RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4010
(1527 letters)
>gnl|CDD|216239 pfam01007, IRK, Inward rectifier potassium channel.
Length = 336
Score = 353 bits (908), Expect = e-110
Identities = 136/237 (57%), Positives = 170/237 (71%), Gaps = 3/237 (1%)
Query: 776 FACIWWLLAYTHGDVLSENQNNPQFVPCVIGVNSFASSLLFSIETQHTIGYGSRSTTTEC 835
F IWWL+A+ HGD+ N PCV+ V+SF S+ LFSIETQ TIGYG R T EC
Sbjct: 52 FGTIWWLIAFAHGDLEPAPDANHT--PCVMNVHSFTSAFLFSIETQTTIGYGFRCITEEC 109
Query: 836 PEAIWLMCVQSIVGTIIQAFMTGLVFAKVARPKQRTQTLLFSRTAVINQRDGHLCLMFRV 895
P AI+L+ +QSI+G II AFM G +FAK+ARPK+R +TL+FS AVI RDG LCLMFRV
Sbjct: 110 PLAIFLLILQSILGCIINAFMIGCIFAKMARPKKRAETLIFSHHAVIALRDGKLCLMFRV 169
Query: 896 GDMREKSHIIGASVKAYLVKARTTAEGEVLNPFLSELKLHIDQYDSDIFLLWPTIVVHRI 955
GD+R KSH++ A V+A L+K+R T EGE + ++K+ D IFL+ P + H I
Sbjct: 170 GDLR-KSHLVEAHVRAQLLKSRVTPEGEFIPLHQIDIKVGFDTGSDRIFLVSPLTICHVI 228
Query: 956 DEESPLYDMAAKKLLTEKFEIIAILEGTTESTGQTTQAKTSYLPSEILWGHRFEPLV 1012
DE SPLYD++A+ L + FEI+ ILEGT ESTG T QA+TSYLP EILWGHRFEP+V
Sbjct: 229 DERSPLYDLSAQDLKSADFEIVVILEGTVESTGMTCQARTSYLPEEILWGHRFEPVV 285
Score = 230 bits (589), Expect = 3e-67
Identities = 94/192 (48%), Positives = 119/192 (61%), Gaps = 28/192 (14%)
Query: 320 LQAFMTGLVFAKVARPKQRTQTLLFSRTAVINQRDGHLCLMFRVGDMREKSHIIGASVKA 379
+ AFM G +FAK+ARPK+R +TL+FS AVI RDG LCLMFRVGD+R KSH++ A V+A
Sbjct: 126 INAFMIGCIFAKMARPKKRAETLIFSHHAVIALRDGKLCLMFRVGDLR-KSHLVEAHVRA 184
Query: 380 YLVKARTTAEGEVLNPFLSELKVILDAVLQSTEFSSTTSTYVRAGTPYQLHIDQYDSDIF 439
L+K+R T EGE + ++KV D IF
Sbjct: 185 QLLKSRVTPEGEFIPLHQIDIKV---------------------------GFDTGSDRIF 217
Query: 440 LLWPTIVVHRIDEESPLYDMAAKKLLTEKFEIIAILEGTTESTGQTTQAKTSYLPSEILW 499
L+ P + H IDE SPLYD++A+ L + FEI+ ILEGT ESTG T QA+TSYLP EILW
Sbjct: 218 LVSPLTICHVIDERSPLYDLSAQDLKSADFEIVVILEGTVESTGMTCQARTSYLPEEILW 277
Query: 500 GHRFEPLVRKDK 511
GHRFEP+V +
Sbjct: 278 GHRFEPVVSLEN 289
Score = 73.1 bits (180), Expect = 2e-13
Identities = 24/49 (48%), Positives = 35/49 (71%)
Query: 108 IDKNGTGNIIQINISKRRRAFLQDIFTTLVDIQWRWTMLVCSMGFLLSW 156
+ K+G N+ N+ R +LQDIFTTLVD++WR+ +L+ S+ FLLSW
Sbjct: 1 VSKDGRCNVYFKNVRGERGRYLQDIFTTLVDLKWRYMLLIFSLAFLLSW 49
Score = 61.6 bits (150), Expect = 1e-09
Identities = 19/45 (42%), Positives = 32/45 (71%), Gaps = 1/45 (2%)
Query: 646 IDKNGTGNIIQINISKRRRAFLQDIFTTLVDIQWRWTMLL-ALSY 689
+ K+G N+ N+ R +LQDIFTTLVD++WR+ +L+ +L++
Sbjct: 1 VSKDGRCNVYFKNVRGERGRYLQDIFTTLVDLKWRYMLLIFSLAF 45
>gnl|CDD|227673 COG5383, COG5383, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 295
Score = 229 bits (586), Expect = 1e-67
Identities = 99/218 (45%), Positives = 122/218 (55%), Gaps = 32/218 (14%)
Query: 1108 MSPNAIRKLFSQSMSEMYKKQVPQYSTLLELVRQVNLDTLANSGKLDEMSAEDLERLNEE 1167
+SP+ IR FS +MS MY+++VP Y TLLELV VN D L +L+ + LERL EE
Sbjct: 5 VSPDEIRAAFSAAMSAMYQEEVPAYGTLLELVADVNSDVLTRHRRLER--TDSLERLTEE 62
Query: 1168 RHGAIRLGTPEELYNIRRLFSVMNMHPVGYYDLSTAGVPVHSTAFRSIDAYALNQSPFRV 1227
RHGAIR+GT EL +RRLF+VM M+PVGYYDLSTAGVPVHSTAF + +
Sbjct: 63 RHGAIRVGTAAELSMLRRLFAVMGMYPVGYYDLSTAGVPVHSTAFEPVSFADEDG----- 117
Query: 1228 FTSLLRLELIEDKVEQSDSPHEAKHTARFGEVEQRGIALTAKGRQLYDYLLDKTRGSFKG 1287
H HTARFGE+EQRG+ALT KGR LYD LL F
Sbjct: 118 ------------------ERHPGVHTARFGEIEQRGVALTPKGRVLYDDLLQAASTGFNA 159
Query: 1288 IPDETNSKLYMENLASNFSVFPDDLNTLRKEKLAYFNY 1325
+ F FPD ++ +R++ LA F Y
Sbjct: 160 MAYSA-------TAREIFEQFPDSMSEMREQGLAQFRY 190
Score = 84.1 bits (208), Expect = 2e-17
Identities = 26/127 (20%), Positives = 48/127 (37%), Gaps = 5/127 (3%)
Query: 1113 IRKLFSQSMSEMYKKQVPQYSTLLELVRQVNLDTLA---NSGKLDE--MSAEDLERLNEE 1167
I + F SMSEM ++ + Q+ LLELV + +L + L E + +
Sbjct: 169 IFEQFPDSMSEMREQGLAQFRYLLELVAAAHRQSLEEGDDPQGLIERGAVQFEPIVYEDF 228
Query: 1168 RHGAIRLGTPEELYNIRRLFSVMNMHPVGYYDLSTAGVPVHSTAFRSIDAYALNQSPFRV 1227
+ L N + +P + D A V + +I+ ++ + +
Sbjct: 229 LPVSAAGIFQSNLGNEGQQEFDGGPNPDRFEDALGAAVLDEFQLYAAIEQRSIERCILAL 288
Query: 1228 FTSLLRL 1234
+LLR
Sbjct: 289 KPALLRE 295
Score = 78.4 bits (193), Expect = 2e-15
Identities = 33/72 (45%), Positives = 45/72 (62%)
Query: 1452 AGLIGYEGITYEDFLPVSAAGIFQSNLSTNANHHIESQSSRHDFENALGCSVRDEMKLYE 1511
G + +E I YEDFLPVSAAGIFQSNL + + FE+ALG +V DE +LY
Sbjct: 215 RGAVQFEPIVYEDFLPVSAAGIFQSNLGNEGQQEFDGGPNPDRFEDALGAAVLDEFQLYA 274
Query: 1512 DLEKKSLQDCTF 1523
+E++S++ C
Sbjct: 275 AIEQRSIERCIL 286
Score = 40.2 bits (94), Expect = 0.006
Identities = 11/68 (16%), Positives = 19/68 (27%), Gaps = 11/68 (16%)
Query: 164 QTLLDTHSLVADIVCFKTPHINHLTPSTLDIDRVQDRMVAQMSRHGSCVPKAVIEGPPRR 223
L + D + L + LD ++ + + IE
Sbjct: 239 SNLGNEGQQEFDGGPNPDRFEDALGAAVLDEFQLYAAI-----------EQRSIERCILA 287
Query: 224 EVPILLRQ 231
P LLR+
Sbjct: 288 LKPALLRE 295
>gnl|CDD|219283 pfam07063, DUF1338, Domain of unknown function (DUF1338). This
domain is found in a variety of bacterial and fungal
hypothetical proteins of unknown function. The structure
of this domain has been solved by structural genomics.
The structure implies a zinc-binding function, so it is a
putative metal hydrolase (information derived from TOPSAN
for PDB:3iuz).
Length = 288
Score = 108 bits (272), Expect = 1e-25
Identities = 50/176 (28%), Positives = 68/176 (38%), Gaps = 36/176 (20%)
Query: 1114 RKLFSQSMSEMYKKQVPQYSTLLELVRQVNLDTLANSGKLDEMSAEDLERLNEERHGAIR 1173
+ F ++ E Y +VP T+++LV V L HGA R
Sbjct: 1 ARAFFAALWEDYLARVPSAGTIVDLVASVGETVL-------------------NDHGAFR 41
Query: 1174 --LGTPEELYNIRRLFSVMNMHPVGYYDLSTAGVPVHSTAFRSIDAYALNQSPFRVFTSL 1231
G P L + RLF + PVGYYD +H+ AFR DA RVF S
Sbjct: 42 TFGGPPLGLAALARLFLALGYVPVGYYDFPAKK--LHARAFRPPDAPL-----PRVFISE 94
Query: 1232 LRLELIEDKVEQSDSPHEA--KHTARFGEVEQRGIALTAKGRQLYDYLLDKTRGSF 1285
LR+EL+ S E K+ A RG+ L + L + G+F
Sbjct: 95 LRVELL------SPELQEIIEKYLASRDIFTPRGLELLDAAAEDAAEFLAEFLGTF 144
Score = 85.8 bits (213), Expect = 6e-18
Identities = 30/100 (30%), Positives = 37/100 (37%), Gaps = 14/100 (14%)
Query: 156 W-IVSYDTYQTLLDTHSLVADIVCFKTPHINHLTPST------LDIDRVQDRMVAQMSRH 208
W + S Y+ LL A ++ INH T LDID V +
Sbjct: 146 WQLPSLADYEQLLAESEYAAWVLA-HGYAINHFTVRVNRLSGFLDIDAVNAALKELGFPL 204
Query: 209 GSCVPKAVIEGPPRREVPILLRQTSFKALTEDIAVPGRDV 248
S I+G P LLRQTS KA E + DV
Sbjct: 205 NS--SGGEIKGSPD----GLLRQTSTKADEEPVEFADGDV 238
Score = 44.9 bits (107), Expect = 2e-04
Identities = 15/27 (55%), Positives = 16/27 (59%)
Query: 1452 AGLIGYEGITYEDFLPVSAAGIFQSNL 1478
G E I YE FLP SA GIF+S L
Sbjct: 262 PGDEIAEPILYEGFLPGSADGIFESTL 288
>gnl|CDD|180988 PRK07470, PRK07470, acyl-CoA synthetase; Validated.
Length = 528
Score = 35.8 bits (83), Expect = 0.20
Identities = 26/86 (30%), Positives = 40/86 (46%), Gaps = 20/86 (23%)
Query: 586 EELNGDELNAVIERQIVETLLSPPIIVRAPSQSSSINTSFNYHHRKLR-----GSPFYRK 640
E + E+ A++ER V L + P I++ + +++ Y H LR G+P YR
Sbjct: 239 ERFDPAEVWALVERHRVTNLFTVPTILKMLVEHPAVD---RYDHSSLRYVIYAGAPMYRA 295
Query: 641 LKKRAIDKNG------------TGNI 654
+KRA+ K G TGNI
Sbjct: 296 DQKRALAKLGKVLVQYFGLGEVTGNI 321
>gnl|CDD|240605 cd12922, VKOR_5, Vitamin K epoxide reductase family in bacteria.
This family includes vitamin K epoxide reductase (VKOR)
mostly present in actinobacteria. VKOR (also named
VKORC1) is an integral membrane protein that catalyzes
the reduction of vitamin K 2,3-epoxide and vitamin K to
vitamin K hydroquinone, an essential co-factor
subsequently used in the gamma-carboxylation of glutamic
acid residues in blood coagulation enzymes. All homologs
of VKOR contain an active site CXXC motif, which is
switched between reduced and disulfide-bonded states
during the reaction cycle. In some bacterial homologs,
the VKOR domain is fused with domains of the thioredoxin
family of oxidoreductases which may function as redox
partners in initiating the reduction cascade.
Length = 133
Score = 31.4 bits (72), Expect = 1.5
Identities = 11/36 (30%), Positives = 20/36 (55%), Gaps = 2/36 (5%)
Query: 143 WTMLVCS-MGFLLSWIVSYDTYQTLLD-THSLVADI 176
W +LV +G + S++++ + Q L D + L DI
Sbjct: 1 WLLLVAGLIGLVASFVLTVEKIQLLEDPDYVLSCDI 36
>gnl|CDD|129593 TIGR00502, nagB, glucosamine-6-phosphate isomerase. The set of
proteins recognized by This model includes a closely
related pair from Bacillus subtilis, one of which is
uncharacterized but included as a member of the
orthologous set [Central intermediary metabolism, Amino
sugars].
Length = 259
Score = 31.3 bits (71), Expect = 3.3
Identities = 23/97 (23%), Positives = 39/97 (40%), Gaps = 19/97 (19%)
Query: 1417 GLSESALDLYQTDHISGKSHLDKNVNDFNLDNYVRAGLIGYEGITYEDFLPVSAAGIFQS 1476
G + ++L+Q IS + NV FN+D Y G++ E P S + S
Sbjct: 47 GTYKQLIELHQAGKISFQ-----NVTTFNMDEYA--------GLSEEH--PES----YHS 87
Query: 1477 NLSTNANHHIESQSSRHDFENALGCSVRDEMKLYEDL 1513
+ N HI+ + + N + E + YE+
Sbjct: 88 FMHNNFFQHIDIKPENINILNGNAPDLEAECRRYEEK 124
>gnl|CDD|236646 PRK10064, PRK10064, catecholate siderophore receptor CirA;
Provisional.
Length = 663
Score = 31.4 bits (71), Expect = 4.8
Identities = 18/44 (40%), Positives = 23/44 (52%), Gaps = 3/44 (6%)
Query: 246 RDVGSISIFNGQFFLRG-LTEGTVTAKVLSSRNRREKEDRIGSD 288
RD G +NGQFF G L +G + K S +REK+D S
Sbjct: 178 RDRGDT--YNGQFFTSGPLIDGVLGMKAYGSLAKREKDDPQNST 219
>gnl|CDD|236506 PRK09420, cpdB, bifunctional 2',3'-cyclic nucleotide
2'-phosphodiesterase/3'-nucleotidase periplasmic
precursor protein; Reviewed.
Length = 649
Score = 30.3 bits (69), Expect = 9.2
Identities = 17/57 (29%), Positives = 25/57 (43%), Gaps = 9/57 (15%)
Query: 446 VVHRIDEESPLYDMAAKK-LLTEKFEIIAILEGTTEST--------GQTTQAKTSYL 493
V E P+YD A KK L E +++A L+ ++T G+ SYL
Sbjct: 313 VTDAKAEARPIYDKANKKSLAAEDPKLVAALKADHQATRAFVSQPIGKAADNMYSYL 369
Score = 30.3 bits (69), Expect = 9.2
Identities = 17/57 (29%), Positives = 25/57 (43%), Gaps = 9/57 (15%)
Query: 951 VVHRIDEESPLYDMAAKK-LLTEKFEIIAILEGTTEST--------GQTTQAKTSYL 998
V E P+YD A KK L E +++A L+ ++T G+ SYL
Sbjct: 313 VTDAKAEARPIYDKANKKSLAAEDPKLVAALKADHQATRAFVSQPIGKAADNMYSYL 369
>gnl|CDD|216914 pfam02170, PAZ, PAZ domain. This domain is named PAZ after the
proteins Piwi Argonaut and Zwille. This domain is found
in two families of proteins that are involved in
post-transcriptional gene silencing. These are the Piwi
family and the Dicer family, that includes the Carpel
factory protein. The function of the domains is unknown
but has been suggested to mediate complex formation
between proteins of the Piwi and Dicer families by
hetero-dimerisation. The three-dimensional structure of
this domain has been solved. The PAZ domain is composed
of two subdomains. One subdomain is similar to the OB
fold, albeit with a different topology. The OB-fold is
well known as a single-stranded nucleic acid binding
fold. The second subdomain is composed of a beta-hairpin
followed by an alpha-helix. The PAZ domains shows
low-affinity nucleic acid binding and appears to
interact with the 3' ends of single-stranded regions of
RNA in the cleft between the two subdomains. PAZ can
bind the characteristic two-base 3' overhangs of siRNAs,
indicating that although PAZ may not be a primary
nucleic acid binding site in Dicer or RISC, it may
contribute to the specific and productive incorporation
of siRNAs and miRNAs into the RNAi pathway.
Length = 114
Score = 28.4 bits (64), Expect = 9.9
Identities = 12/36 (33%), Positives = 18/36 (50%), Gaps = 1/36 (2%)
Query: 56 YFKSKYKVPILYTHHFLCVLKIVPR-CYLPISVNKI 90
YFK KY + + Y + L V+ + YLP + I
Sbjct: 71 YFKEKYNITLKYPNLPLLVVGRKKKPNYLPPELCFI 106
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
0.321 0.136 0.403
Gapped
Lambda K H
0.267 0.0767 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 77,668,755
Number of extensions: 7769902
Number of successful extensions: 5746
Number of sequences better than 10.0: 1
Number of HSP's gapped: 5728
Number of HSP's successfully gapped: 24
Length of query: 1527
Length of database: 10,937,602
Length adjustment: 110
Effective length of query: 1417
Effective length of database: 6,058,662
Effective search space: 8585124054
Effective search space used: 8585124054
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 (21.9 bits)
S2: 66 (29.1 bits)