Protein Info for PP_1983 in Pseudomonas putida KT2440

Annotation: PAS/PAC/GAF sensor-containing diguanylate cyclase/phosphodiesterase

These analyses and tools can help you predict a protein's function, but be skeptical. For enzymes, over 10% of annotations from KEGG or SEED are probably incorrect. For other types of proteins, the error rates may be much higher. MetaCyc and Swiss-Prot have low error rates, but the best hits in these databases are often quite distant, so this protein's function may not be the same. TIGRFam has low error rates. Finally, many experimentally-characterized proteins are not in any of these databases. To find relevant papers, use PaperBLAST.

Protein Families and Features

1 100 200 300 400 500 600 700 800 900 1000 1098 PF00989: PAS" amino acids 34 to 143 (110 residues), 35.3 bits, see alignment E=3.6e-12 amino acids 159 to 238 (80 residues), 31 bits, see alignment 8e-11 amino acids 413 to 507 (95 residues), 27 bits, see alignment E=1.3e-09 amino acids 538 to 647 (110 residues), 34.7 bits, see alignment E=5.4e-12 TIGR00229: PAS domain S-box protein" amino acids 37 to 153 (117 residues), 39.9 bits, see alignment E=4.3e-14 amino acids 156 to 278 (123 residues), 52.3 bits, see alignment E=6.2e-18 amino acids 330 to 407 (78 residues), 26.5 bits, see alignment 5.7e-10 amino acids 409 to 532 (124 residues), 61.3 bits, see alignment E=1e-20 amino acids 533 to 656 (124 residues), 80.1 bits, see alignment E=1.5e-26 PF08447: PAS_3" amino acids 53 to 140 (88 residues), 46.7 bits, see alignment E=1.1e-15 amino acids 307 to 393 (87 residues), 33.9 bits, see alignment E=1.1e-11 PF08448: PAS_4" amino acids 55 to 148 (94 residues), 23.6 bits, see alignment E=1.8e-08 amino acids 419 to 526 (108 residues), 28.9 bits, see alignment E=4e-10 amino acids 543 to 651 (109 residues), 27.6 bits, see alignment E=1.1e-09 PF13188: PAS_8" amino acids 159 to 212 (54 residues), 29.6 bits, see alignment 1.7e-10 amino acids 412 to 466 (55 residues), 31 bits, see alignment 6.2e-11 PF13426: PAS_9" amino acids 168 to 270 (103 residues), 22.5 bits, see alignment E=3.9e-08 amino acids 422 to 524 (103 residues), 31.8 bits, see alignment E=5.1e-11 amino acids 547 to 649 (103 residues), 46.1 bits, see alignment E=1.7e-15 TIGR00254: diguanylate cyclase (GGDEF) domain" amino acids 658 to 826 (169 residues), 156.2 bits, see alignment E=6.2e-50 PF00990: GGDEF" amino acids 661 to 822 (162 residues), 163.3 bits, see alignment E=1.4e-51 PF00563: EAL" amino acids 843 to 1081 (239 residues), 251.4 bits, see alignment E=2.7e-78

Best Hits

KEGG orthology group: None (inferred from 100% identity to ppu:PP_1983)

Predicted SEED Role

"Sensory box/GGDEF family protein"

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

Search CDD (the Conserved Domains Database, which includes COG and superfam)

Search structures

Predict protein localization: PSORTb (Gram-negative bacteria)

Predict transmembrane helices and signal peptides: Phobius

Check the current SEED with FIGfam search

Find homologs in fast.genomics or the ENIGMA genome browser

See Q88LF0 at UniProt or InterPro

Protein Sequence (1098 amino acids)

>PP_1983 PAS/PAC/GAF sensor-containing diguanylate cyclase/phosphodiesterase (Pseudomonas putida KT2440)
MPKSANRFLRLPRIPAADPQESEQAWQNAPQLLAALNGAHLGAWLWDIESGRVSWSRGTQ
ALFGFDPQRPLPADIDYLDLLPEEDRARTRQVFQAVVNGEPVEQAMRHRIRWPDGSLHWL
EINGSLTHDPHGRPQMIGVIREITRQRERETALINSEKRFATLFHLSPNAILLTRRRDGM
IFEVNQHFEDMFGWPGSQVIGKTSLELGLWVNPEQRHQIVESTRANGGPLIMEVQFRATS
GKVHDGILCTQGIELEGVTFLISTFVDTTERKRAEQALKDSQERLDLALDSAQLGTWDWH
IPSGMLYGSARAAQLHGLPPIPFHESFDAFFEGVPEHERNSMRQAYRSLREGPAGNYQIT
YRVQLENGTSRYIESRARLYRDDQGIPLRMAGTLLDITDQVEREQRLSASEEKFASLFQV
SPDPICVTRQDTGQFIEINPAFTQTFGWSSAQVLGRTAEEIGLWAESVERAKRIEQVIRE
QALSNVAVVLNHRNGDPLTCVISSRLITVDDQPCSVTTLRDITQQQRAEAALKSSEEKFA
KAFHSSPDAITITERHSGRYLEVNDGFCRLTGYSTDEVIGHTVYEIGIWADDKQRSALLA
ELRERGRVHHREMLGRNKRGDILTVEVSVEPITLNEVDCLLLTARDVSQLKNAQAQIRHL
AYHDPLTNLPNRALLMDRLSQQIALLKRHNLRGALLFLDLDHFKHINDSLGHPVGDTVLK
IITARLEASVRLEDTVARLGGDEFVVLLSGLEGSREHVEEKVRELADTLRELLAEPMSLD
GQRLQVTPSIGVALIPDHGTTPADLLKRADIALYRAKDSGRNTTQLFHTTMQKAASERLR
MENDLRLALARGELALHFQPQVDARDNRIVGAEVLLRWHHPQLGQQPPSQFIQVLEESGL
ILEVGSWILDEACDACARMLTDGLIDADDFNLCVNISPRQFRQNDFVGRVLRSLDDYRLP
RQMLTLEITEGIVIQNLEDTISKMCELKRYGVSFAMDDFGTGYSSLTYLKRLPVDALKID
QSFVRDAPVDPNDAEIVRAIVAMARSLDLAVIAEGVELTEQLAFLERLGCHLYQGYLHSR
PLPLPEFRQMLLEAPADY