenesis, gain or
loss of tissue-specific functions, and apoptosis. In
many instances, they are anchored to cell membranes via
trans-membrane domains, and their activity is controlled
via TIMPs (tissue inhibitors of metalloproteinases)..
Length = 157
Score = 52.9 bits (127), Expect = 3e-07
Identities = 40/154 (25%), Positives = 51/154 (33%), Gaps = 41/154 (26%)
Query: 58 ALGEWSKVVDLTFEETSIHSD----IKFISSN----------NGYVCTPRYDSRYFMEIN 103
A WS V LTF E + + I F N G + + +I+
Sbjct: 30 AFRVWSDVTPLTFREVTSGQEADIRISFARGNHGDGYPFDGPGGTLAHAFFPGGIGGDIH 89
Query: 104 FDKADVWRYG-IGKGTILSHNALHEIGHALGLMHPGSYNGGYPVYGVDNDYENDSFLTSV 162
FD + W G GT L A HEIGHALGL H + S+
Sbjct: 90 FDDDEQWTLGSDSGGTDLFSVAAHEIGHALGLGHSSDPD-------------------SI 130
Query: 163 MSYFMPQDSMMDASFGYCATPMVSDIVAVQKIYG 196
M P F DI +Q +YG
Sbjct: 131 MY---PYYQGPVPKF----KLSQDDIRGIQALYG 157
>gnl|CDD|144126 pfam00413, Peptidase_M10, Matrixin. The members of this family are
enzymes that cleave peptides. These proteases require
zinc for catalysis.
Length = 158
Score = 50.3 bits (121), Expect = 2e-06
Identities = 51/181 (28%), Positives = 70/181 (38%), Gaps = 51/181 (28%)
Query: 37 THRLSFDITELNPNAQ-EVARWALGEWSKVVDLTFEETSI-HSDIK--FISSNNGYVCTP 92
T+R+ +L + R A WS+V LTF E +DI F +G P
Sbjct: 8 TYRIVNYTPDLPRDEVRRAIRRAFKVWSEVTPLTFTEVPEGTADIMIGFGRGEHGD-GYP 66
Query: 93 RYDSRY------FM------EINFDKADVWRYGIG--KGTILSHNALHEIGHALGLMHPG 138
+D F +I+FD + W G +GT L A HEIGHALGL H
Sbjct: 67 -FDGPGGVLAHAFFPGPIGGDIHFDDDEQWTVGNESPEGTNLFLVAAHEIGHALGLGH-- 123
Query: 139 SYNGG---YPVYGVDNDYENDSFLTSVMSYFMPQDSMMDASFGYCATPMVSDIVAVQKIY 195
S + YP Y + Y++ F + QD DI +Q +Y
Sbjct: 124 SSDPDAIMYPYY---SPYKDPVFR-------LDQD----------------DIKGIQSLY 157
Query: 196 G 196
G
Sbjct: 158 G 158
>gnl|CDD|36778 KOG1565, KOG1565, KOG1565, Gelatinase A and related matrix
metalloproteases [Posttranslational modification,
protein turnover, chaperones, Extracellular structures].
Length = 469
Score = 49.7 bits (118), Expect = 3e-06
Identities = 45/193 (23%), Positives = 67/193 (34%), Gaps = 57/193 (29%)
Query: 29 RYKPDVLTTHRLSFDITELNPNAQEVARWALGEWSKVVDLTFEETSIHSD----IKFISS 84
++ + LT ++ + A WS V LTF+E + I F
Sbjct: 105 KWNKEHLTYRIKNYTPYLPQAEVRCAKSEAFKLWSDVTPLTFQEVKEEGEADIRISFFPG 164
Query: 85 NNGYVCTPRYDSRYF------------------MEINFDKADVWRYGIGKGTILSHNALH 126
++G D F +++FDK + W YG G L A H
Sbjct: 165 DHG-------DGFPFDGPGGVLAHAFFPGPGIGGDLHFDKDETWTYGDSNGVDLFLVAAH 217
Query: 127 EIGHALGLMHPGSYNGG-YPVYGVDNDYENDSFLTSVMSYFMPQDSMMDASFGYCATPMV 185
EIGHALGL H + YP Y D+ ++ + QD
Sbjct: 218 EIGHALGLGHSSDPDAIMYPFYQPDSG-----------NFDLSQD--------------- 251
Query: 186 SDIVAVQKIYGAP 198
D+ +Q +YG P
Sbjct: 252 -DVRGIQHLYGGP 263
>gnl|CDD|58569 cd04268, ZnMc_MMP_like, Zinc-dependent metalloprotease, MMP_like
subfamily. This group contains matrix metalloproteinases
(MMPs), serralysins, and the astacin_like family of
proteases..
Length = 165
Score = 44.3 bits (104), Expect = 1e-04
Identities = 30/161 (18%), Positives = 55/161 (34%), Gaps = 15/161 (9%)
Query: 45 TELNPNAQEVARWALGEWSKVVDLTFEETSIHS--DIKFISSNNGYVCTPRYDSRYFMEI 102
+ + A+ W+K + F+ + DI+ S S ++
Sbjct: 10 DSVPDKLRAAILDAIEAWNKAFAIGFKNANDVDPADIR-YSVIRWIPYNDGTWSYGPSQV 68
Query: 103 NFDKADVWRYGIGKGT--------ILSHNALHEIGHALGLMHPGSYNGGYPVYGVDNDYE 154
+ ++ + + L + A HE+GHALGL H + + +
Sbjct: 69 DPLTGEILLARVYLYSSFVEYSGARLRNTAEHELGHALGLRHNFAASDRDDNV---DLLA 125
Query: 155 NDSFLTSVMSYFMPQDSMMDASFGYCATPMVSDIVAVQKIY 195
+SVM Y S+ T DI A++K+Y
Sbjct: 126 EKGDTSSVMDYAPSNFSIQLGDGQK-YTIGPYDIAAIKKLY 165
>gnl|CDD|58576 cd04276, ZnMc_MMP_like_2, Zinc-dependent metalloprotease; MMP_like
sub-family 2. A group of bacterial metalloproteinase
domains similar to matrix metalloproteinases and
astacin..
Length = 197
Score = 43.7 bits (103), Expect = 2e-04
Identities = 25/106 (23%), Positives = 36/106 (33%), Gaps = 4/106 (3%)
Query: 95 DSRYFMEINFDKADVWRYGIGKGTILSHNALHEIGHALGLMH--PGSYNGGYPVYGVDND 152
+ + F + D Y L + HE+GH LGL H S +G
Sbjct: 91 KADVILYSGFLRQDQLWYEDLLAASLRYLLAHEVGHTLGLRHNFKASSDGSNEELEDPLG 150
Query: 153 YENDSFLTSVMSYFMPQDSMMDASFG--YCATPMVSDIVAVQKIYG 196
+ +SVM Y P + G Y T D A++ Y
Sbjct: 151 TKEKGATSSVMDYPPPNVAAQGEDQGDYYPPTIGPYDKWAIEYGYT 196
>gnl|CDD|38918 KOG3714, KOG3714, KOG3714, Meprin A metalloprotease
[Posttranslational modification, protein turnover,
chaperones].
Length = 411
Score = 38.3 bits (88), Expect = 0.006
Identities = 22/117 (18%), Positives = 36/117 (30%), Gaps = 22/117 (18%)
Query: 21 QYWSNYFIRYKPDVLTTHRLSFDITELNPNAQEVARWALGEWSKVVDLTFEE-TSIHSDI 79
+ W N I Y D + + + R A+ E + F E T+ D
Sbjct: 80 RRWPNGVIPYYID-----------GSFTSSQRALIRQAMREIENHTCIRFVERTTPDKDY 128
Query: 80 KFISSNNGYVCTPRYDSRYFMEINFDKADVWRYGIGKGTILSHNALHEIGHALGLMH 136
+ + G ++ R+G +HE+ HALG H
Sbjct: 129 LIVFTGGGCYSYVGRRGGGQQLLSLGD-GCDRFGT---------IVHELMHALGFWH 175
>gnl|CDD|58567 cd00203, ZnMc, Zinc-dependent metalloprotease. This super-family of
metalloproteases contains two major branches, the
astacin-like proteases and the
adamalysin/reprolysin-like proteases. Both branches have
wide phylogenetic distribution, and contain
sub-families, which are involved in vertebrate
development and disease..
Length = 167
Score = 38.2 bits (88), Expect = 0.008
Identities = 31/152 (20%), Positives = 50/152 (32%), Gaps = 12/152 (7%)
Query: 50 NAQEVARWALGEWSKVVDLTF---EETSIHSDIKFISSNNGYVCTPRYDSRYFMEINFDK 106
Q + A+ W +++ F +DI + + + + + +
Sbjct: 22 QIQSLILIAMQIWRDYLNIRFVLVGVEIDKADIAILVTRQDFDGGTGGWAYLGRVCDSLR 81
Query: 107 ADVWRYGIGKGTILSHNAL-HEIGHALGLMHPGSYN--GGYPVYGVDNDYENDSFLTSVM 163
GT + HE+GHALG H YP + E+D + SVM
Sbjct: 82 GVGVLQDNQSGTKEGAQTIAHELGHALGFYHDHDRKDRDDYPTIDDTLNAEDDDYY-SVM 140
Query: 164 SYFMPQDSMMDASFGYCATPMVSDIVAVQKIY 195
SY S G DI + K+Y
Sbjct: 141 SYTKGSFSD-----GQRKDFSQCDIDQINKLY 167
>gnl|CDD|32755 COG2931, COG2931, RTX toxins and related Ca2+-binding proteins
[Secondary metabolites biosynthesis, transport, and
catabolism].
Length = 510
Score = 36.5 bits (83), Expect = 0.023
Identities = 24/91 (26%), Positives = 39/91 (42%), Gaps = 3/91 (3%)
Query: 221 TIYDSGGDDLLDLTLIGGVKNYIDLNTESWSSIGGYEKNMTIAQHTVIESVVGSSGNDVV 280
TIY G+D LD + G N TI+ + ++++G +GND +
Sbjct: 323 TIYGGAGNDTLDGGAGNDTLAGNAGALALLNGGDG---NDTISGNDGNDTLIGGAGNDTL 379
Query: 281 IGNSANNVFFESSGNDVFDGSSGLDTFFYYA 311
G + ++ GND G +G DTF +
Sbjct: 380 SGGAGSDTLVGGGGNDTLTGGAGADTFVFGG 410
Score = 29.9 bits (66), Expect = 2.5
Identities = 21/102 (20%), Positives = 37/102 (36%)
Query: 215 DSPFIQTIYDSGGDDLLDLTLIGGVKNYIDLNTESWSSIGGYEKNMTIAQHTVIESVVGS 274
D D + + + L+T + G + T+ +++ G
Sbjct: 42 DLTDGNDTVDVDSAAGGTAADVAALSALVILDTAGDDVLNGTNGSDTLRGGAGNDALTGG 101
Query: 275 SGNDVVIGNSANNVFFESSGNDVFDGSSGLDTFFYYAPSYLY 316
+GND + G + N+ F GND G +G DT A +
Sbjct: 102 AGNDYLDGGAGNDTLFGGDGNDALVGGAGNDTLDGGAGANDT 143
Score = 29.2 bits (64), Expect = 3.4
Identities = 22/92 (23%), Positives = 37/92 (40%), Gaps = 4/92 (4%)
Query: 221 TIYDSGGDDLLDLTLIGGVKNYIDLNTESWSSIGGYEKNMTIAQHTVIESVVGSSGNDVV 280
+ + G +L L N + +G N T+ ++++G +GND +
Sbjct: 240 GVVFADGTTWANLFLQALAIVGGAGNDFT---VGIGNLNDTLKGGAGNDTLLGGAGNDTL 296
Query: 281 I-GNSANNVFFESSGNDVFDGSSGLDTFFYYA 311
G N+ +GND D S G DT + A
Sbjct: 297 TIGGGGNDTLDGGAGNDTLDFSGGDDTIYGGA 328
>gnl|CDD|58579 cd04279, ZnMc_MMP_like_1, Zinc-dependent metalloprotease; MMP_like
sub-family 1. A group of bacterial, archaeal, and fungal
metalloproteinase domains similar to matrix
metalloproteinases and astacin..
Length = 156
Score = 33.9 bits (77), Expect = 0.16
Identities = 27/112 (24%), Positives = 36/112 (32%), Gaps = 15/112 (13%)
Query: 58 ALGEWSKVVDLTFEET---SIHSDIKFISSNNGYVC---TPRYDSRYFMEINFDKADVWR 111
A EW V L F +DI V + + + + ++ R
Sbjct: 29 AAAEWENVGPLKFVYNPEEDNDADIVIFFDRPPPVGGAGGGLARAGFPLISDGNRKLFNR 88
Query: 112 YGIGKGTILSHN-------ALHEIGHALGLMH--PGSYNGGYPVYGVDNDYE 154
I G ALHE+GHALGL H + YP G D
Sbjct: 89 TDINLGPGQPRGAENLQAIALHELGHALGLWHHSDRPEDAMYPSQGQGPDGN 140
>gnl|CDD|58584 cd04327, ZnMc_MMP_like_3, Zinc-dependent metalloprotease; MMP_like
sub-family 3. A group of bacterial and fungal
metalloproteinase domains similar to matrix
metalloproteinases and astacin..
Length = 198
Score = 32.6 bits (74), Expect = 0.40
Identities = 26/86 (30%), Positives = 33/86 (38%), Gaps = 18/86 (20%)
Query: 61 EWSKVVDLTFEE-TSIHSDIKFISSNNG-----YVCTPRYDSRYFME----INFDKADVW 110
EW +L F+ T +DI+ IS G YV T D+ +N W
Sbjct: 31 EWLPYANLKFKFVTDADADIR-ISFTPGDGYWSYVGT---DALLIGADAPTMNLG----W 82
Query: 111 RYGIGKGTILSHNALHEIGHALGLMH 136
S LHE GHALG +H
Sbjct: 83 FTDDTPDPEFSRVVLHEFGHALGFIH 108
>gnl|CDD|58580 cd04280, ZnMc_astacin_like, Zinc-dependent metalloprotease,
astacin_like subfamily or peptidase family M12A, a group
of zinc-dependent proteolytic enzymes with a HExxH
zinc-binding site/active site. Members of this family
may have an amino terminal propeptide, which is cleaved
to yield the active protease domain, which is
consequently always found at the N-terminus in
multi-domain architectures. This family includes:
astacin, a digestive enzyme from Crayfish; meprin, a
multiple domain membrane component that is constructed
from a homologous alpha and beta chain, proteins
involved in (bone) morphogenesis, tolloid from
drosophila, and the sea urchin SPAN protein, which may
also play a role in development..
Length = 180
Score = 31.4 bits (71), Expect = 0.93
Identities = 19/98 (19%), Positives = 31/98 (31%), Gaps = 23/98 (23%)
Query: 45 TELNPNAQEVARWALGEWSKVVDLTFEETSIHSDIKFISSNNGYVCTPRYDSRYFMEINF 104
+ + + + A+ E + F + D I +G C
Sbjct: 10 GSFDESDRSLILRAMREIESNTCIRFVPRTTEKDYIRIVKGSG--C-------------- 53
Query: 105 DKADVWRYG------IGKGTILSHNALHEIGHALGLMH 136
+ V R G +G G +HE+ HALG H
Sbjct: 54 -WSYVGRVGGRQVVSLGSGCFSLGTIVHELMHALGFYH 90
>gnl|CDD|144843 pfam01400, Astacin, Astacin (Peptidase family M12A). The members
of this family are enzymes that cleave peptides. These
proteases require zinc for catalysis. Members of this
family contain two conserved disulphide bridges, these
are joined 1-4 and 2-3. Members of this family have an
amino terminal propeptide which is cleaved to give the
active protease domain. All other linked domains are
found to the carboxyl terminus of this domain. This
family includes: Astacin, a digestive enzyme from
Crayfish. Meprin, a multiple domain membrane component
that is constructed from a homologous alpha and beta
chain. Proteins involved in morphogenesis, and Tolloid
from drosophila.
Length = 192
Score = 30.7 bits (70), Expect = 1.3
Identities = 21/100 (21%), Positives = 36/100 (36%), Gaps = 25/100 (25%)
Query: 45 TELNPNAQEVARWALGEWSKVVDLTFEE--TSIHSDIKFISSNNGYVCTPRYDSRYFMEI 102
+ A+ + R A+ W + + F ++ ++ F +G C
Sbjct: 14 SSFTGLARALIRQAMRHWEQKTCIRFVPRTSAPDNNYLFFFKGDG--CY----------- 60
Query: 103 NFDKADVWRYG------IGKGTILSHNALHEIGHALGLMH 136
+ V R G +G G +HE+GHALG H
Sbjct: 61 ----SYVGRNGGAQPVSLGNGCDKFGIIVHELGHALGFWH 96
>gnl|CDD|32437 COG2256, MGS1, ATPase related to the helicase subunit of the
Holliday junction resolvase [DNA replication,
recombination, and repair].
Length = 436
Score = 30.6 bits (69), Expect = 1.6
Identities = 24/91 (26%), Positives = 37/91 (40%), Gaps = 15/91 (16%)
Query: 492 YDDLRNVFGSDRGA---AARHYITHGVKEGRNPDAFKALEYIA------SHEDLINAFAD 542
YD + + S RG+ AA +Y+ ++ G +P YIA + ED+ A +
Sbjct: 250 YDLISALHKSVRGSDPDAALYYLARMIEAGEDP------LYIARRLVRIASEDIGLADPN 303
Query: 543 APDLVQAGKDHFSNFGYEEGRSITFNPDLYL 573
A + A D G E R +YL
Sbjct: 304 ALQVAVAALDAVERLGSPEARIALAQAVVYL 334
>gnl|CDD|58574 cd04273, ZnMc_ADAMTS_like, Zinc-dependent metalloprotease,
ADAMTS_like subgroup. ADAMs (A Disintegrin And
Metalloprotease) are glycoproteins, which play roles in
cell signaling, cell fusion, and cell-cell interactions.
This particular subfamily represents domain
architectures that combine ADAM-like metalloproteinases
with thrombospondin type-1 repeats. ADAMTS (a
disintegrin and metalloproteinase with thrombospondin
motifs) proteinases are inhibited by TIMPs (tissue
inhibitors of metalloproteinases), and they play roles
in coagulation, angiogenesis, development and
progression of arthritis. They hydrolyze the von
Willebrand factor precursor and various components of
the extracellular matrix..
Length = 207
Score = 29.8 bits (67), Expect = 2.7
Identities = 9/17 (52%), Positives = 11/17 (64%)
Query: 126 HEIGHALGLMHPGSYNG 142
HE+GH LG+ H G N
Sbjct: 146 HELGHVLGMPHDGDGNS 162
>gnl|CDD|38905 KOG3701, KOG3701, KOG3701, TGFbeta receptor signaling protein SMAD
and related proteins [Signal transduction mechanisms,
Transcription].
Length = 411
Score = 29.6 bits (66), Expect = 3.1
Identities = 15/65 (23%), Positives = 25/65 (38%)
Query: 273 GSSGNDVVIGNSANNVFFESSGNDVFDGSSGLDTFFYYAPSYLYKIYRFENAIIVYDANE 332
DV + N ++ F S N + LDT P Y K++ FE A + + +
Sbjct: 291 SYENGDVWLYNLSDYPIFVQSPNLNYPNGRTLDTVHKVPPGYSIKVFDFEFAQQLPTSAD 350
Query: 333 HKQDF 337
+
Sbjct: 351 PGFES 355
>gnl|CDD|35898 KOG0679, KOG0679, KOG0679, Actin-related protein - Arp4p/Act3p
[Cytoskeleton].
Length = 426
Score = 28.7 bits (64), Expect = 5.0
Identities = 11/54 (20%), Positives = 24/54 (44%), Gaps = 3/54 (5%)
Query: 336 DFLSDVERLRFADQCIDSV---NVKQRSILEYTASYEDLIQVIGQDVFESMKHF 386
DFL+D R + I+ + N+ + + +++V D+ ES ++
Sbjct: 189 DFLNDQCRQLLEPKNIEIIPMYNIASKEPVREGYPANAVLRVSIPDLTESYHNY 242
>gnl|CDD|35324 KOG0101, KOG0101, KOG0101, Molecular chaperones HSP70/HSC70, HSP70
superfamily [Posttranslational modification, protein
turnover, chaperones].
Length = 620
Score = 28.5 bits (63), Expect = 5.8
Identities = 21/72 (29%), Positives = 32/72 (44%), Gaps = 8/72 (11%)
Query: 243 IDLNTESWSSIGGYEKN------MTIAQHTVIESVVGSSGNDVVIGNSANNVFFESSGND 296
IDL T ++S +G Y+ T SVV + + +IG++A N + N
Sbjct: 12 IDLGT-TYSCVGVYQSGKVEIIANDQGNRT-TPSVVAFTDTERLIGDAAKNQVARNPDNT 69
Query: 297 VFDGSSGLDTFF 308
VFD + FF
Sbjct: 70 VFDAKRLIGRFF 81
>gnl|CDD|38147 KOG2936, KOG2936, KOG2936, Uncharacterized conserved protein
[Function unknown].
Length = 301
Score = 28.4 bits (63), Expect = 6.9
Identities = 11/45 (24%), Positives = 18/45 (40%), Gaps = 4/45 (8%)
Query: 45 TELNPNAQEVARWALGEWSK----VVDLTFEETSIHSDIKFISSN 85
EL N + V +W L W + LTF E+ + ++
Sbjct: 228 LELEKNKKIVMKWRLKSWPDGHDATITLTFYESQGETKLQVKQKG 272
>gnl|CDD|111944 pfam03104, DNA_pol_B_exo, DNA polymerase family B, exonuclease
domain. This domain has 3' to 5' exonuclease activity
and adopts a ribonuclease H type fold.
Length = 254
Score = 28.1 bits (63), Expect = 7.2
Identities = 10/39 (25%), Positives = 21/39 (53%), Gaps = 6/39 (15%)
Query: 7 VYTTERIADHLLRDQYWSNYFIRYKPDVLTTHRL-SFDI 44
++ +E+ LLR + + +Y PD++T + +FD
Sbjct: 147 IFPSEK---ELLRR--FFEFIRQYDPDIITGYNGDNFDW 180
>gnl|CDD|145911 pfam03013, Pyr_excise, Pyrimidine dimer DNA glycosylase.
Pyrimidine dimer DNA glycosylases excise pyrimidine
dimers by hydrolysis of the glycosylic bond of the 5'
pyrimidine, followed by the intra-pyrimidine
phosphodiester bond. Pyrimidine dimers are the major
UV-lesions of DNA.
Length = 121
Score = 28.4 bits (64), Expect = 7.3
Identities = 6/17 (35%), Positives = 10/17 (58%)
Query: 304 LDTFFYYAPSYLYKIYR 320
+ FFYY YL++ +
Sbjct: 42 VVYFFYYKLYYLFQRHL 58
>gnl|CDD|58575 cd04275, ZnMc_pappalysin_like, Zinc-dependent metalloprotease,
pappalysin_like subfamily. The pregnancy-associated
plasma protein A (PAPP-A or pappalysin-1) cleaves
insulin-like growth factor-binding proteins 4 and 5,
thereby promoting cell growth by releasing bound growth
factor. This model includes pappalysins and related
metalloprotease domains from all three kingdoms of life.
The three-dimensional structure of an archaeal
representative, ulilysin, has been solved..
Length = 225
Score = 28.4 bits (63), Expect = 7.3
Identities = 16/37 (43%), Positives = 19/37 (51%), Gaps = 3/37 (8%)
Query: 120 LSHNALHEIGHALGLMHPGSYNGGYPVYGVDNDYEND 156
L A HE+GH LGL H ++ GG P DY D
Sbjct: 137 LGDTATHEVGHWLGLYH--TFQGGSPCCT-TGDYVAD 170
>gnl|CDD|153372 cd07359, PCA_45_Doxase_B_like, Subunit B of the Class III Extradiol
dioxygenase, Protocatechuate 4,5-dioxygenase, and simlar
enzymes. This subfamily of class III extradiol
dioxygenases consists of a number of proteins with known
enzymatic activities: Protocatechuate (PCA)
4,5-dioxygenase (LigAB), 2,3-dihydroxyphenylpropionate
1,2-dioxygenase (MhpB), 3-O-Methylgallate Dioxygenase,
2-aminophenol 1,6-dioxygenase, as well as proteins
without any known enzymatic activity. These proteins
play essential roles in the degradation of aromatic
compounds by catalyzing the incorporation of both atoms
of molecular oxygen into their preferred substrates. As
members of the Class III extradiol dioxygenase family,
the enzymes use a non-heme Fe(II) to cleave aromatic
rings between a hydroxylated carbon and an adjacent
non-hydroxylated carbon. LigAB-like class III enzymes
are usually composed of two subunits, designated A and
B, which form a tetramer composed of two copies of each
subunit. This model represents the catalytic subunit, B.
Length = 271
Score = 28.0 bits (63), Expect = 8.9
Identities = 26/83 (31%), Positives = 33/83 (39%), Gaps = 13/83 (15%)
Query: 459 APD-LVQVGKDHFSNFGCEEGRFVTF-----DSYL--YLGSYDDLRNVFGSDRGAAARHY 510
PD +V VG DHF+NF F DSY G R D ARH
Sbjct: 44 RPDVVVVVGNDHFTNFF--LDNMPAFAIGIADSYEGPDEGWLGIPRAPVPGDA-DLARHL 100
Query: 511 ITHGVKEGRNPDAFKALEYIASH 533
+ V++G + AF + E H
Sbjct: 101 LAGLVEDGFDV-AF-SYELRLDH 121
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.319 0.137 0.412
Gapped
Lambda K H
0.267 0.0694 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 8,454,851
Number of extensions: 470110
Number of successful extensions: 1056
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1044
Number of HSP's successfully gapped: 38
Length of query: 665
Length of database: 6,263,737
Length adjustment: 100
Effective length of query: 565
Effective length of database: 4,102,837
Effective search space: 2318102905
Effective search space used: 2318102905
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 (21.7 bits)
S2: 61 (27.3 bits)