RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4670
(643 letters)
>gnl|CDD|240283 PTZ00127, PTZ00127, cytochrome c oxidase assembly protein;
Provisional.
Length = 403
Score = 281 bits (722), Expect = 6e-89
Identities = 135/393 (34%), Positives = 184/393 (46%), Gaps = 60/393 (15%)
Query: 262 RFKRLAYMSKGLIFVTALSGLTRWSSQVATTLSENVAKPNILEKPTRITGYWLLGCSGMV 321
R K L F L S S + + + + G+WLLGC+G+V
Sbjct: 20 RLKPLLAQRSRKFFTATKFKLAEESRVAE---STDASTQWVAPGGEKKVGHWLLGCAGLV 76
Query: 322 FGAVVLGGVTRLTESGLSMVTWKLFGEKLPRNSAEWIEEFNLYKEYPEFKL--------- 372
G VVLGG TRLTESGLSM WK G K P EW +EF+ YK++PE+K
Sbjct: 77 GGMVVLGGYTRLTESGLSMTDWKFIGVKPPITQEEWEKEFDKYKQFPEYKQVHYGMTLEE 136
Query: 373 -QNIGLMGWYMVQSGLEDRFHTQSDVPRVSQYRLASHLSMAFLLYSGLLWTALDHLLPSS 431
+ I W H R+ L + + F L
Sbjct: 137 FKKIFFWEWL----------H------RM----LGRSIGLFFGL---------------- 160
Query: 432 KQLADNRAGLLRFKRLAYMSKGLIF-VTALSGENMLRGLMGWYMVQSGLEDRFHTQSDVP 490
LL F Y+ ++ ++A+ G +G +GW+MV+SGL D T++ P
Sbjct: 161 --------PLLYFAAKGYLKPRMLKRLSAIGGLGGAQGFVGWWMVKSGL-DEPLTENKKP 211
Query: 491 RVSQYRLASHLSMAFLLYSGLLWTALDHLLPSSKQLADNRAGLLRFKRLAYMSKGLIFVT 550
RVS YRLA+HL AF++YS LLW L +L + +A LL+ + LA L+F+T
Sbjct: 212 RVSPYRLAAHLFNAFVIYSLLLWNGLTLILFALPSIAPF-PELLKMRLLARGLFALVFLT 270
Query: 551 ALSGAFVAGLDAGLVYNSFPLMADRLIPTDILALEPPLRNFTENPTTVQFDHRVLGISVF 610
A+SGAFVAG DAGL YN++P M + +P D+ P +NF EN VQF+HRVL F
Sbjct: 271 AMSGAFVAGNDAGLAYNTWPKMGGKFVPDDVHNFVPWYKNFFENTAVVQFNHRVLAYLTF 330
Query: 611 SLLTAQYWMGRKLKLPGRANLALTCVTGMAYMQ 643
Y+ RKL LP L + G +Q
Sbjct: 331 LSSLGLYYKARKLNLPKSVRRLLMALLGALTLQ 363
Score = 273 bits (701), Expect = 9e-86
Identities = 105/228 (46%), Positives = 142/228 (62%), Gaps = 2/228 (0%)
Query: 54 SENVAKPNILDKPTRITGYWLLGCSGMVFGAVVLGGVTRLTESGLSMVTWKLFGEKLPRN 113
S + + + + G+WLLGC+G+V G VVLGG TRLTESGLSM WK G K P
Sbjct: 49 STDASTQWVAPGGEKKVGHWLLGCAGLVGGMVVLGGYTRLTESGLSMTDWKFIGVKPPIT 108
Query: 114 SAEWIEEFNLYKEYPEFKLKNKDITLEEFKRIWWMEYLHRMWGRCIGAAFFIPASIFWYK 173
EW +EF+ YK++PE+K + +TLEEFK+I++ E+LHRM GR IG F +P F K
Sbjct: 109 QEEWEKEFDKYKQFPEYKQVHYGMTLEEFKKIFFWEWLHRMLGRSIGLFFGLPLLYFAAK 168
Query: 174 GYFNSAMKKRVGVFGLLIACQGLMGWYMVQSGLEDRFHIQSDVPRVSQYRLASHLSMAFL 233
GY M KR+ G L QG +GW+MV+SGL D ++ PRVS YRLA+HL AF+
Sbjct: 169 GYLKPRMLKRLSAIGGLGGAQGFVGWWMVKSGL-DEPLTENKKPRVSPYRLAAHLFNAFV 227
Query: 234 LYSGLLWTALDHLLPSSKQLADNRAGLVRFKRLAYMSKGLIFVTALSG 281
+YS LLW L +L + +A L++ + LA L+F+TA+SG
Sbjct: 228 IYSLLLWNGLTLILFALPSIAPF-PELLKMRLLARGLFALVFLTAMSG 274
>gnl|CDD|217153 pfam02628, COX15-CtaA, Cytochrome oxidase assembly protein. This
is a family of integral membrane proteins. CtaA is
required for cytochrome aa3 oxidase assembly in Bacillus
subtilis. COX15 is required for cytochrome c oxidase
assembly in yeast.
Length = 301
Score = 170 bits (434), Expect = 3e-48
Identities = 112/324 (34%), Positives = 140/324 (43%), Gaps = 67/324 (20%)
Query: 312 YWLLGCSGMVFGAVVLGGVTRLTESGLSMVTWKL-FGEKLPRNSAEWIEEFNLYKEYPEF 370
WLL +V VVLGG+TRLT SGL W +G P + A W EF YK+ PEF
Sbjct: 2 RWLLVTLALVLAVVVLGGLTRLTGSGLGCPDWPPCYGSLPPLSEAAWAAEFAKYKQTPEF 61
Query: 371 KLQNIGLMGWYMVQSGLEDRFHTQSDVPRVSQYRLASHLSMAFLLYSGLLWTALDHLLPS 430
K+ I + W H R+ LA L + L+ L+W +P
Sbjct: 62 KV--IYWIEW----------GH------RL----LARLLGLLILV--PLVWFWRRRRIPR 97
Query: 431 SKQLADNRAGLLRFKRLAYMSKGLIFVTALSGENMLRGLMGWYMVQSGLEDRFHTQSDVP 490
R K L + L+ L+GL+GW+ V SGL
Sbjct: 98 ------------RLKWLLLLLLLLV---------GLQGLLGWWTVTSGL----------- 125
Query: 491 RVSQYRLASHLSMAFLLYSGLLWTALDHLLPSSKQLADNRAGLLRFKRLAYMSKGLIFVT 550
VS YRLA+HL +AFLL + LLW AL P LR LA ++ L+ +
Sbjct: 126 -VSPYRLAAHLLLAFLLLALLLWLALRLREPDPAPAPAAGPRRLR--GLALLALVLLLLQ 182
Query: 551 ALSGAFVAGLDAGLVYNSFPLMADRLIPTDILALEPPLRNFTENPTTVQFDHRVLGISVF 610
GA VAGLDAGL N+FPLM EP RNF ENP TVQF HR+ F
Sbjct: 183 IALGALVAGLDAGLACNTFPLMGPD------FPAEPDWRNFFENPATVQFLHRLGAYLTF 236
Query: 611 -SLLTAQYWMGRKLKLPGRANLAL 633
LL R+ + P AL
Sbjct: 237 LLLLALAVAAARRRRRPALRRAAL 260
Score = 165 bits (421), Expect = 2e-46
Identities = 76/211 (36%), Positives = 103/211 (48%), Gaps = 27/211 (12%)
Query: 72 YWLLGCSGMVFGAVVLGGVTRLTESGLSMVTWKL-FGEKLPRNSAEWIEEFNLYKEYPEF 130
WLL +V VVLGG+TRLT SGL W +G P + A W EF YK+ PEF
Sbjct: 2 RWLLVTLALVLAVVVLGGLTRLTGSGLGCPDWPPCYGSLPPLSEAAWAAEFAKYKQTPEF 61
Query: 131 KLKNKDITLEEFKRIWWMEYLHRMWGRCIGAAFFIPASIFWYKGYFNSAMKKRVGVFGLL 190
K+ I+W+E+ HR+ R +G +P FW + +K + + LL
Sbjct: 62 KV------------IYWIEWGHRLLARLLGLLILVPLVWFWRRRRIPRRLKWLLLLLLLL 109
Query: 191 IACQGLMGWYMVQSGLEDRFHIQSDVPRVSQYRLASHLSMAFLLYSGLLWTALDHLLPSS 250
+ QGL+GW+ V SGL VS YRLA+HL +AFLL + LLW AL P
Sbjct: 110 VGLQGLLGWWTVTSGL------------VSPYRLAAHLLLAFLLLALLLWLALRLREPDP 157
Query: 251 KQLADNRAGLVRFKRLAYMSKGLIFVTALSG 281
AG R + LA ++ L+ + G
Sbjct: 158 APAP--AAGPRRLRGLALLALVLLLLQIALG 186
Score = 29.9 bits (68), Expect = 3.8
Identities = 33/175 (18%), Positives = 54/175 (30%), Gaps = 33/175 (18%)
Query: 35 LGFFSPGLTRWSSQVATTLSENVAKPNILDKPTRITGYWLLGCSGMVFGAVVLGGVTRLT 94
L F L W +A L E P P R+ G L ++ + LG +
Sbjct: 137 LAFLLLALLLW---LALRLREPDPAPAPAAGPRRLRG-LALLALVLLLLQIALGALVAGL 192
Query: 95 ESGLSMVTWKLFGEKLPRNSAEWIEEFNLYKEYPEFKLKNKDITLEEFKRIWWMEYLHRM 154
++GL+ T+ L G P W F +++LHR+
Sbjct: 193 DAGLACNTFPLMGPDFPAEPD-WRNFFENPA---------------------TVQFLHRL 230
Query: 155 WGRCIGAAFFIPASIFWYKGYFNS---AMKKRVGVFGLLIACQGLMGWYMVQSGL 206
F+ A+++ + L+ Q +G V GL
Sbjct: 231 G----AYLTFLLLLALAVAAARRRRRPALRRAALLLLALLLLQVALGILTVLLGL 281
>gnl|CDD|224528 COG1612, CtaA, Uncharacterized protein required for cytochrome
oxidase assembly [Posttranslational modification,
protein turnover, chaperones].
Length = 323
Score = 108 bits (272), Expect = 6e-26
Identities = 100/346 (28%), Positives = 130/346 (37%), Gaps = 80/346 (23%)
Query: 305 KPTRITGYWLLGCSGMVFGAVVLGGVTRLTESGLSMVTWKLF-GEKLPRNSAEWIEEFNL 363
K ++ WL +V V +G TRLT SGLS+V G +W F
Sbjct: 1 KNRKLVRIWLDAVVALVLKIVRVGAATRLTTSGLSIVEGAPVRGTGSGLGCPDWPLCFGQ 60
Query: 364 YKEY----PEFKLQNIGLMGWYMVQSGLEDRFHTQSDVPRVSQYRLASHLSMAFLLYSGL 419
YK FKL I + W FH RL + L LL L
Sbjct: 61 YKPPGMTLEVFKL--IFWIEW----------FH-----------RLLAGLI--GLLVLLL 95
Query: 420 LWTALDHLLPSSKQLADNRAGLLRFKRLAYMSKGLIFVTALSGENMLRGLMGWYMVQSGL 479
A R + + I AL L+GL+G + V SGL
Sbjct: 96 AILAW-----------------RRRRISRELKLAAILALALLI---LQGLIGGWTVTSGL 135
Query: 480 EDRFHTQSDVPRVSQYRLASHLSMAFLLYSGLLWTALDHLLPSSKQLADNRAGLLRFKRL 539
R S RLA HL A ++ + L+WTA P + + L
Sbjct: 136 LPR-------IVASHLRLAMHLFAALVILALLIWTADGPGSPRLADGK-------KLRGL 181
Query: 540 AYMSKGLIFVTALSGAFVAGLDAGLVYNSFPLMADRLIPTDILALEPPLRNFTENPTTVQ 599
A + GL+++ GA VAGLDAGL YN++PLM R I N E+P TVQ
Sbjct: 182 AGIGLGLLYLQIYLGALVAGLDAGLAYNTWPLMDGRWI-----------TNLGESPETVQ 230
Query: 600 FDHRVLGISVF-SLLTAQYWMGRKLKLPG----RANLALTCVTGMA 640
F HR+ VF + L R+ L RA + L VT A
Sbjct: 231 FVHRLGAYLVFVAALLLLVAALRRAPLTRAARTRAVVLLALVTLQA 276
Score = 105 bits (264), Expect = 6e-25
Identities = 64/219 (29%), Positives = 91/219 (41%), Gaps = 25/219 (11%)
Query: 65 KPTRITGYWLLGCSGMVFGAVVLGGVTRLTESGLSMVTWKLF-GEKLPRNSAEWIEEFNL 123
K ++ WL +V V +G TRLT SGLS+V G +W F
Sbjct: 1 KNRKLVRIWLDAVVALVLKIVRVGAATRLTTSGLSIVEGAPVRGTGSGLGCPDWPLCFGQ 60
Query: 124 YKEYPEFKLKNKDITLEEFKRIWWMEYLHRMWGRCIGAAFFIPASIFW-YKGYFNSAMKK 182
YK +TLE FK I+W+E+ HR+ IG + A + W +
Sbjct: 61 YKPP--------GMTLEVFKLIFWIEWFHRLLAGLIGLLVLLLAILAWRRRRISRELKLA 112
Query: 183 RVGVFGLLIACQGLMGWYMVQSGLEDRFHIQSDVPRVSQYRLASHLSMAFLLYSGLLWTA 242
+ LLI QGL+G + V SGL R S RLA HL A ++ + L+WTA
Sbjct: 113 AILALALLIL-QGLIGGWTVTSGLLPR-------IVASHLRLAMHLFAALVILALLIWTA 164
Query: 243 LDHLLPSSKQLADNRAGLVRFKRLAYMSKGLIFVTALSG 281
P A + + LA + GL+++ G
Sbjct: 165 DGPGSPRL-------ADGKKLRGLAGIGLGLLYLQIYLG 196
Score = 30.8 bits (70), Expect = 2.3
Identities = 24/150 (16%), Positives = 46/150 (30%), Gaps = 30/150 (20%)
Query: 49 VATTLSENVAKPNILDKPTRITGYWLLGCSGMVFGAVVLGGVTRLTESGLSMVTWKLFGE 108
+ T + K R LG +++ + LG + ++GL+ TW L
Sbjct: 160 LIWTADGPGSPRLADGKKLRGLAGIGLG---LLYLQIYLGALVAGLDAGLAYNTWPLMDG 216
Query: 109 KLPRNSAEWIEEFNLYKEYPEFKLKNKDITLEEFKRIWWMEYLHRMWGRCIGAAFFIPAS 168
+ N E E ++++HR+ + A +
Sbjct: 217 RWITNLGESPE---------------------------TVQFVHRLGAYLVFVAALLLLV 249
Query: 169 IFWYKGYFNSAMKKRVGVFGLLIACQGLMG 198
+ A + R V L+ Q +G
Sbjct: 250 AALRRAPLTRAARTRAVVLLALVTLQAALG 279
>gnl|CDD|219606 pfam07852, DUF1642, Protein of unknown function (DUF1642). The
sequences making up this family are derived from various
hypothetical phage and prophage proteins. The region in
question is approximately 140 amino acids long.
Length = 136
Score = 31.2 bits (71), Expect = 0.76
Identities = 13/56 (23%), Positives = 21/56 (37%), Gaps = 9/56 (16%)
Query: 109 KLPRNSAEWIEEF--NLYKEYPE-FKLKNKDITLEEFKRIWWM------EYLHRMW 155
+P+ A+WIE+ +L E L N + + W+ E L W
Sbjct: 5 VVPQFVADWIEKCKESLEFSIIEDLTLINYTEDDIPDEVLDWLNIEENQETLANAW 60
>gnl|CDD|109979 pfam00944, Peptidase_S3, Alphavirus core protein. Also known as
coat protein C and capsid protein C. This makes the
literature very confusing. Alphaviruses consist of a
nucleoprotein core, a lipid membrane which envelopes the
core, and glycoprotein spikes protruding from the lipid
membrane.
Length = 157
Score = 31.4 bits (71), Expect = 0.87
Identities = 14/37 (37%), Positives = 20/37 (54%), Gaps = 3/37 (8%)
Query: 84 AVVLGGVTRLTESGLSMVTWKLFGEKL---PRNSAEW 117
A+VLGG + + LS+VTW G + P + EW
Sbjct: 121 AIVLGGANEGSRTALSVVTWNKKGVTIKTTPEGTEEW 157
Score = 31.4 bits (71), Expect = 0.87
Identities = 14/37 (37%), Positives = 20/37 (54%), Gaps = 3/37 (8%)
Query: 324 AVVLGGVTRLTESGLSMVTWKLFGEKL---PRNSAEW 357
A+VLGG + + LS+VTW G + P + EW
Sbjct: 121 AIVLGGANEGSRTALSVVTWNKKGVTIKTTPEGTEEW 157
>gnl|CDD|214511 smart00090, RIO, RIO-like kinase.
Length = 237
Score = 30.7 bits (70), Expect = 2.2
Identities = 8/41 (19%), Positives = 18/41 (43%), Gaps = 2/41 (4%)
Query: 120 EFNLYKEYPEFKLKNKDITLEEFKRIWW--MEYLHRMWGRC 158
EF P +LK+ + EE ++ +E + +++
Sbjct: 128 EFIGGDGLPAPRLKDVEPEEEEEFELYDDILEEMRKLYKEG 168
>gnl|CDD|114686 pfam05978, UNC-93, Ion channel regulatory protein UNC-93. This
family of proteins is a component of a multi-subunit
protein complex which is involved in the coordination of
muscle contraction. UNC-93 is most likely an ion channel
regulatory protein.
Length = 157
Score = 30.0 bits (68), Expect = 2.3
Identities = 15/45 (33%), Positives = 24/45 (53%), Gaps = 3/45 (6%)
Query: 293 LSENVAKPNILEKPTRITGYWLLGCSGMVFGAVVLGGVTRLTESG 337
L+EN + I E+ T I W +G S ++FG + L V +L+
Sbjct: 114 LTENSTRETI-ERNTSI--QWAIGKSSLIFGGIFLFFVFQLSTDQ 155
>gnl|CDD|225638 COG3096, MukB, Uncharacterized protein involved in chromosome
partitioning [Cell division and chromosome
partitioning].
Length = 1480
Score = 30.6 bits (69), Expect = 3.5
Identities = 16/59 (27%), Positives = 23/59 (38%), Gaps = 2/59 (3%)
Query: 344 KLFGEKLPRNSAEWIEEFNLYKEYPEFKLQNIGLMGWYMVQSGLEDRFHTQSDVPRVSQ 402
+ GE L R+ A W L +E P+ + + M S LE R Q R+
Sbjct: 484 AIAGE-LARSEA-WDVARELLREGPDQRHLAEQVQPLRMRLSELEQRLRQQQSAERLLA 540
>gnl|CDD|226386 COG3868, COG3868, Uncharacterized conserved protein [Function
unknown].
Length = 306
Score = 29.0 bits (65), Expect = 7.9
Identities = 31/143 (21%), Positives = 43/143 (30%), Gaps = 7/143 (4%)
Query: 406 ASHLSMAFLL---YSGLLWTALDHLLPSSKQLADNRAGLLRFKRLAYMSKGLIFVTALSG 462
S A L Y GL L L + AD L+R + + LI
Sbjct: 90 DSLAKRAELKAKGYKGLCLDTLGSLELFAPDAADAPKSLIRQLYANWPDESLIDNRGFEW 149
Query: 463 ENMLRGLMGWYMVQSGLEDRFHTQSDVPRVSQYRLASHLSMAFLL--YSGLLWTALDHLL 520
L L+G + ++ D V A L++ L L ALD+
Sbjct: 150 LPYLPELLGKVLKLGLVKGFDAVAPDNREVYDADRAGLLAILDRLDSQYRLPVIALDYGD 209
Query: 521 PSSKQLADNRAGLLRFKRLAYMS 543
P + RA LR
Sbjct: 210 PIR--RKNARALALRALAQGLNP 230
>gnl|CDD|133144 cd05477, gastricsin, Gastricsins, asparate proteases produced in
gastric mucosa. Gastricsin is also called pepsinogen C.
Gastricsins are produced in gastric mucosa of mammals.
It is synthesized by the chief cells in the stomach as
an inactive zymogen. It is self-converted to a mature
enzyme under acidic conditions. Human gastricsin is
distributed throughout all parts of the stomach.
Gastricsin is synthesized as an inactive progastricsin
that has an approximately 40 residue prosequence. It is
self-converting to a mature enzyme being triggered by a
drop in pH from neutrality to acidic conditions. Like
other aspartic proteases, gastricsin are characterized
by two catalytic aspartic residues at the active site,
and display optimal activity at acidic pH. Mature enzyme
has a pseudo-2-fold symmetry that passes through the
active site between the catalytic aspartate residues.
Structurally, aspartic proteases are bilobal enzymes,
each lobe contributing a catalytic aspartate residue,
with an extended active site cleft localized between the
two lobes of the molecule. One lobe may be evolved from
the other through ancient gene-duplication event.
Although the three-dimensional structures of the two
lobes are very similar, the amino acid sequences are
more divergent, except for the conserved catalytic site
motif. This family of aspartate proteases is classified
by MEROPS as the peptidase family A1 (pepsin A, clan
AA).
Length = 318
Score = 29.1 bits (65), Expect = 8.0
Identities = 19/56 (33%), Positives = 29/56 (51%), Gaps = 5/56 (8%)
Query: 35 LGFFSPGLTRWSSQVATTLSENVAKPNILDKPTRITGYWLLGCSGMVFGAVVLGGV 90
LG P + S+ ATT+ + + + N+L P I ++L G G G +V GGV
Sbjct: 111 LGLAYPSI---SAGGATTVMQGMMQQNLLQAP--IFSFYLSGQQGQQGGELVFGGV 161
>gnl|CDD|216237 pfam01005, Flavi_NS2A, Flavivirus non-structural protein NS2A.
NS2A is a hydrophobic protein about 25 kDa is size.
NS2A is cleaved from NS1 by a membrane bound host
protease. NS2A has been found to associate with the
dsRNA within the vesicle packages. It has also been
found that NS2A associates with the known replicase
components and so NS2A has been postulated to be part
of this replicase complex.
Length = 216
Score = 28.7 bits (65), Expect = 8.3
Identities = 10/25 (40%), Positives = 13/25 (52%)
Query: 67 TRITGYWLLGCSGMVFGAVVLGGVT 91
R TG +L + +VLGGVT
Sbjct: 15 KRWTGRHILWGGVALLLLMVLGGVT 39
Score = 28.7 bits (65), Expect = 8.3
Identities = 10/25 (40%), Positives = 13/25 (52%)
Query: 307 TRITGYWLLGCSGMVFGAVVLGGVT 331
R TG +L + +VLGGVT
Sbjct: 15 KRWTGRHILWGGVALLLLMVLGGVT 39
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
0.324 0.137 0.427
Gapped
Lambda K H
0.267 0.0735 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 33,305,528
Number of extensions: 3322553
Number of successful extensions: 3761
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3727
Number of HSP's successfully gapped: 37
Length of query: 643
Length of database: 10,937,602
Length adjustment: 103
Effective length of query: 540
Effective length of database: 6,369,140
Effective search space: 3439335600
Effective search space used: 3439335600
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 62 (27.6 bits)