Detailed information
Bioinformatically predicted
Overview
| Name | pilD | Type | Machinery gene |
| Locus tag | M8333_RS20980 | Genome accession | NZ_CP097554 |
| Coordinates | 4439139..4439969 (-) | Length | 276 a.a. |
| NCBI ID | WP_224266555.1 | Uniprot ID | - |
| Organism | Klebsiella michiganensis strain YZUMF202001 | ||
| Function | assembly of type IV pilus (predicted from homology) DNA binding and uptake |
||
Related MGE
Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.
Gene-MGE association summary
| MGE type | MGE coordinates | Gene coordinates | Relative position | Distance (bp) |
|---|---|---|---|---|
| Genomic island | 4427711..4456646 | 4439139..4439969 | within | 0 |
Gene organization within MGE regions
Location: 4427711..4456646
| Locus tag | Gene name | Coordinates (strand) | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| M8333_RS20930 (M8333_20920) | - | 4427711..4428709 (-) | 999 | WP_064374609.1 | LacI family DNA-binding transcriptional regulator | - |
| M8333_RS20935 (M8333_20925) | - | 4429001..4430395 (-) | 1395 | WP_064374608.1 | MFS transporter | - |
| M8333_RS20940 (M8333_20930) | - | 4430414..4432114 (-) | 1701 | WP_049079263.1 | glycoside hydrolase family 32 protein | - |
| M8333_RS20945 (M8333_20935) | - | 4432174..4433523 (-) | 1350 | WP_275050572.1 | glycoside hydrolase family 172 protein | - |
| M8333_RS20950 (M8333_20940) | - | 4433884..4435176 (-) | 1293 | WP_049082069.1 | NosD domain-containing protein | - |
| M8333_RS20955 (M8333_20945) | - | 4435594..4435935 (-) | 342 | WP_004848570.1 | RamA family antibiotic efflux transcriptional regulator | - |
| M8333_RS20960 (M8333_20950) | - | 4435968..4437068 (-) | 1101 | WP_014228309.1 | MBL fold metallo-hydrolase | - |
| M8333_RS20965 (M8333_20955) | - | 4437259..4437840 (+) | 582 | WP_004848568.1 | TetR/AcrR family transcriptional regulator | - |
| M8333_RS20970 (M8333_20960) | - | 4437840..4438208 (+) | 369 | WP_014228308.1 | MmcQ/YjbR family DNA-binding protein | - |
| M8333_RS20975 (M8333_20965) | nfsB | 4438327..4438980 (+) | 654 | WP_014228307.1 | oxygen-insensitive NAD(P)H nitroreductase | - |
| M8333_RS20980 (M8333_20970) | pilD | 4439139..4439969 (-) | 831 | WP_224266555.1 | prepilin peptidase | Machinery gene |
| M8333_RS20985 (M8333_20975) | - | 4440031..4440771 (-) | 741 | WP_064358069.1 | type II secretion system protein N | - |
| M8333_RS20990 (M8333_20980) | gspM | 4440761..4441255 (-) | 495 | WP_207171643.1 | type II secretion system protein GspM | - |
| M8333_RS20995 (M8333_20985) | gspL | 4441242..4442447 (-) | 1206 | WP_224266553.1 | type II secretion system protein GspL | - |
| M8333_RS21000 (M8333_20990) | gspK | 4442447..4443433 (-) | 987 | WP_224266552.1 | type II secretion system minor pseudopilin GspK | - |
| M8333_RS21005 (M8333_20995) | gspJ | 4443430..4444029 (-) | 600 | WP_072065692.1 | type II secretion system minor pseudopilin GspJ | - |
| M8333_RS21010 (M8333_21000) | gspI | 4444026..4444391 (-) | 366 | WP_048263547.1 | type II secretion system minor pseudopilin GspI | - |
| M8333_RS21015 (M8333_21005) | gspH | 4444388..4444939 (-) | 552 | WP_224266551.1 | type II secretion system minor pseudopilin GspH | - |
| M8333_RS21020 (M8333_21010) | gspG | 4444939..4445367 (-) | 429 | WP_042944533.1 | type II secretion system major pseudopilin GspG | - |
| M8333_RS21025 (M8333_21015) | gspF | 4445397..4446617 (-) | 1221 | WP_224266550.1 | type II secretion system inner membrane protein GspF | - |
| M8333_RS21030 (M8333_21020) | gspE | 4446622..4448121 (-) | 1500 | WP_134897016.1 | type II secretion system ATPase GspE | - |
| M8333_RS21035 (M8333_21025) | gspD | 4448127..4450087 (-) | 1961 | Protein_4147 | type II secretion system secretin GspD | - |
| M8333_RS21040 (M8333_21030) | gspC | 4450106..4450963 (-) | 858 | WP_224266549.1 | type II secretion system protein GspC | - |
| M8333_RS21045 | - | 4451245..4453932 (-) | 2688 | WP_275050573.1 | glycoside hydrolase family 32 protein | - |
| M8333_RS21050 (M8333_21045) | - | 4454065..4454910 (-) | 846 | WP_048263552.1 | mannose/fructose/sorbose PTS transporter subunit IID | - |
| M8333_RS21055 (M8333_21050) | - | 4454925..4455725 (-) | 801 | WP_014228290.1 | PTS mannose/fructose/sorbose transporter subunit IIC | - |
| M8333_RS28580 (M8333_21055) | - | 4455737..4456213 (-) | 477 | WP_048263553.1 | PTS system mannose/fructose/N-acetylgalactosamine-transporter subunit IIB | - |
| M8333_RS28585 (M8333_21060) | - | 4456215..4456646 (-) | 432 | WP_014228288.1 | mannose/fructose/sorbose PTS transporter subunit IIA | - |
Sequence
Protein
Download Length: 276 a.a. Molecular weight: 30021.05 Da Isoelectric Point: 8.7485
>NTDB_id=689991 M8333_RS20980 WP_224266555.1 4439139..4439969(-) (pilD) [Klebsiella michiganensis strain YZUMF202001]
MTLLVAFSSTYPIIWWFGLGATGAIVGSFLNVVICRLPVMLEKHWQREALLQLSLPSSEPTARFNLVLPHSRCPYCHTPV
AARDNIPLLSFLLLKGKARCCGAPISAQYPLVEAATAALFVLTARVFPPGLALCGAWVFVSFLLILAVIDYHRQLLPDVL
TLPLLWIGLLFNLQSCFVSLPQATIGAVAGYLCLWCLFWLFKLLTGKDALGYGDFKLLAALGAWLGWQALPHVVLLAAIS
GLLFAFVQRGGAKKDLAFGPWLALAGVANMLLFQGI
MTLLVAFSSTYPIIWWFGLGATGAIVGSFLNVVICRLPVMLEKHWQREALLQLSLPSSEPTARFNLVLPHSRCPYCHTPV
AARDNIPLLSFLLLKGKARCCGAPISAQYPLVEAATAALFVLTARVFPPGLALCGAWVFVSFLLILAVIDYHRQLLPDVL
TLPLLWIGLLFNLQSCFVSLPQATIGAVAGYLCLWCLFWLFKLLTGKDALGYGDFKLLAALGAWLGWQALPHVVLLAAIS
GLLFAFVQRGGAKKDLAFGPWLALAGVANMLLFQGI
Nucleotide
Download Length: 831 bp
>NTDB_id=689991 M8333_RS20980 WP_224266555.1 4439139..4439969(-) (pilD) [Klebsiella michiganensis strain YZUMF202001]
ATGACATTATTAGTGGCTTTTTCATCCACGTATCCCATCATTTGGTGGTTTGGTCTTGGGGCGACAGGCGCTATCGTCGG
GAGTTTTCTCAATGTGGTGATCTGCCGCTTACCCGTAATGCTCGAGAAACACTGGCAGCGTGAGGCGTTGCTGCAGCTGT
CACTGCCTTCATCTGAACCCACGGCGCGCTTTAATCTGGTATTGCCGCACTCTCGTTGCCCATATTGTCATACTCCTGTT
GCCGCAAGGGATAATATACCTCTGCTGAGTTTCCTGTTGTTAAAGGGCAAGGCTCGCTGTTGCGGCGCGCCTATTTCCGC
GCAGTATCCGCTGGTTGAGGCGGCCACCGCCGCGCTGTTTGTCTTAACCGCGCGTGTATTTCCGCCGGGGCTGGCGCTGT
GTGGCGCCTGGGTATTCGTCTCTTTTTTATTGATCCTGGCCGTTATTGATTATCACCGACAGCTGCTACCCGATGTCCTG
ACGCTGCCCTTATTGTGGATCGGCTTACTGTTTAATCTTCAGTCGTGTTTTGTTTCGTTGCCGCAGGCGACGATTGGCGC
AGTGGCAGGATATCTCTGCTTGTGGTGCCTGTTCTGGCTCTTCAAGCTACTGACAGGCAAGGATGCGCTGGGCTATGGCG
ATTTTAAGCTACTGGCCGCGCTGGGGGCCTGGCTAGGCTGGCAAGCATTACCCCATGTGGTTTTACTGGCGGCGATAAGC
GGATTGCTGTTTGCGTTCGTACAGCGAGGAGGGGCAAAAAAAGATCTGGCATTCGGCCCGTGGCTGGCGTTAGCCGGTGT
GGCAAATATGCTGCTATTTCAGGGTATTTGA
ATGACATTATTAGTGGCTTTTTCATCCACGTATCCCATCATTTGGTGGTTTGGTCTTGGGGCGACAGGCGCTATCGTCGG
GAGTTTTCTCAATGTGGTGATCTGCCGCTTACCCGTAATGCTCGAGAAACACTGGCAGCGTGAGGCGTTGCTGCAGCTGT
CACTGCCTTCATCTGAACCCACGGCGCGCTTTAATCTGGTATTGCCGCACTCTCGTTGCCCATATTGTCATACTCCTGTT
GCCGCAAGGGATAATATACCTCTGCTGAGTTTCCTGTTGTTAAAGGGCAAGGCTCGCTGTTGCGGCGCGCCTATTTCCGC
GCAGTATCCGCTGGTTGAGGCGGCCACCGCCGCGCTGTTTGTCTTAACCGCGCGTGTATTTCCGCCGGGGCTGGCGCTGT
GTGGCGCCTGGGTATTCGTCTCTTTTTTATTGATCCTGGCCGTTATTGATTATCACCGACAGCTGCTACCCGATGTCCTG
ACGCTGCCCTTATTGTGGATCGGCTTACTGTTTAATCTTCAGTCGTGTTTTGTTTCGTTGCCGCAGGCGACGATTGGCGC
AGTGGCAGGATATCTCTGCTTGTGGTGCCTGTTCTGGCTCTTCAAGCTACTGACAGGCAAGGATGCGCTGGGCTATGGCG
ATTTTAAGCTACTGGCCGCGCTGGGGGCCTGGCTAGGCTGGCAAGCATTACCCCATGTGGTTTTACTGGCGGCGATAAGC
GGATTGCTGTTTGCGTTCGTACAGCGAGGAGGGGCAAAAAAAGATCTGGCATTCGGCCCGTGGCTGGCGTTAGCCGGTGT
GGCAAATATGCTGCTATTTCAGGGTATTTGA
3D structure
| Source | ID | Structure |
|---|
Similar proteins
Only experimentally validated proteins are listed.
| Protein | Organism | Identities (%) | Coverage (%) | Ha-value |
|---|---|---|---|---|
| pilD | Vibrio cholerae strain A1552 |
52.809 |
96.739 |
0.511 |
| pilD | Vibrio campbellii strain DS40M4 |
49.451 |
98.913 |
0.489 |
| pilD | Neisseria gonorrhoeae MS11 |
48.571 |
88.768 |
0.431 |
| pilD | Acinetobacter nosocomialis M2 |
42.683 |
89.13 |
0.38 |
| pilD | Acinetobacter baumannii D1279779 |
42.276 |
89.13 |
0.377 |