RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780700|ref|YP_003065113.1| serine protease DO-like
protease [Candidatus Liberibacter asiaticus str. psy62]
(489 letters)
>gnl|CDD|30614 COG0265, DegQ, Trypsin-like serine proteases, typically
periplasmic, contain C-terminal PDZ domain
[Posttranslational modification, protein turnover,
chaperones].
Length = 347
Score = 209 bits (532), Expect = 1e-54
Identities = 112/286 (39%), Positives = 162/286 (56%), Gaps = 5/286 (1%)
Query: 99 PILSDTVERLMFGSGFFITDDGYILTSNHIVEDGASFSVILSDDTELPAKLVGTDALFDL 158
P GSGF I+ DGYI+T+NH++ +V L+D E+PAKLVG D + DL
Sbjct: 62 PSDPPLRSAEGLGSGFIISSDGYIVTNNHVIAGAEEITVTLADGREVPAKLVGKDPISDL 121
Query: 159 AVLKVQSDRKFIPVEFEDANNIRVGEAVFTIGNPFRLRGTVSAGIVSALDRD---IPDRP 215
AVLK+ + D++ +RVG+ V IGNPF L TV++GIVSAL R
Sbjct: 122 AVLKIDGAGGLPVIALGDSDKLRVGDVVVAIGNPFGLGQTVTSGIVSALGRTGVGSAGGY 181
Query: 216 GTFTQIDAPINQGNSGGPCFNALGHVIGVNAMIVTSGQFHMGVGLIIPLSIIKKAIPSLI 275
F Q DA IN GNSGGP N G V+G+N I+ G+G IP++++ + LI
Sbjct: 182 VNFIQTDAAINPGNSGGPLVNIDGEVVGINTAIIAPSGGSSGIGFAIPVNLVAPVLDELI 241
Query: 276 SKGRVDHGWFGIMTQNLTQELAIPLGLRGTKGSLITAVVKESPADKAGMKVGDVICMLDG 335
SKG+V G+ G++ + LT ++A LGL G+++ V+ SPA KAG+K GD+I ++G
Sbjct: 242 SKGKVVRGYLGVIGEPLTADIA--LGLPVAAGAVVLGVLPGSPAAKAGIKAGDIITAVNG 299
Query: 336 RIIKSHQDFVWQIASRSPKEQVKISLCKEGSKHSVAVVLGSSPTAK 381
+ + S D V +AS P ++V + L + G + +AV LG
Sbjct: 300 KPVASLSDLVAAVASNRPGDEVALKLLRGGKERELAVTLGDRSPLS 345
>gnl|CDD|36534 KOG1320, KOG1320, KOG1320, Serine protease [Posttranslational
modification, protein turnover, chaperones].
Length = 473
Score = 92.7 bits (230), Expect = 2e-19
Identities = 81/326 (24%), Positives = 134/326 (41%), Gaps = 46/326 (14%)
Query: 86 FRKDFHKFFSGEEPILSDTVERLMFGSGFFITDDGYILTSNHIVEDGA-----SFSVILS 140
F K + F G+ P L+ GSGF + DG I+T+ H+V S +V+L
Sbjct: 149 FWKGMNPFELGDIPSLN--------GSGFVVGGDGIIVTNGHVVRVEPRIYAHSSTVLLR 200
Query: 141 DDTEL--------PAKLVGTDALFDLAVLKVQSDRKFIPV-EFEDANNIRVGEAVFTIGN 191
+ +VG D + +A LK+++ + V +++ R G V IGN
Sbjct: 201 VQIDAAIGPGNSGEPVIVGVDKVAGVAFLKIKTPENILYVIPLGVSSHFRTGVEVSAIGN 260
Query: 192 PFRLRGTVSAGIVSALDRDIPDRPGTFT-------QIDAPINQGNSGGPCFNALGHVIGV 244
F L T++ G+VS R Q DA IN GNSGGP N G VIGV
Sbjct: 261 GFGLLNTLTQGMVSGQLRKSFKLGLETGVLISKINQTDAAINPGNSGGPLLNLDGEVIGV 320
Query: 245 NAMIVTSGQFHMGVGLIIPLSIIKKAIPSLISKGRV---------DHGWFGIMTQNLTQE 295
N VT F G+ IP+ + + L H + G+ + +
Sbjct: 321 NTRKVTRIGFSHGISFKIPIDTVLVIVLRLGEFQISLRPVKPLVPVHQYIGLPSYYIFAG 380
Query: 296 LAIPLGLR-------GTKGSLITAVVKESPADKAGMKVGDVICMLDGRIIKSHQDFVWQI 348
L + + L++ V+ S G+K GD + ++G+ +K+ + I
Sbjct: 381 LVFVPLTKSYIFPSGVVQLVLVSQVLPGSINGGYGLKPGDQVVKVNGKPVKNLKHLYELI 440
Query: 349 ASRSPKEQVKISLCKEGSKHSVAVVL 374
S +++V + L + ++ + +L
Sbjct: 441 EECSTEDKVAV-LDRRSAEDATLEIL 465
Score = 48.8 bits (116), Expect = 3e-06
Identities = 81/385 (21%), Positives = 139/385 (36%), Gaps = 39/385 (10%)
Query: 106 ERLMFGSGFFITDDGYILTSNHIVE---DGASFSV-ILSDDTELPAKLVGTDALFDLAVL 161
+ GSGF I +LT+ H+V D +V + A + DLAV+
Sbjct: 84 QFSSGGSGFAIYG-KKLLTNAHVVAPNNDHKFVTVKKHGSPRKYKAFVAAVFEECDLAVV 142
Query: 162 KVQSDRKFIPVEF-EDANNIRVGEAVFTIGNPFRLRG---TVSAGIVSALDRDIPDRPGT 217
++S+ EF + N +G+ G+ F + G V+ G V ++ I T
Sbjct: 143 YIESE------EFWKGMNPFELGDIPSLNGSGFVVGGDGIIVTNGHVVRVEPRIYAHSST 196
Query: 218 FT---QIDAPINQGNSGGPCFNALGHVIGVNAMIVTSGQFHMGVGLIIPLSIIKKAIPSL 274
QIDA I GNSG P + V GV + + + + + +IPL + +
Sbjct: 197 VLLRVQIDAAIGPGNSGEPVIVGVDKVAGVAFLKIKTPE---NILYVIPLGVSSHFRTGV 253
Query: 275 ISKG-RVDHGWFGIMTQNLTQ-ELAIPLGLRGTKGSLITAVVKESPADKAGMKVGDVICM 332
G +TQ + +L L G LI+ + + A G G +
Sbjct: 254 EVSAIGNGFGLLNTLTQGMVSGQLRKSFKLGLETGVLISKINQTDAAINPG-NSGGPLLN 312
Query: 333 LDGRII------KSHQDFVWQIASRSPKEQVKISLCKEGSKHSVAVVLGSSPTAK----N 382
LDG +I + F I+ + P + V + + + G +
Sbjct: 313 LDGEVIGVNTRKVTRIGFSHGISFKIPIDTVLVIVLRLGEFQISLRPVKPLVPVHQYIGL 372
Query: 383 DMHLEVGD--KELLGMVLQDINDGNKKLVRIVALNPNREREVEAKGIQKGMTIVSVNTHE 440
+ L G +LV + + P G++ G +V VN
Sbjct: 373 PSYYIFAGLVFVPLTKSYIF-PSGVVQLVLVSQVLPGSING--GYGLKPGDQVVKVNGKP 429
Query: 441 VSCIKDVERLIGKAKEKKRDSVLLQ 465
V +K + LI + + + +VL +
Sbjct: 430 VKNLKHLYELIEECSTEDKVAVLDR 454
>gnl|CDD|29044 cd00987, PDZ_serine_protease, PDZ domain of tryspin-like serine
proteases, such as DegP/HtrA, which are oligomeric
proteins involved in heat-shock response, chaperone
function, and apoptosis. May be responsible for
substrate recognition and/or binding, as most PDZ
domains bind C-terminal polypeptides, though binding to
internal (non-C-terminal) polypeptides and even to
lipids has been demonstrated. In this subfamily of
protease-associated PDZ domains a C-terminal beta-strand
forms the peptide-binding groove base, a circular
permutation with respect to PDZ domains found in
Eumetazoan signaling proteins..
Length = 90
Score = 72.2 bits (177), Expect = 3e-13
Identities = 36/90 (40%), Positives = 56/90 (62%)
Query: 283 GWFGIMTQNLTQELAIPLGLRGTKGSLITAVVKESPADKAGMKVGDVICMLDGRIIKSHQ 342
W G+ Q+LT +LA LGL+ TKG L+ +V SPA KAG+K GDVI ++G+ +KS
Sbjct: 1 PWLGVTVQDLTPDLAEELGLKDTKGVLVASVDPGSPAAKAGLKPGDVILAVNGKPVKSVA 60
Query: 343 DFVWQIASRSPKEQVKISLCKEGSKHSVAV 372
D +A P ++V +++ + G + +V V
Sbjct: 61 DLRRALAELKPGDKVTLTVLRGGKELTVTV 90
Score = 32.6 bits (74), Expect = 0.23
Identities = 19/83 (22%), Positives = 36/83 (43%), Gaps = 12/83 (14%)
Query: 393 LLGMVLQDIND--------GNKKLVRIVALNPNREREVEAKGIQKGMTIVSVNTHEVSCI 444
LG+ +QD+ + K V + +++P G++ G I++VN V +
Sbjct: 2 WLGVTVQDLTPDLAEELGLKDTKGVLVASVDPGSP--AAKAGLKPGDVILAVNGKPVKSV 59
Query: 445 KDVERLIGKAKEKKRDSVLLQIK 467
D+ R + + K D V L +
Sbjct: 60 ADLRRALAEL--KPGDKVTLTVL 80
>gnl|CDD|143870 pfam00089, Trypsin, Trypsin.
Length = 218
Score = 58.6 bits (142), Expect = 4e-09
Identities = 37/177 (20%), Positives = 59/177 (33%), Gaps = 33/177 (18%)
Query: 102 SDTVERLMFGSGFFITDDGYILTSNHIVEDGASFSVILSDDT---------------ELP 146
S V G + + ++LT+ H V + S V+L +
Sbjct: 17 SLQVSSGKHFCGGSLISENWVLTAAHCVSNAKSVRVVLGAHNIVLREGGEQKFDVEKIIV 76
Query: 147 AKLVGTDALFDLAVLKVQSDRKF----IPVEFEDANNIR-VGEAVFTIG----NPFRLRG 197
D L D+A+LK++S P+ A++ VG G L
Sbjct: 77 HPNYNPDTLNDIALLKLKSPVTLGDTVRPICLPTASSDLPVGTTCTVSGWGNTKTLGLPD 136
Query: 198 TVSAGIVSALDRDIPDRPG------TFTQIDAP---INQGNSGGPCFNALGHVIGVN 245
T+ V + R+ T A QG+SGGP + G +IG+
Sbjct: 137 TLQEVTVPVVSRETCRSAYGGTVTDTMICAGAGGKDACQGDSGGPLVCSDGELIGIV 193
>gnl|CDD|36635 KOG1421, KOG1421, KOG1421, Predicted signaling-associated protein
(contains a PDZ domain) [General function prediction
only].
Length = 955
Score = 56.2 bits (135), Expect = 2e-08
Identities = 72/329 (21%), Positives = 131/329 (39%), Gaps = 38/329 (11%)
Query: 101 LSDTVERLMF-GSGFFI-TDDGYILTSNHIVEDG-ASFSVILSDDTELPAKLVGTDALFD 157
DT +GF + GYILT+ H+V G S + + E+ V D + D
Sbjct: 75 AFDTESAGESEATGFVVDKKLGYILTNRHVVAPGPFVASAVFDNHEEIEIYPVYRDPVHD 134
Query: 158 LAVLKV--QSDRKFIPVEFEDANNI-RVGEAVFTIGNPFRLRGTVSAGIVSALDRDIPDR 214
+ + R I E A + +VG + +GN + ++ AG +S LDR+ PD
Sbjct: 135 FGFFRYDPSTIRFSIVTEICLAPELAKVGSEIRVVGNDAGEKLSILAGFLSRLDRNAPDY 194
Query: 215 P-------GTF-TQIDAPINQGNSGGPCFNALGHVIGVNAMIVTSGQFHMGVGLIIPLSI 266
TF Q + + G+SG P + G+ + +NA S +PL
Sbjct: 195 GEDTYNDFNTFYIQAASSTSGGSSGSPVVDIPGYAVALNAGGSISS----ASDFFLPLDR 250
Query: 267 IKKAIPSLISKGRVDHGWFGIMTQNLTQELAIPLGLR------------GTKGSL-ITAV 313
+ +A+ L + + G + + + LGL G L + V
Sbjct: 251 VVRALRCLQNNTPITRGTLQVEFLHKLFDECRRLGLSSEWEQVVRTKFPERTGMLVVETV 310
Query: 314 VKESPADKAGMKVGDVICMLDGRIIKSHQDFVWQIASRSPKEQVKISLCKEGSKHSVAVV 373
+ E PA+K ++ GD++ ++ + + + QI + +++++ + G + + V
Sbjct: 311 LPEGPAEKK-LEPGDILLAVNSTCLNDFEA-LEQILDEGVGKNLELTIQRGGQELELTVT 368
Query: 374 LGSSPTAKNDMHLEVGDKELLGMVLQDIN 402
+ D LEV G V D++
Sbjct: 369 VQDLHGITPDRFLEVC-----GAVFHDLS 392
>gnl|CDD|29046 cd00989, PDZ_metalloprotease, PDZ domain of bacterial and plant
zinc metalloprotases, presumably membrane-associated or
integral membrane proteases, which may be involved in
signalling and regulatory mechanisms. May be responsible
for substrate recognition and/or binding, as most PDZ
domains bind C-terminal polypeptides, and binding to
internal (non-C-terminal) polypeptides and even to
lipids has been demonstrated. In this subfamily of
protease-associated PDZ domains a C-terminal beta-strand
forms the peptide-binding groove base, a circular
permutation with respect to PDZ domains found in
Eumetazoan signaling proteins..
Length = 79
Score = 47.9 bits (114), Expect = 6e-06
Identities = 21/71 (29%), Positives = 38/71 (53%), Gaps = 1/71 (1%)
Query: 303 RGTKGSLITAVVKESPADKAGMKVGDVICMLDGRIIKSHQDFVWQIASRSPKEQVKISLC 362
+I VV SPA KAG+K GD I ++G+ IKS +D V + +P + + +++
Sbjct: 9 GPPIEPVIGEVVPGSPAAKAGLKAGDRILAINGQKIKSWEDLVDAVQ-ENPGKPLTLTVE 67
Query: 363 KEGSKHSVAVV 373
+ G ++ +
Sbjct: 68 RNGETITLTLT 78
Score = 27.5 bits (61), Expect = 8.1
Identities = 8/54 (14%), Positives = 23/54 (42%), Gaps = 6/54 (11%)
Query: 423 EAKGIQKGMTIVSVNTHEVSCIKDVERLIGKAKEK------KRDSVLLQIKYDP 470
G++ G I+++N ++ +D+ + + K +R+ + + P
Sbjct: 26 AKAGLKAGDRILAINGQKIKSWEDLVDAVQENPGKPLTLTVERNGETITLTLTP 79
>gnl|CDD|29043 cd00986, PDZ_LON_protease, PDZ domain of ATP-dependent LON serine
proteases. Most PDZ domains bind C-terminal
polypeptides, though binding to internal
(non-C-terminal) polypeptides and even to lipids has
been demonstrated. In this bacterial subfamily of
protease-associated PDZ domains a C-terminal beta-strand
is thought to form the peptide-binding groove base, a
circular permutation with respect to PDZ domains found
in Eumetazoan signaling proteins..
Length = 79
Score = 43.0 bits (101), Expect = 2e-04
Identities = 20/73 (27%), Positives = 38/73 (52%), Gaps = 1/73 (1%)
Query: 306 KGSLITAVVKESPADKAGMKVGDVICMLDGRIIKSHQDFVWQIASRSPKEQVKISLCKEG 365
G +T+VV+ PA +K GD I +DG+ K ++ + I S+ + VK+ + +E
Sbjct: 8 HGVYVTSVVEGMPA-AGKLKAGDHIIAVDGKPFKEAEELIDYIQSKKEGDTVKLKVKREE 66
Query: 366 SKHSVAVVLGSSP 378
+ ++L + P
Sbjct: 67 KELPEDLILKTFP 79
>gnl|CDD|29047 cd00990, PDZ_glycyl_aminopeptidase, PDZ domain associated with
archaeal and bacterial M61 glycyl-aminopeptidases. May
be responsible for substrate recognition and/or binding,
as most PDZ domains bind C-terminal polypeptides, and
binding to internal (non-C-terminal) polypeptides and
even to lipids has been demonstrated. In this subfamily
of protease-associated PDZ domains a C-terminal
beta-strand is presumed to form the peptide-binding
groove base, a circular permutation with respect to PDZ
domains found in Eumetazoan signaling proteins..
Length = 80
Score = 38.4 bits (89), Expect = 0.004
Identities = 17/67 (25%), Positives = 35/67 (52%), Gaps = 3/67 (4%)
Query: 310 ITAVVKESPADKAGMKVGDVICMLDGRIIKSHQDFVWQIASRSPKEQVKISLCKEGSKHS 369
+T V +SPADKAG+ GD + ++G + + QD ++ + V++++ ++
Sbjct: 16 VTFVRDDSPADKAGLVAGDELVAVNGWRVDALQD---RLKEYQAGDPVELTVFRDDRLIE 72
Query: 370 VAVVLGS 376
V + L
Sbjct: 73 VPLTLAD 79
>gnl|CDD|29048 cd00991, PDZ_archaeal_metalloprotease, PDZ domain of archaeal zinc
metalloprotases, presumably membrane-associated or
integral membrane proteases, which may be involved in
signalling and regulatory mechanisms. May be responsible
for substrate recognition and/or binding, as most PDZ
domains bind C-terminal polypeptides, and binding to
internal (non-C-terminal) polypeptides and even to
lipids has been demonstrated. In this subfamily of
protease-associated PDZ domains a C-terminal beta-strand
forms the peptide-binding groove base, a circular
permutation with respect to PDZ domains found in
Eumetazoan signaling proteins..
Length = 79
Score = 37.2 bits (86), Expect = 0.011
Identities = 18/63 (28%), Positives = 34/63 (53%)
Query: 307 GSLITAVVKESPADKAGMKVGDVICMLDGRIIKSHQDFVWQIASRSPKEQVKISLCKEGS 366
G +I V+ SPA+ A + GDVI ++G I + +DF+ + P E + +++ +
Sbjct: 11 GVVIVGVIVGSPAENAVLHTGDVIYSINGTPITTLEDFMEALKPTKPGEVITVTVLPSTT 70
Query: 367 KHS 369
K +
Sbjct: 71 KLT 73
Score = 29.1 bits (65), Expect = 2.8
Identities = 8/42 (19%), Positives = 18/42 (42%)
Query: 423 EAKGIQKGMTIVSVNTHEVSCIKDVERLIGKAKEKKRDSVLL 464
E + G I S+N ++ ++D + K + +V +
Sbjct: 24 ENAVLHTGDVIYSINGTPITTLEDFMEALKPTKPGEVITVTV 65
>gnl|CDD|29049 cd00992, PDZ_signaling, PDZ domain found in a variety of Eumetazoan
signaling molecules, often in tandem arrangements. May
be responsible for specific protein-protein
interactions, as most PDZ domains bind C-terminal
polypeptides, and binding to internal (non-C-terminal)
polypeptides and even to lipids has been demonstrated.
In this subfamily of PDZ domains an N-terminal
beta-strand forms the peptide-binding groove base, a
circular permutation with respect to PDZ domains found
in proteases..
Length = 82
Score = 37.1 bits (86), Expect = 0.011
Identities = 13/61 (21%), Positives = 30/61 (49%), Gaps = 2/61 (3%)
Query: 301 GLRGTKGSLITAVVKESPADKAGMKVGDVICMLDGRII--KSHQDFVWQIASRSPKEQVK 358
G G ++ V PA++ G++VGD I ++G + +H++ V + + + +
Sbjct: 21 GKDSGGGIFVSRVEPGGPAERGGLRVGDRILEVNGVSVEGLTHEEAVELLKNSGDEVTLT 80
Query: 359 I 359
+
Sbjct: 81 V 81
>gnl|CDD|29042 cd00136, PDZ, PDZ domain, also called DHR (Dlg homologous region)
or GLGF (after a conserved sequence motif). Many PDZ
domains bind C-terminal polypeptides, though binding to
internal (non-C-terminal) polypeptides and even to
lipids has been demonstrated. Heterodimerization through
PDZ-PDZ domain interactions adds to the domain's
versatility, and PDZ domain-mediated interactions may be
modulated dynamically through target phosphorylation.
Some PDZ domains play a role in scaffolding
supramolecular complexes. PDZ domains are found in
diverse signaling proteins in bacteria, archebacteria,
and eurkayotes. This CD contains two distinct structural
subgroups with either a N- or C-terminal beta-strand
forming the peptide-binding groove base. The circular
permutation placing the strand on the N-terminus appears
to be found in Eumetazoa only, while the C-terminal
variant is found in all three kingdoms of life, and
seems to co-occur with protease domains. PDZ domains
have been named after PSD95(post synaptic density
protein), DlgA (Drosophila disc large tumor suppressor),
and ZO1, a mammalian tight junction protein..
Length = 70
Score = 37.1 bits (86), Expect = 0.011
Identities = 17/68 (25%), Positives = 35/68 (51%), Gaps = 5/68 (7%)
Query: 299 PLGLRGTK----GSLITAVVKESPADKAGMKVGDVICMLDGRIIKSHQDFVW-QIASRSP 353
LG G ++ +V SPA++AG++ GDVI ++G +K+ ++ +
Sbjct: 2 GLGFSIRGGTEGGVVVLSVEPGSPAERAGLQAGDVILAVNGTDVKNLTLEDVAELLKKEV 61
Query: 354 KEQVKISL 361
E+V +++
Sbjct: 62 GEKVTLTV 69
>gnl|CDD|33755 COG3975, COG3975, Predicted protease with the C-terminal PDZ domain
[General function prediction only].
Length = 558
Score = 35.7 bits (82), Expect = 0.027
Identities = 24/85 (28%), Positives = 37/85 (43%), Gaps = 11/85 (12%)
Query: 300 LGLR---GTKGSLITAVVKESPADKAGMKVGDVICMLDGRIIKSHQDFVWQIASRSPKEQ 356
LGL+ IT V PA KAG+ GD I ++G Q+ ++
Sbjct: 453 LGLKVKSEGGHEKITFVFPGGPAYKAGLSPGDKIVAING--------ISDQLDRYKVNDK 504
Query: 357 VKISLCKEGSKHSVAVVLGSSPTAK 381
+++ + +EG V LG PTA+
Sbjct: 505 IQVHVFREGRLREFLVKLGGDPTAQ 529
>gnl|CDD|31136 COG0793, Prc, Periplasmic protease [Cell envelope biogenesis, outer
membrane].
Length = 406
Score = 35.3 bits (81), Expect = 0.037
Identities = 14/32 (43%), Positives = 20/32 (62%)
Query: 305 TKGSLITAVVKESPADKAGMKVGDVICMLDGR 336
G + + + SPA KAG+K GDVI +DG+
Sbjct: 111 IGGVKVVSPIDGSPAAKAGIKPGDVIIKIDGK 142
>gnl|CDD|29045 cd00988, PDZ_CTP_protease, PDZ domain of C-terminal processing-,
tail-specific-, and tricorn proteases, which function in
posttranslational protein processing, maturation, and
disassembly or degradation, in Bacteria, Archaea, and
plant chloroplasts. May be responsible for substrate
recognition and/or binding, as most PDZ domains bind
C-terminal polypeptides, and binding to internal
(non-C-terminal) polypeptides and even to lipids has
been demonstrated. In this subfamily of
protease-associated PDZ domains a C-terminal beta-strand
forms the peptide-binding groove base, a circular
permutation with respect to PDZ domains found in
Eumetazoan signaling proteins..
Length = 85
Score = 34.8 bits (80), Expect = 0.047
Identities = 16/31 (51%), Positives = 22/31 (70%)
Query: 306 KGSLITAVVKESPADKAGMKVGDVICMLDGR 336
G +IT+V+ SPA KAG+K GD+I +DG
Sbjct: 13 GGLVITSVLPGSPAAKAGIKAGDIIVAIDGE 43
>gnl|CDD|144258 pfam00595, PDZ, PDZ domain (Also known as DHR or GLGF). PDZ
domains are found in diverse signaling proteins.
Length = 80
Score = 33.8 bits (78), Expect = 0.11
Identities = 12/55 (21%), Positives = 28/55 (50%), Gaps = 2/55 (3%)
Query: 306 KGSLITAVVKESPADKAGMKVGDVICMLDGRIIKSH-QDFVWQIASRSPKEQVKI 359
G ++ V+ A+ G++VGD I ++G+ +++ D +A + +V +
Sbjct: 24 PGIFVSEVLPGGAAEAGGLQVGDRILSINGQDLENMSHDEA-VLALKGSGGEVTL 77
>gnl|CDD|38740 KOG3532, KOG3532, KOG3532, Predicted protein kinase [General
function prediction only].
Length = 1051
Score = 32.0 bits (72), Expect = 0.36
Identities = 12/50 (24%), Positives = 22/50 (44%)
Query: 293 TQELAIPLGLRGTKGSLITAVVKESPADKAGMKVGDVICMLDGRIIKSHQ 342
+ + + + + V S ADKA K GDV+ ++ I+S +
Sbjct: 385 SSPIGLVFDKNTNRAVKVCTVEDNSLADKAAFKPGDVLVAINNVPIRSER 434
>gnl|CDD|33283 COG3480, SdrC, Predicted secreted protein containing a PDZ domain
[Signal transduction mechanisms].
Length = 342
Score = 31.8 bits (72), Expect = 0.38
Identities = 15/67 (22%), Positives = 30/67 (44%), Gaps = 1/67 (1%)
Query: 306 KGSLITAVVKESPADKAGMKVGDVICMLDGRIIKSHQDFVWQIASRSPKEQVKISLCKEG 365
G + +V+ SP K ++ GD I +DG S + + ++S+ P ++V I +
Sbjct: 130 AGVYVLSVIDNSPF-KGKLEAGDTIIAVDGEPFTSSDELIDYVSSKKPGDEVTIDYERHN 188
Query: 366 SKHSVAV 372
+
Sbjct: 189 ETPEIVT 195
>gnl|CDD|38339 KOG3129, KOG3129, KOG3129, 26S proteasome regulatory complex,
subunit PSMD9 [Posttranslational modification, protein
turnover, chaperones].
Length = 231
Score = 31.5 bits (71), Expect = 0.59
Identities = 16/66 (24%), Positives = 32/66 (48%), Gaps = 2/66 (3%)
Query: 310 ITAVVKESPADKAGMKVGDVICMLDGRIIKSHQDF--VWQIASRSPKEQVKISLCKEGSK 367
+ +VV SPAD+AG+ VGD I + + + + + V +++ +EG K
Sbjct: 143 VDSVVPGSPADEAGLCVGDEILKFGNVHSGNFLPLQNIAAVVQSNEDQIVSVTVIREGQK 202
Query: 368 HSVAVV 373
+++
Sbjct: 203 VVLSLT 208
>gnl|CDD|36323 KOG1107, KOG1107, KOG1107, Membrane coat complex Retromer, subunit
VPS35 [Intracellular trafficking, secretion, and
vesicular transport].
Length = 760
Score = 29.9 bits (67), Expect = 1.7
Identities = 22/70 (31%), Positives = 32/70 (45%), Gaps = 6/70 (8%)
Query: 397 VLQDINDGNKKLVRIVALNPNREREVEAKGIQKGMTIVSVNTHEVSCIKDVERLIGKAKE 456
VL + + NK VR+ P+RE+E K + +V N +S +L G E
Sbjct: 153 VLINFTEMNKLWVRMQHQGPSREKEKREKERNELRILVGKNLVRLS------QLEGVDLE 206
Query: 457 KKRDSVLLQI 466
RD VL +I
Sbjct: 207 MYRDDVLPRI 216
>gnl|CDD|38761 KOG3553, KOG3553, KOG3553, Tax interaction protein TIP1 [Cell
wall/membrane/envelope biogenesis].
Length = 124
Score = 28.9 bits (64), Expect = 3.0
Identities = 12/30 (40%), Positives = 20/30 (66%)
Query: 306 KGSLITAVVKESPADKAGMKVGDVICMLDG 335
KG +T V + SPA+ AG+++ D I ++G
Sbjct: 59 KGIYVTRVSEGSPAEIAGLRIHDKILQVNG 88
>gnl|CDD|31349 COG1155, NtpA, Archaeal/vacuolar-type H+-ATPase subunit A [Energy
production and conversion].
Length = 588
Score = 29.1 bits (65), Expect = 3.3
Identities = 21/73 (28%), Positives = 33/73 (45%), Gaps = 10/73 (13%)
Query: 160 VLKVQSDRKFIPVEFEDANNIRVGEAVFTIGNPFR------LRGTVSAGIVSALDRDIPD 213
+++++ +R I V +ED IR GE V G P L ++ GI LD I +
Sbjct: 38 IIRIEGNRATIQV-YEDTAGIRPGEKVENTGRPLSVELGPGLLKSIYDGIQRPLDV-IKE 95
Query: 214 RPGTFTQ--IDAP 224
G F ++ P
Sbjct: 96 TSGDFIARGLNPP 108
>gnl|CDD|32719 COG2894, MinD, Septum formation inhibitor-activating ATPase [Cell
division and chromosome partitioning].
Length = 272
Score = 28.2 bits (63), Expect = 5.0
Identities = 17/71 (23%), Positives = 30/71 (42%), Gaps = 16/71 (22%)
Query: 426 GIQKGMTI--------VSVNTHEVSCIKDVERLIG--------KAKEKKRDSVLLQIKYD 469
GI++G + V EVS ++D +R+IG ++ LL +Y
Sbjct: 124 GIEQGFKNAVYFADEAIVVTNPEVSSVRDSDRIIGLLESKSRRAEIGEEPKEHLLLNRYR 183
Query: 470 PDMQSGNDNMS 480
P+M + +S
Sbjct: 184 PEMVKRGEMLS 194
>gnl|CDD|88595 cd05795, Ribosomal_P0_L10e, Ribosomal protein L10 family, P0 and
L10e subfamily; composed of eukaryotic 60S ribosomal
protein P0 and the archaeal P0 homolog, L10e. P0 or L10e
forms a tight complex with multiple copies of the small
acidic protein L12(e). This complex forms a stalk
structure on the large subunit of the ribosome. The
stalk is known to contain the binding site for
elongation factors G and Tu (EF-G and EF-Tu,
respectively); however, there is disagreement as to
whether or not L10 is involved in forming the binding
site. The stalk is believed to be associated with GTPase
activities in protein synthesis. In a neuroblastoma cell
line, L10 has been shown to interact with the SH3 domain
of Src and to activate the binding of the Nck1 adaptor
protein with skeletal proteins such as the
Wiskott-Aldrich Syndrome Protein (WASP) and the
WASP-interacting protein (WIP). These eukaryotic and
archaeal P0 sequences have an additional C-terminal
domain homologous with acidic proteins P1 and P2..
Length = 175
Score = 28.2 bits (63), Expect = 5.5
Identities = 14/46 (30%), Positives = 21/46 (45%), Gaps = 5/46 (10%)
Query: 186 VFTIGNPFRLRGTVSAGIVSALDRDIPDRPGTFTQIDAPINQGNSG 231
+FT G+PF +R + V A P +PG D + G +G
Sbjct: 82 IFTNGDPFEIRKILEENKVPA-----PAKPGAIAPCDVVVPAGPTG 122
>gnl|CDD|33306 COG3503, COG3503, Predicted membrane protein [Function unknown].
Length = 323
Score = 28.0 bits (62), Expect = 6.3
Identities = 12/64 (18%), Positives = 24/64 (37%), Gaps = 4/64 (6%)
Query: 240 HVIGVNAMIVTSGQFHMGVGLIIPLSIIKKAIPSLISKGRVDHG---WFGIMTQNLTQEL 296
H IG+ A ++ + + +++ L++ A L+ R W G+
Sbjct: 121 HAIGL-ASLLGAAFLWLPRAVLLALAVAAVAAHILLRPARFGTPMLWWLGLRPYGPRTLD 179
Query: 297 AIPL 300
PL
Sbjct: 180 YYPL 183
>gnl|CDD|31093 COG0750, COG0750, Predicted membrane-associated Zn-dependent
proteases 1 [Cell envelope biogenesis, outer membrane].
Length = 375
Score = 27.8 bits (61), Expect = 7.0
Identities = 12/54 (22%), Positives = 25/54 (46%)
Query: 309 LITAVVKESPADKAGMKVGDVICMLDGRIIKSHQDFVWQIASRSPKEQVKISLC 362
++ V +S A AG++ GD I +DG + S D + + + +++
Sbjct: 132 VVGEVAPKSAAALAGLRPGDRIVAVDGEKVASWDDVRRLLVAAAGDVFNLLTIL 185
>gnl|CDD|34816 COG5219, COG5219, Uncharacterized conserved protein, contains RING
Zn-finger [General function prediction only].
Length = 1525
Score = 27.8 bits (61), Expect = 7.2
Identities = 13/83 (15%), Positives = 30/83 (36%), Gaps = 2/83 (2%)
Query: 82 LKNYFRKDFHKFFSGEEPILSDTVERLMFGSGFF--ITDDGYILTSNHIVEDGASFSVIL 139
L + + + + PI D +L F+ + D + V+ G F I+
Sbjct: 773 LVFSYDSLMEIYLTSDTPIALDLSNKLFIDQDFYYRLLDRVDEPINRPRVDVGTQFVHII 832
Query: 140 SDDTELPAKLVGTDALFDLAVLK 162
+ + + + D+ F ++
Sbjct: 833 DYYSRILEEYLDGDSGFIRTFVE 855
>gnl|CDD|33956 COG4231, COG4231, Indolepyruvate ferredoxin oxidoreductase, alpha
and beta subunits [Energy production and conversion].
Length = 640
Score = 27.6 bits (61), Expect = 8.8
Identities = 19/97 (19%), Positives = 39/97 (40%), Gaps = 5/97 (5%)
Query: 368 HSVAVVLGSSPTAKNDMHLEVGDKELLGMVLQDINDGNKKLVRIVALNPNREREVEAKGI 427
HS + L ++ K ++ + V D M + G VA + + + +
Sbjct: 459 HSGILALINAVYNKANILVVVLDNRTTAMTGGQPHPG-----TGVAAEGTKSTAIVIEEV 513
Query: 428 QKGMTIVSVNTHEVSCIKDVERLIGKAKEKKRDSVLL 464
+ M + V T + +K++ I +A E SV++
Sbjct: 514 VRAMGVEDVETVDPYDVKELSEAIKEALEVPGPSVII 550
>gnl|CDD|146618 pfam04083, Abhydro_lipase, ab-hydrolase associated lipase region.
Length = 62
Score = 27.5 bits (62), Expect = 9.4
Identities = 8/13 (61%), Positives = 10/13 (76%)
Query: 116 ITDDGYILTSNHI 128
T+DGYILT + I
Sbjct: 18 TTEDGYILTLHRI 30
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 0.393
Gapped
Lambda K H
0.267 0.0810 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 5,727,819
Number of extensions: 308430
Number of successful extensions: 755
Number of sequences better than 10.0: 1
Number of HSP's gapped: 747
Number of HSP's successfully gapped: 38
Length of query: 489
Length of database: 6,263,737
Length adjustment: 98
Effective length of query: 391
Effective length of database: 4,146,055
Effective search space: 1621107505
Effective search space used: 1621107505
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: 59 (26.4 bits)