|
Name |
Accession |
Description |
Interval |
E-value |
| PRK05054 |
PRK05054 |
exoribonuclease II; Provisional |
1-643 |
0e+00 |
|
exoribonuclease II; Provisional
Pssm-ID: 179920 [Multi-domain] Cd Length: 644 Bit Score: 1389.60 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 1 MFQDNPLLAQLKQQLHSQTPRAEGVVKATEKGFGFLEVDAQKSYFIPPPQMKKVMHGDRIIAVIHSEKERESAEPEELVE 80
Cdd:PRK05054 1 MFQDNPLLAQLKQQLHSQTPRVEGVVKATEKGFGFLEVDAQKSYFIPPPQMKKVMHGDRIIAVIHTEKDREIAEPEELIE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 81 PFLTRFVGKVQGKNDRLAIVPDHPLLKDAIPCRAARGLNHEFKEGDWAVAEMRRHPLKGDRSFYAELTQYITFGDDHFVP 160
Cdd:PRK05054 81 PFLTRFVGRVQKKDDRLSIVPDHPLLKDAIPCRAAKGLNHEFKEGDWVVAELRRHPLKGDRGFYAEITQFITDADDHFAP 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 161 WWVTLARHNLEKEAPDG-VATEMLDEGLVREDLTALDFVTIDSASTEDMDDALFAKALPDGKLQLIVAIADPTAWIAEGS 239
Cdd:PRK05054 161 WWVTLARHNLEREAPAGgVAWEMLDEGLEREDLTALDFVTIDSASTEDMDDALYVEKLPDGGLQLTVAIADPTAYIAEGS 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 240 KLDKAAKIRAFTNYLPGFNIPMLPRELSDDLCSLRANEVRPVLACRMTLSADGTIEDNIEFFAATIESKAKLVYDQVSDW 319
Cdd:PRK05054 241 KLDKAARQRAFTNYLPGFNIPMLPRELSDDLCSLRPNERRPALACRVTIDADGTIEDDIRFFAAWIESKAKLAYDNVSDW 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 320 LENTGDWQPESEAIAEQVRLLAQICQRRGEWRHNHALVFKDRPDYRFILGEKGEVLDIVAEPRRIANRIVEEAMIAANIC 399
Cdd:PRK05054 321 LENGGDWQPESEAIAEQIRLLHQFCLARSEWRKQHALVFKDRPDYRFELGEKGEVLDIVAEPRRIANRIVEESMIAANIC 400
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 400 AARVLRDKLGFGIYNVHMGFDPANADALAALLKTHGLHVDAEEVLTLDGFCKLRRELDAQPTGFLDSRIRRFQSFAEIST 479
Cdd:PRK05054 401 AARVLRDKLGFGIYNVHSGFDPANAEQAVALLKEHGLHFDAEELLTLEGFCKLRRELDAQPTGYLDSRIRRFQSFAEIST 480
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 480 EPGPHFGLGLEAYATWTSPIRKYGDMINHRLLKAVIKGETATRPQDEITVQMAERRRLNRMAERDVGDWLYARFLKDKAG 559
Cdd:PRK05054 481 EPGPHFGLGLEAYATWTSPIRKYGDMINHRLLKAVIKGETAERPQDEITVQLAERRRLNRMAERDVGDWLYARYLKDKAG 560
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 560 TDTRFAAEIVDISRGGMRVRLVDNGAIAFIPAPFLHAVRDELVCSQENGTVQIKGETAYKVTDVIDVTIAEVRMETRSII 639
Cdd:PRK05054 561 TDTRFAAEIIDISRGGMRVRLLENGAVAFIPASFLHAVRDELVCNQENGTVQIKGETVYKLGDVIDVTLAEVRMETRSII 640
|
....
gi 446407153 640 ARPV 643
Cdd:PRK05054 641 ARPV 644
|
|
| Rnb |
COG4776 |
Exoribonuclease II [Transcription]; |
1-643 |
0e+00 |
|
Exoribonuclease II [Transcription];
Pssm-ID: 443808 [Multi-domain] Cd Length: 644 Bit Score: 1301.36 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 1 MFQDNPLLAQLKQQLHSQTPRAEGVVKATEKGFGFLEVDAQKSYFIPPPQMKKVMHGDRIIAVIHSEKERESAEPEELVE 80
Cdd:COG4776 1 MFQNNPLLAQLKQQLHEQTPRVEGVVKATDKGFGFLEVDDQKSYFIPPPQMKKVMHGDRIKAVIRTEKDKESAEPETLIE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 81 PFLTRFVGKVQGKNDRLAIVPDHPLLKDAIPCRAARGLNHEFKEGDWAVAEMRRHPLKGDRSFYAELTQYITFGDDHFVP 160
Cdd:COG4776 81 PFLTRFVGRVQKKDGRLFVVPDHPLIKDAIKARPKKGLEEGLKEGDWVVAELKRHPLKGDRGFFAEITEFIADADDPFAP 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 161 WWVTLARHNLEKEAPDGVA-TEMLDEGLVREDLTALDFVTIDSASTEDMDDALFAKALPDGKLQLIVAIADPTAWIAEGS 239
Cdd:COG4776 161 WWVTLARHNLEREAPEGDDeWELLDEGLEREDLTALPFVTIDSESTEDMDDALYIEKLENGGWKLTVAIADPTAYIPEGS 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 240 KLDKAAKIRAFTNYLPGFNIPMLPRELSDDLCSLRANEVRPVLACRMTLSADGTIEDNIEFFAATIESKAKLVYDQVSDW 319
Cdd:COG4776 241 ELDKEARQRAFTNYLPGFNIPMLPRELSDDLCSLKENEKRPALVCRVTIDADGSIGDDIEFFAAWIRSKAKLAYDNVSDW 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 320 LENTGDWQPESEAIAEQVRLLAQICQRRGEWRHNHALVFKDRPDYRFILGEKGEVLDIVAEPRRIANRIVEEAMIAANIC 399
Cdd:COG4776 321 LEGKGEWQPENEEIAEQIRLLHQFALARSQWRQQHALVFKDRPDYRFELDEKGNVLDIHAEPRRIANRIVEEAMIAANIC 400
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 400 AARVLRDKLGFGIYNVHMGFDPANADALAALLKTHGLHVDAEEVLTLDGFCKLRRELDAQPTGFLDSRIRRFQSFAEIST 479
Cdd:COG4776 401 AARVLREHLGFGIFNVHSGFDPEKLEQAVELLAEHGIEFDPEQLLTLEGFCALRRELDAQPTSYLDSRLRRFQTFAEIST 480
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 480 EPGPHFGLGLEAYATWTSPIRKYGDMINHRLLKAVIKGETATRPQDEITVQMAERRRLNRMAERDVGDWLYARFLKDKAG 559
Cdd:COG4776 481 EPGPHFGLGLDAYATWTSPIRKYGDMVNHRLIKAVILGQPAEKPDEELTERLAERRRLNRMAERDVADWLYARYLKPKVG 560
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 560 TDTRFAAEIVDISRGGMRVRLVDNGAIAFIPAPFLHAVRDELVCSQENGTVQIKGETAYKVTDVIDVTIAEVRMETRSII 639
Cdd:COG4776 561 SGQVFTAEIIDINRGGLRVRLLENGAVAFIPASFIHSVRDELVCSQEEGTVYIKGEVRYKLGDTIQVTLAEVREETRSII 640
|
....
gi 446407153 640 ARPV 643
Cdd:COG4776 641 AKPA 644
|
|
| RNase_B |
TIGR02062 |
exoribonuclease II; This family consists of exoribonuclease II, the product of the rnb gene, ... |
4-642 |
0e+00 |
|
exoribonuclease II; This family consists of exoribonuclease II, the product of the rnb gene, as found in a number of gamma proteobacteria. In Escherichia coli, it is one of eight different exoribonucleases. It is involved in mRNA degradation and tRNA precursor end processing. [Transcription, Degradation of RNA]
Pssm-ID: 131117 [Multi-domain] Cd Length: 639 Bit Score: 1222.76 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 4 DNPLLAQLKQQLHSQTPRAEGVVKATEKGFGFLEVDAQKSYFIPPPQMKKVMHGDRIIAVIHSEKERESAEPEELVEPFL 83
Cdd:TIGR02062 1 DNPLLAQLKQQLHSQTPRVEGVVKATEKGFGFLEVDAQKSYFIPPPQMKKVMHGDKIIAVIHSEKERESAEPEELIEPFL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 84 TRFVGKVQGKNDRLAIVPDHPLLKDAIPCRAARGLNHEFKEGDWAVAEMRRHPLKGDRSFYAELTQYITFGDDHFVPWWV 163
Cdd:TIGR02062 81 TRFVGKVQGKDDKLAIVPDHPLLKDAIPCRAAKGLNHEFQEGDWAVAELRRHPLKGDRSFYAELTQYITFADDHLAPWWV 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 164 TLARHNLEKEAPDGVATEMLDEGLVREDLTALDFVTIDSASTEDMDDALFAKALPDGKLQLIVAIADPTAWIAEGSKLDK 243
Cdd:TIGR02062 161 TLARHNLEREEPDGVADEMLLDGLVREDLTALDFVTIDSESTKDMDDALFAEALPNGKLQLIVAIADPTAYIAEGSKLDK 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 244 AAKIRAFTNYLPGFNIPMLPRELSDDLCSLRANEVRPVLACRMTLSADGTIEDNIEFFAATIESKAKLVYDQVSDWLENT 323
Cdd:TIGR02062 241 AAKIRGFTNYLPGFNIPMLPRELSDDLCSLRANEVRPVLACRITISKDGNIEDKIEFFAATIKSKAKLVYDQVSDWLENT 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 324 GDWQPESEAIAEQVRLLAQICQRRGEWRHNHALVFKDRPDYRFILGEKGEVLDIVAEPRRIANRIVEEAMIAANICAARV 403
Cdd:TIGR02062 321 SDWQPESEEIAQQVRLLHQFCQARIEWRHTHALVFKDRPDYRFILSEKGEVLDIVAEPRRIANRIVEEAMIIANICAARF 400
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 404 LRDKLGFGIYNVHMGFDPANADALAALLKTHGLHVDAEEVLTLDGFCKLRRELDAQPTGFLDSRIRRFQSFAEISTEPGP 483
Cdd:TIGR02062 401 LRDKLGFGIYNTHAGFDPANAENVVALLKTNGLHVDAEELATLDGFCKLRRELDAQETGYLDSRIRRYQSFAEISTEPGP 480
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 484 HFGLGLEAYATWTSPIRKYGDMINHRLLKAVIKGETATRPQDEITVQMAERRRLNRMAERDVGDWLYARFLKDKAGTDTR 563
Cdd:TIGR02062 481 HFGLGLEAYATWTSPIRKYGDMINHRLLKAVIKGETATRPQEDITVQLAERRRLNRIAERDVADWLYARFLADKAAKNTR 560
|
570 580 590 600 610 620 630
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 446407153 564 FAAEIVDISRGGMRVRLVDNGAIAFIPAPFLHAVRDELVCSQENGTVQIKGETAYKVTDVIDVTIAEVRMETRSIIARP 642
Cdd:TIGR02062 561 FAAEIVDISRGGMRVRLLENGAIAFIPAAFLHANREELVCNQENGTVQIKGETVYKIGDVIDVVLTEVRMETRSIIARP 639
|
|
| RNB |
smart00955 |
This domain is the catalytic domain of ribonuclease II; |
189-517 |
3.44e-103 |
|
This domain is the catalytic domain of ribonuclease II;
Pssm-ID: 214935 [Multi-domain] Cd Length: 286 Bit Score: 314.98 E-value: 3.44e-103
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 189 REDLTALDFVTIDSASTEDMDDALFAKALPDGKLQLIVAIADPTAWIAEGSKLDKAAKIRAFTNYLPGFNIPMLPRELSD 268
Cdd:smart00955 1 RVDLRDLPLFTIDPEDAKDIDDAVSVEKLDNGGYRLGVHIADVSHYVKPGSALDREARKRGTSVYLPDRVIPMLPEELSN 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 269 DLCSLRANEVRPVLACRMTLSADGTIEDNIEFFAATIESKAKLVYDQVSDWLEntgdwqpeseaiaeqvrllaqicqrrg 348
Cdd:smart00955 81 GLCSLNPGEDRLALSVEMTLDADGGEILDYEFYRSVIRSKARLTYEEVDAILE--------------------------- 133
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 349 ewrhnhalvfkdrpdyRFILGEKGEVLDIVAEPRRIANRIVEEAMIAANICAARVLRDKLGFGIYNVHMGFDPANADAL- 427
Cdd:smart00955 134 ----------------KIVLDEEGKIEDIVPRERNDAHSLVEEFMILANEAVARFLAKNGIPGLYRVHEGPDPEKLAELl 197
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 428 AALLKTHGLHVDAEEvlTLDGFCKLRRELDAQPT-GFLDSRIRRFQSFAEISTEPGPHFGLGLEAYATWTSPIRKYGDMI 506
Cdd:smart00955 198 KEFLALLGLLLLGGD--GPKALAKLLEKIRDSPEeRLLELLLLRSMPHAEYSVDNSGHFGLALDAYTHFTSPIRRYPDLI 275
|
330
....*....|.
gi 446407153 507 NHRLLKAVIKG 517
Cdd:smart00955 276 VHRQLKAALRG 286
|
|
| RNB |
pfam00773 |
RNB domain; This domain is the catalytic domain of ribonuclease II. |
189-515 |
2.05e-100 |
|
RNB domain; This domain is the catalytic domain of ribonuclease II.
Pssm-ID: 459934 [Multi-domain] Cd Length: 314 Bit Score: 308.83 E-value: 2.05e-100
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 189 REDLTALDFVTIDSASTEDMDDALFAKALPDGKLQLIVAIADPTAWIAEGSKLDKAAKIRAFTNYLPGFNIPMLPRELSD 268
Cdd:pfam00773 1 RKDLRDLPFITIDPADAKDLDDAISVEKLPNGGYRLGVHIADVSHYVPPGSPLDREARKRGTSVYLPDRVIPMLPEKLSN 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 269 DLCSLRANEVRPVLACRMTLSADGTIEdNIEFFAATIESKAKLVYDQVSDWLEnTGDWQPESEAIAEQVRLLAQICQRRG 348
Cdd:pfam00773 81 DLCSLNPGEDRLALSVEITIDADGEVT-SYEIYPSVIRSKARLTYEEVDDLLE-GKDAEKDKPDLAEDLRLLYELAKILR 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 349 EWRHNHALVFKDRPDYRFILGEKGeVLDIVAEPRRIANRIVEEAMIAANICAARVLRDKLGFGIYNVHMGFDPanadala 428
Cdd:pfam00773 159 AKRLQRGALDLDTPENKLILDEEG-VIDILIQERTDAHSLIEEFMLLANEAVARHLQELGIPALYRVHPEPDL------- 230
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 429 alLKTHGLHVDAEEVLTLDGFCKLRRELDAQPTGfLDSRIRRFQSFAEISTEPGPHFGLGLEAYATWTSPIRKYGDMINH 508
Cdd:pfam00773 231 --EKLNSLIKLLQLLPDDKGLSKSLEKIKDDERL-LSILLLRTMPRAEYSPEPLGHFGLGLDIYTHFTSPIRRYPDLIVH 307
|
....*..
gi 446407153 509 RLLKAVI 515
Cdd:pfam00773 308 RQLKALL 314
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| PRK05054 |
PRK05054 |
exoribonuclease II; Provisional |
1-643 |
0e+00 |
|
exoribonuclease II; Provisional
Pssm-ID: 179920 [Multi-domain] Cd Length: 644 Bit Score: 1389.60 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 1 MFQDNPLLAQLKQQLHSQTPRAEGVVKATEKGFGFLEVDAQKSYFIPPPQMKKVMHGDRIIAVIHSEKERESAEPEELVE 80
Cdd:PRK05054 1 MFQDNPLLAQLKQQLHSQTPRVEGVVKATEKGFGFLEVDAQKSYFIPPPQMKKVMHGDRIIAVIHTEKDREIAEPEELIE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 81 PFLTRFVGKVQGKNDRLAIVPDHPLLKDAIPCRAARGLNHEFKEGDWAVAEMRRHPLKGDRSFYAELTQYITFGDDHFVP 160
Cdd:PRK05054 81 PFLTRFVGRVQKKDDRLSIVPDHPLLKDAIPCRAAKGLNHEFKEGDWVVAELRRHPLKGDRGFYAEITQFITDADDHFAP 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 161 WWVTLARHNLEKEAPDG-VATEMLDEGLVREDLTALDFVTIDSASTEDMDDALFAKALPDGKLQLIVAIADPTAWIAEGS 239
Cdd:PRK05054 161 WWVTLARHNLEREAPAGgVAWEMLDEGLEREDLTALDFVTIDSASTEDMDDALYVEKLPDGGLQLTVAIADPTAYIAEGS 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 240 KLDKAAKIRAFTNYLPGFNIPMLPRELSDDLCSLRANEVRPVLACRMTLSADGTIEDNIEFFAATIESKAKLVYDQVSDW 319
Cdd:PRK05054 241 KLDKAARQRAFTNYLPGFNIPMLPRELSDDLCSLRPNERRPALACRVTIDADGTIEDDIRFFAAWIESKAKLAYDNVSDW 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 320 LENTGDWQPESEAIAEQVRLLAQICQRRGEWRHNHALVFKDRPDYRFILGEKGEVLDIVAEPRRIANRIVEEAMIAANIC 399
Cdd:PRK05054 321 LENGGDWQPESEAIAEQIRLLHQFCLARSEWRKQHALVFKDRPDYRFELGEKGEVLDIVAEPRRIANRIVEESMIAANIC 400
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 400 AARVLRDKLGFGIYNVHMGFDPANADALAALLKTHGLHVDAEEVLTLDGFCKLRRELDAQPTGFLDSRIRRFQSFAEIST 479
Cdd:PRK05054 401 AARVLRDKLGFGIYNVHSGFDPANAEQAVALLKEHGLHFDAEELLTLEGFCKLRRELDAQPTGYLDSRIRRFQSFAEIST 480
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 480 EPGPHFGLGLEAYATWTSPIRKYGDMINHRLLKAVIKGETATRPQDEITVQMAERRRLNRMAERDVGDWLYARFLKDKAG 559
Cdd:PRK05054 481 EPGPHFGLGLEAYATWTSPIRKYGDMINHRLLKAVIKGETAERPQDEITVQLAERRRLNRMAERDVGDWLYARYLKDKAG 560
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 560 TDTRFAAEIVDISRGGMRVRLVDNGAIAFIPAPFLHAVRDELVCSQENGTVQIKGETAYKVTDVIDVTIAEVRMETRSII 639
Cdd:PRK05054 561 TDTRFAAEIIDISRGGMRVRLLENGAVAFIPASFLHAVRDELVCNQENGTVQIKGETVYKLGDVIDVTLAEVRMETRSII 640
|
....
gi 446407153 640 ARPV 643
Cdd:PRK05054 641 ARPV 644
|
|
| Rnb |
COG4776 |
Exoribonuclease II [Transcription]; |
1-643 |
0e+00 |
|
Exoribonuclease II [Transcription];
Pssm-ID: 443808 [Multi-domain] Cd Length: 644 Bit Score: 1301.36 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 1 MFQDNPLLAQLKQQLHSQTPRAEGVVKATEKGFGFLEVDAQKSYFIPPPQMKKVMHGDRIIAVIHSEKERESAEPEELVE 80
Cdd:COG4776 1 MFQNNPLLAQLKQQLHEQTPRVEGVVKATDKGFGFLEVDDQKSYFIPPPQMKKVMHGDRIKAVIRTEKDKESAEPETLIE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 81 PFLTRFVGKVQGKNDRLAIVPDHPLLKDAIPCRAARGLNHEFKEGDWAVAEMRRHPLKGDRSFYAELTQYITFGDDHFVP 160
Cdd:COG4776 81 PFLTRFVGRVQKKDGRLFVVPDHPLIKDAIKARPKKGLEEGLKEGDWVVAELKRHPLKGDRGFFAEITEFIADADDPFAP 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 161 WWVTLARHNLEKEAPDGVA-TEMLDEGLVREDLTALDFVTIDSASTEDMDDALFAKALPDGKLQLIVAIADPTAWIAEGS 239
Cdd:COG4776 161 WWVTLARHNLEREAPEGDDeWELLDEGLEREDLTALPFVTIDSESTEDMDDALYIEKLENGGWKLTVAIADPTAYIPEGS 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 240 KLDKAAKIRAFTNYLPGFNIPMLPRELSDDLCSLRANEVRPVLACRMTLSADGTIEDNIEFFAATIESKAKLVYDQVSDW 319
Cdd:COG4776 241 ELDKEARQRAFTNYLPGFNIPMLPRELSDDLCSLKENEKRPALVCRVTIDADGSIGDDIEFFAAWIRSKAKLAYDNVSDW 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 320 LENTGDWQPESEAIAEQVRLLAQICQRRGEWRHNHALVFKDRPDYRFILGEKGEVLDIVAEPRRIANRIVEEAMIAANIC 399
Cdd:COG4776 321 LEGKGEWQPENEEIAEQIRLLHQFALARSQWRQQHALVFKDRPDYRFELDEKGNVLDIHAEPRRIANRIVEEAMIAANIC 400
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 400 AARVLRDKLGFGIYNVHMGFDPANADALAALLKTHGLHVDAEEVLTLDGFCKLRRELDAQPTGFLDSRIRRFQSFAEIST 479
Cdd:COG4776 401 AARVLREHLGFGIFNVHSGFDPEKLEQAVELLAEHGIEFDPEQLLTLEGFCALRRELDAQPTSYLDSRLRRFQTFAEIST 480
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 480 EPGPHFGLGLEAYATWTSPIRKYGDMINHRLLKAVIKGETATRPQDEITVQMAERRRLNRMAERDVGDWLYARFLKDKAG 559
Cdd:COG4776 481 EPGPHFGLGLDAYATWTSPIRKYGDMVNHRLIKAVILGQPAEKPDEELTERLAERRRLNRMAERDVADWLYARYLKPKVG 560
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 560 TDTRFAAEIVDISRGGMRVRLVDNGAIAFIPAPFLHAVRDELVCSQENGTVQIKGETAYKVTDVIDVTIAEVRMETRSII 639
Cdd:COG4776 561 SGQVFTAEIIDINRGGLRVRLLENGAVAFIPASFIHSVRDELVCSQEEGTVYIKGEVRYKLGDTIQVTLAEVREETRSII 640
|
....
gi 446407153 640 ARPV 643
Cdd:COG4776 641 AKPA 644
|
|
| RNase_B |
TIGR02062 |
exoribonuclease II; This family consists of exoribonuclease II, the product of the rnb gene, ... |
4-642 |
0e+00 |
|
exoribonuclease II; This family consists of exoribonuclease II, the product of the rnb gene, as found in a number of gamma proteobacteria. In Escherichia coli, it is one of eight different exoribonucleases. It is involved in mRNA degradation and tRNA precursor end processing. [Transcription, Degradation of RNA]
Pssm-ID: 131117 [Multi-domain] Cd Length: 639 Bit Score: 1222.76 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 4 DNPLLAQLKQQLHSQTPRAEGVVKATEKGFGFLEVDAQKSYFIPPPQMKKVMHGDRIIAVIHSEKERESAEPEELVEPFL 83
Cdd:TIGR02062 1 DNPLLAQLKQQLHSQTPRVEGVVKATEKGFGFLEVDAQKSYFIPPPQMKKVMHGDKIIAVIHSEKERESAEPEELIEPFL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 84 TRFVGKVQGKNDRLAIVPDHPLLKDAIPCRAARGLNHEFKEGDWAVAEMRRHPLKGDRSFYAELTQYITFGDDHFVPWWV 163
Cdd:TIGR02062 81 TRFVGKVQGKDDKLAIVPDHPLLKDAIPCRAAKGLNHEFQEGDWAVAELRRHPLKGDRSFYAELTQYITFADDHLAPWWV 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 164 TLARHNLEKEAPDGVATEMLDEGLVREDLTALDFVTIDSASTEDMDDALFAKALPDGKLQLIVAIADPTAWIAEGSKLDK 243
Cdd:TIGR02062 161 TLARHNLEREEPDGVADEMLLDGLVREDLTALDFVTIDSESTKDMDDALFAEALPNGKLQLIVAIADPTAYIAEGSKLDK 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 244 AAKIRAFTNYLPGFNIPMLPRELSDDLCSLRANEVRPVLACRMTLSADGTIEDNIEFFAATIESKAKLVYDQVSDWLENT 323
Cdd:TIGR02062 241 AAKIRGFTNYLPGFNIPMLPRELSDDLCSLRANEVRPVLACRITISKDGNIEDKIEFFAATIKSKAKLVYDQVSDWLENT 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 324 GDWQPESEAIAEQVRLLAQICQRRGEWRHNHALVFKDRPDYRFILGEKGEVLDIVAEPRRIANRIVEEAMIAANICAARV 403
Cdd:TIGR02062 321 SDWQPESEEIAQQVRLLHQFCQARIEWRHTHALVFKDRPDYRFILSEKGEVLDIVAEPRRIANRIVEEAMIIANICAARF 400
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 404 LRDKLGFGIYNVHMGFDPANADALAALLKTHGLHVDAEEVLTLDGFCKLRRELDAQPTGFLDSRIRRFQSFAEISTEPGP 483
Cdd:TIGR02062 401 LRDKLGFGIYNTHAGFDPANAENVVALLKTNGLHVDAEELATLDGFCKLRRELDAQETGYLDSRIRRYQSFAEISTEPGP 480
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 484 HFGLGLEAYATWTSPIRKYGDMINHRLLKAVIKGETATRPQDEITVQMAERRRLNRMAERDVGDWLYARFLKDKAGTDTR 563
Cdd:TIGR02062 481 HFGLGLEAYATWTSPIRKYGDMINHRLLKAVIKGETATRPQEDITVQLAERRRLNRIAERDVADWLYARFLADKAAKNTR 560
|
570 580 590 600 610 620 630
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 446407153 564 FAAEIVDISRGGMRVRLVDNGAIAFIPAPFLHAVRDELVCSQENGTVQIKGETAYKVTDVIDVTIAEVRMETRSIIARP 642
Cdd:TIGR02062 561 FAAEIVDISRGGMRVRLLENGAIAFIPAAFLHANREELVCNQENGTVQIKGETVYKIGDVIDVVLTEVRMETRSIIARP 639
|
|
| 3_prime_RNase |
TIGR00358 |
VacB and RNase II family 3'-5' exoribonucleases; This model is defined to identify a pair of ... |
6-643 |
0e+00 |
|
VacB and RNase II family 3'-5' exoribonucleases; This model is defined to identify a pair of paralogous 3-prime exoribonucleases in E. coli, plus the set of proteins apparently orthologous to one or the other in other eubacteria. VacB was characterized originally as required for the expression of virulence genes, but is now recognized as the exoribonuclease RNase R (Rnr). Its paralog in E. coli and H. influenzae is designated exoribonuclease II (Rnb). Both are involved in the degradation of mRNA, and consequently have strong pleiotropic effects that may be difficult to disentangle. Both these proteins share domain-level similarity (RNB, S1) with a considerable number of other proteins, and full-length similarity scoring below the trusted cutoff to proteins associated with various phenotypes but uncertain biochemistry; it may be that these latter proteins are also 3-prime exoribonucleases. [Transcription, Degradation of RNA]
Pssm-ID: 273033 [Multi-domain] Cd Length: 654 Bit Score: 897.15 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 6 PLLAQLKQQLHSQTPRAEGVVKATEKGFGFLEVDA--QKSYFIPPPQMKKVMHGDRIIAVIHSEKERE--SAEPEELVEP 81
Cdd:TIGR00358 1 QLLATLKYALPEKDDLVKGVVKAHNKGFGFLRPDDddKKDYFIPPPQMKKVMHGDLVEACPLSQPQRGrfEAEVERILEP 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 82 FLTRFVGKVQGKNDRLAIVPDHPLLKDAIPCRAARGlNHEFKEGDWAVAEMRRHPLKGDrSFYAELTQYITFGDDHFVPW 161
Cdd:TIGR00358 81 ALTRFVGKFLGENDFGFVVPDDPRIYLDIIVPKASV-KNELAEGDKVVVELTEYPLRRN-LFYGEITQILGNNDDPLIPW 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 162 WVTLARHNLEKEAPDGVATEMLDEGL--------VREDLTALDFVTIDSASTEDMDDALFAKALPDGKLQLIVAIADPTA 233
Cdd:TIGR00358 159 WVTLARHEIPFEFPDGVEQQAAKLQFdvdeqakkYREDLTDLAFVTIDGADAKDLDDAVYVKKLPDGGWKLYVAIADVSY 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 234 WIAEGSKLDKAAKIRAFTNYLPGFNIPMLPRELSDDLCSLRANEVRPVLACRMTLSADGTIEDNiEFFAATIESKAKLVY 313
Cdd:TIGR00358 239 YVAENSPLDKEAKHRGFSVYLPGFVIPMLPEELSNGLCSLNPNEDRLVLVCEMTISAQGRITDN-EFYPATIESKARLTY 317
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 314 DQVSDWLENTGDWQPESEAIAEQVRLLAQICQRRGEWRHNHALVFKDRPDYRFILGEKGEVLDIVAEPRRIANRIVEEAM 393
Cdd:TIGR00358 318 DKVNDWLENDDELQPEYETLVEQLKALHQLSQALGEWRHKRGLIDFEHPETKFIVDEEGRVIDIVAEVRRIAEKIIEEAM 397
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 394 IAANICAARVLRDKLGFGIYNVHMGFDPANADALAALLKTHGL---HVDAEEVLTLDGFCKLRRELDAQPTGFLDSRIRR 470
Cdd:TIGR00358 398 IVANICAARFLHNHKVPGIYRVHPGPSKKKLQSLLEFLAELGLtlpGGNAENVTTLDGACWLREVKDRPEYEILVTRLLR 477
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 471 FQSFAEISTEPGPHFGLGLEAYATWTSPIRKYGDMINHRLLKAVI-KGETATR---PQDEITVQMAER---RRLNRMAER 543
Cdd:TIGR00358 478 SLSQAEYSPEPLGHFGLGLEHYAHFTSPIRRYPDLTNHRLIKAVLaKEQTDTEryqPQDELLQIAEHCsdtERRARDAER 557
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 544 DVGDWLYARFLKDKAGtdTRFAAEIVDISRGGMRVRLVDNGAIAFIPAPFLHAvrDELVCSQENGTVQIKGE-TAYKVTD 622
Cdd:TIGR00358 558 DVADWLKCRYLLDKVG--TEFSGEISSVTRFGMFVRLDDNGIDGLIHISTLHN--DYYVFDQEKMALIGKGTgKVYRIGD 633
|
650 660
....*....|....*....|.
gi 446407153 623 VIDVTIAEVRMETRSIIARPV 643
Cdd:TIGR00358 634 RVTVKLTEVNMETRSIIFELV 654
|
|
| VacB |
COG0557 |
Exoribonuclease R [Transcription]; |
23-638 |
1.82e-125 |
|
Exoribonuclease R [Transcription];
Pssm-ID: 440323 [Multi-domain] Cd Length: 711 Bit Score: 387.15 E-value: 1.82e-125
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 23 EGVVKATEKGFGFLEVD-AQKSYFIPPPQMKKVMHGDRIIAVIHSEKE--RESAEPEELVEPFLTRFVGKVQGKNDRLAI 99
Cdd:COG0557 71 EGRVRGHRDGFGFVIPDdGEEDIFIPPRELNGALHGDRVLVRVTKEDRrgRPEGRVVEILERANTRVVGRFEKEKGFGFV 150
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 100 VPDHP-LLKD-AIPCRAARGLnhefKEGDWAVAEMRRHPLKGdRSFYAELTQYITFGDDHFVPWWVTLARHNL------- 170
Cdd:COG0557 151 VPDDKrLLQDiFIPPDDLNGA----KDGDLVVVEITRYPERR-GPPEGRVVEVLGSPGDPGAEILIAIRKHGLphefpee 225
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 171 -EKEApDGVATEMLDEGLV-REDLTALDFVTIDSASTEDMDDALFAKALPDGKLQLIVAIADPTAWIAEGSKLDKAAKIR 248
Cdd:COG0557 226 vLAEA-EALPDEVPEADLKgRRDLRDLPLVTIDGEDAKDFDDAVSAEKLDNGGWRLGVHIADVSHYVRPGSALDREARKR 304
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 249 AFTNYLPGFNIPMLPRELSDDLCSLRANEVRPVLACRMTLSADGTIEDNiEFFAATIESKAKLVYDQVSDWLENT-GDWQ 327
Cdd:COG0557 305 GTSVYLPDRVIPMLPERLSNGLCSLNPGEDRLAMSCEMEIDAKGEVVSY-EFYRSVIRSDARLTYEEVQAILDGKdEELR 383
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 328 PESEAIAEQVRLLAQICQRRGEWRHNH-ALVFkDRPDYRFILGEKGEVLDIVAEPRRIANRIVEEAMIAANICAARVLRD 406
Cdd:COG0557 384 EEYADLVPMLEELYELAKILRKAREKRgAIDF-DLPETKIILDEEGKPEDIVPRERNDAHKLIEEFMLLANEAVAEFLEK 462
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 407 -KLGFgIYNVHMGFDPANADALAALLKTHGLHVDAEEVLTLDGFCKLRRELDAQPTGFLDSR-IRRFQSFAEISTEPGPH 484
Cdd:COG0557 463 lKLPF-LYRVHEEPDPEKLEALREFLANLGLKLKGGDEPTPKDLQKLLEQVKGRPEEELLNTlLLRSMKQAVYSPENIGH 541
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 485 FGLGLEAYATWTSPIRKYGDMINHRLLKAVIKGETATRPQDEITVQMAE-------RRRLNRMAERDVGDWLYARFLKDK 557
Cdd:COG0557 542 FGLALEAYTHFTSPIRRYPDLLVHRALKAYLEGKRSPGLQEYLEEELEEiaehcseTERRADEAERDVVDLKKAEYMKDR 621
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 558 AGTDtrFAAEIVDISRGGMRVRLVDNGAIAFIPAPFL-------HAVRDELVcSQENGTVqikgetaYKVTDVIDVTIAE 630
Cdd:COG0557 622 VGEE--FEGVISGVTSFGLFVELDELGVEGLVHVSSLgddyyeyDERRQALV-GERTGKR-------YRLGDRVEVRVVR 691
|
....*...
gi 446407153 631 VRMETRSI 638
Cdd:COG0557 692 VDLDRRQI 699
|
|
| RNase_R |
TIGR02063 |
ribonuclease R; This family consists of an exoribonuclease, ribonuclease R, also called VacB. ... |
24-639 |
1.08e-104 |
|
ribonuclease R; This family consists of an exoribonuclease, ribonuclease R, also called VacB. It is one of the eight exoribonucleases reported in E. coli and is broadly distributed throughout the bacteria. In E. coli, double mutants of this protein and polynucleotide phosphorylase are not viable. Scoring between trusted and noise cutoffs to the model are shorter, divergent forms from the Chlamydiae, and divergent forms from the Campylobacterales (including Helicobacter pylori) and Leptospira interrogans. [Transcription, Degradation of RNA]
Pssm-ID: 273947 [Multi-domain] Cd Length: 709 Bit Score: 333.08 E-value: 1.08e-104
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 24 GVVKATEKGFGFLEVDAQK--SYFIPPPQMKKVMHGDRIIAVIHsEKERESAEPE----ELVEPFLTRFVGKVQGKNDRL 97
Cdd:TIGR02063 71 GTVIAHRDGFGFLRPEDDDedDIFIPPRQMNGAMHGDRVLVRIT-GKPDGGDRFEarviKILERANDQIVGTFYIENGIG 149
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 98 AIVPDHPLLKDAIpcRAARGLNHEFKEGDWAVAEMRRHPLKgDRSFYAELTQYITFGDDHFVPWWVTLARHNLEKEAPDG 177
Cdd:TIGR02063 150 FVIPDDKRIYLDI--FIPPEQILGAEEGDKVLVEITKYPDR-NRPAIGKVVEILGHADDPGIDILIIIRKHGIPYEFPEE 226
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 178 VATEM------LDEGLV--REDLTALDFVTIDSASTEDMDDALFAKALPDGKLQLIVAIADPTAWIAEGSKLDKAAKIRA 249
Cdd:TIGR02063 227 VLDEAakipeeVPEEEIkgRKDLRDLPFVTIDGEDAKDFDDAVYVEKLKDGNYKLGVAIADVSHYVREGSALDKEALKRG 306
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 250 FTNYLPGFNIPMLPRELSDDLCSLRANEVRPVLACRMTLSADGTIEdNIEFFAATIESKAKLVYDQVSDWLENTGDWQPE 329
Cdd:TIGR02063 307 TSVYLPDRVIPMLPERLSNGICSLNPNEDRLTLSCEMEIDKKGRVK-KYEFYEAVINSHARLTYNQVNDIIEGKDALDKK 385
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 330 SEAIAEQVRLLAQICQRRGEWRHNHALVFKDRPDYRFILGEKGEVLDIVAEPRRIANRIVEEAMIAANICAAR-VLRDKL 408
Cdd:TIGR02063 386 EPPLKEMLKNLFELYKILRKKRKKRGAIDFDSKEAKIILDENGKPIDIVPRERGDAHKLIEEFMIAANETVAEhLEKAKL 465
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 409 GFgIYNVHMGFDPANADALAALLKTHGLHVDAEEVLTLD--GFCKLRRELDAQPTGFLDSRIR-RFQSFAEISTEPGPHF 485
Cdd:TIGR02063 466 PF-IYRVHERPSEEKLQNLREFLKTLGITLKGGTSDKPQpkDFQKLLEKVKGRPEEELINTVLlRSMQQAKYSPENIGHF 544
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 486 GLGLEAYATWTSPIRKYGDMINHRLLKAVIKGETATRPQ----------DEITVQMAERRRLNRMAERDVGDWLYARFLK 555
Cdd:TIGR02063 545 GLALEYYTHFTSPIRRYPDLIVHRLIKKALFGGENTTTEkereyleaklEEIAEHSSKTERRADEAERDVNDWKKAEYMS 624
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 556 DKAGtdTRFAAEIVDISRGGMRVRLVDNGAIAFIPAPFLHavRDELVCSQENGTvqIKGETA---YKVTDVIDVTIAEVR 632
Cdd:TIGR02063 625 EKIG--EEFEGVISGVTSFGLFVELENNTIEGLVHISTLK--DDYYVFDEKGLA--LVGERTgkvFRLGDRVKVRVVKAD 698
|
....*..
gi 446407153 633 METRSII 639
Cdd:TIGR02063 699 LDTGKID 705
|
|
| RNB |
smart00955 |
This domain is the catalytic domain of ribonuclease II; |
189-517 |
3.44e-103 |
|
This domain is the catalytic domain of ribonuclease II;
Pssm-ID: 214935 [Multi-domain] Cd Length: 286 Bit Score: 314.98 E-value: 3.44e-103
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 189 REDLTALDFVTIDSASTEDMDDALFAKALPDGKLQLIVAIADPTAWIAEGSKLDKAAKIRAFTNYLPGFNIPMLPRELSD 268
Cdd:smart00955 1 RVDLRDLPLFTIDPEDAKDIDDAVSVEKLDNGGYRLGVHIADVSHYVKPGSALDREARKRGTSVYLPDRVIPMLPEELSN 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 269 DLCSLRANEVRPVLACRMTLSADGTIEDNIEFFAATIESKAKLVYDQVSDWLEntgdwqpeseaiaeqvrllaqicqrrg 348
Cdd:smart00955 81 GLCSLNPGEDRLALSVEMTLDADGGEILDYEFYRSVIRSKARLTYEEVDAILE--------------------------- 133
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 349 ewrhnhalvfkdrpdyRFILGEKGEVLDIVAEPRRIANRIVEEAMIAANICAARVLRDKLGFGIYNVHMGFDPANADAL- 427
Cdd:smart00955 134 ----------------KIVLDEEGKIEDIVPRERNDAHSLVEEFMILANEAVARFLAKNGIPGLYRVHEGPDPEKLAELl 197
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 428 AALLKTHGLHVDAEEvlTLDGFCKLRRELDAQPT-GFLDSRIRRFQSFAEISTEPGPHFGLGLEAYATWTSPIRKYGDMI 506
Cdd:smart00955 198 KEFLALLGLLLLGGD--GPKALAKLLEKIRDSPEeRLLELLLLRSMPHAEYSVDNSGHFGLALDAYTHFTSPIRRYPDLI 275
|
330
....*....|.
gi 446407153 507 NHRLLKAVIKG 517
Cdd:smart00955 276 VHRQLKAALRG 286
|
|
| RNB |
pfam00773 |
RNB domain; This domain is the catalytic domain of ribonuclease II. |
189-515 |
2.05e-100 |
|
RNB domain; This domain is the catalytic domain of ribonuclease II.
Pssm-ID: 459934 [Multi-domain] Cd Length: 314 Bit Score: 308.83 E-value: 2.05e-100
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 189 REDLTALDFVTIDSASTEDMDDALFAKALPDGKLQLIVAIADPTAWIAEGSKLDKAAKIRAFTNYLPGFNIPMLPRELSD 268
Cdd:pfam00773 1 RKDLRDLPFITIDPADAKDLDDAISVEKLPNGGYRLGVHIADVSHYVPPGSPLDREARKRGTSVYLPDRVIPMLPEKLSN 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 269 DLCSLRANEVRPVLACRMTLSADGTIEdNIEFFAATIESKAKLVYDQVSDWLEnTGDWQPESEAIAEQVRLLAQICQRRG 348
Cdd:pfam00773 81 DLCSLNPGEDRLALSVEITIDADGEVT-SYEIYPSVIRSKARLTYEEVDDLLE-GKDAEKDKPDLAEDLRLLYELAKILR 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 349 EWRHNHALVFKDRPDYRFILGEKGeVLDIVAEPRRIANRIVEEAMIAANICAARVLRDKLGFGIYNVHMGFDPanadala 428
Cdd:pfam00773 159 AKRLQRGALDLDTPENKLILDEEG-VIDILIQERTDAHSLIEEFMLLANEAVARHLQELGIPALYRVHPEPDL------- 230
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 429 alLKTHGLHVDAEEVLTLDGFCKLRRELDAQPTGfLDSRIRRFQSFAEISTEPGPHFGLGLEAYATWTSPIRKYGDMINH 508
Cdd:pfam00773 231 --EKLNSLIKLLQLLPDDKGLSKSLEKIKDDERL-LSILLLRTMPRAEYSPEPLGHFGLGLDIYTHFTSPIRRYPDLIVH 307
|
....*..
gi 446407153 509 RLLKAVI 515
Cdd:pfam00773 308 RQLKALL 314
|
|
| PRK11642 |
PRK11642 |
ribonuclease R; |
24-582 |
8.70e-40 |
|
ribonuclease R;
Pssm-ID: 236944 [Multi-domain] Cd Length: 813 Bit Score: 156.06 E-value: 8.70e-40
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 24 GVVKATEKGFGFLEVDAQKS-YFIPPPQMKKVMHGDRIIAVIHSE--KERESAEPEELVEPFLTRFVGKVQGKNDRLAIV 100
Cdd:PRK11642 87 GTVIGHRDGYGFLRVEGRKDdLYLSSEQMKTCIHGDQVLAQPLGAdrKGRREARIVRVLVPKTSQIVGRYFTDAGVGFVV 166
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 101 PDHPLLK-DA-IPCRAARGLnhefKEGDWAVAEMRRHPlkgdrsfyAELTQYI-----TFGDDHFVPWWVTLA--RHNLE 171
Cdd:PRK11642 167 PDDSRLSfDIlIPPEQIMGA----RMGFVVVVELTQRP--------TRRTKAVgkiveVLGDNMGTGMAVDIAlrTHEIP 234
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 172 KEAPDGVATEM--LDEGLV------REDLTALDFVTIDSASTEDMDDALFAKALPDGKLQLIVAIADPTAWIAEGSKLDK 243
Cdd:PRK11642 235 YIWPQAVEQQVagLKEEVPeeakagRVDLRDLPLVTIDGEDARDFDDAVYCEKKRGGGWRLWVAIADVSYYVRPPTPLDR 314
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 244 AAKIRAFTNYLPGFNIPMLPRELSDDLCSLRANEVRPVLACRMTLSADGTIEdNIEFFAATIESKAKLVYDQVsdWLENT 323
Cdd:PRK11642 315 EARNRGTSVYFPSQVVPMLPEVLSNGLCSLNPQVDRLCMVCEMTISSKGRLT-GYKFYEAVMSSHARLTYTKV--WHILQ 391
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 324 GD------WQPESEAIAEQVRLLAQICQRRGEwrhNHALVFKDRpDYRFILGEKGEVLDIVAEPRRIANRIVEEAMIAAN 397
Cdd:PRK11642 392 GDqdlreqYAPLVKHLEELHNLYKVLDKAREE---RGGISFESE-EAKFIFNAERRIERIEQTQRNDAHKLIEECMILAN 467
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 398 ICAARVLRDKLGFGIYNVHmgfdpanaDALAALLKTHGLHVDAEEVLTLDG--------FCKLRRELDAQPTG-FLDSRI 468
Cdd:PRK11642 468 ISAARFVEKAKEPALFRIH--------DKPSTEAITSFRSVLAELGLELPGgnkpeprdYAELLESVADRPDAeMLQTML 539
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446407153 469 RRFQSFAEISTEPGPHFGLGLEAYATWTSPIRKYGDMINHRLLKAVIKGETATRPQDEIT----------------VQMA 532
Cdd:PRK11642 540 LRSMKQAIYDPENRGHFGLALQSYAHFTSPIRRYPDLSLHRAIKYLLAKEQGHKGNTTETggyhysmeemlqlgqhCSMT 619
|
570 580 590 600 610
....*....|....*....|....*....|....*....|....*....|
gi 446407153 533 ERRRlnRMAERDVGDWLYARFLKDKAGtdTRFAAEIVDISRGGMRVRLVD 582
Cdd:PRK11642 620 ERRA--DEATRDVADWLKCDFMLDQVG--NVFKGVISSVTGFGFFVRLDD 665
|
|
| OB_RNB |
pfam08206 |
Ribonuclease B OB domain; This family includes the N-terminal OB domain found in ribonuclease ... |
24-81 |
5.23e-17 |
|
Ribonuclease B OB domain; This family includes the N-terminal OB domain found in ribonuclease B proteins in one or two copies.
Pssm-ID: 429863 [Multi-domain] Cd Length: 58 Bit Score: 75.27 E-value: 5.23e-17
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*....
gi 446407153 24 GVVKATEKGFGFLEVDA-QKSYFIPPPQMKKVMHGDRIIAVIHsEKERESAEPEELVEP 81
Cdd:pfam08206 1 GTVRGHKKGFGFLIPDDeEDDIFIPPNQMKKAMHGDRVLVRIT-KGDRRGRREGRIVRI 58
|
|
| CSP |
smart00357 |
Cold shock protein domain; RNA-binding domain that functions as a RNA-chaperone in bacteria ... |
23-81 |
6.67e-12 |
|
Cold shock protein domain; RNA-binding domain that functions as a RNA-chaperone in bacteria and is involved in regulating translation in eukaryotes. Contains sub-family of RNA-binding domains in the Rho transcription termination factor.
Pssm-ID: 214633 [Multi-domain] Cd Length: 64 Bit Score: 61.08 E-value: 6.67e-12
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 446407153 23 EGVVKATEKGFGFLEVDA-QKSYFIPPPQ----MKKVMHGDRIIAVIHSEKERESAEPEELVEP 81
Cdd:smart00357 1 TGVVKWFNKGFGFIRPDDgGKDVFVHPSQiqggLKSLREGDEVEFKVVSPEGGEKPEAENVVKL 64
|
|
| S1 |
pfam00575 |
S1 RNA binding domain; The S1 domain occurs in a wide range of RNA associated proteins. It is ... |
560-635 |
3.64e-07 |
|
S1 RNA binding domain; The S1 domain occurs in a wide range of RNA associated proteins. It is structurally similar to cold shock protein which binds nucleic acids. The S1 domain has an OB-fold structure.
Pssm-ID: 425760 [Multi-domain] Cd Length: 72 Bit Score: 47.67 E-value: 3.64e-07
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 446407153 560 TDTRFAAEIVDISRGGMRVRLvDNGAIAFIPAPFLHAVRDElvcsqENGTVQIKGETAYKVTDVIDVTIAEVRMET 635
Cdd:pfam00575 3 KGDVVEGEVTRVTKGGAFVDL-GNGVEGFIPISELSDDHVE-----DPDEVIKVGDEVKVKVLKVDKDRRRIILSI 72
|
|
| CSD2 |
pfam17876 |
Cold shock domain; Crystallographic structure analysis of E. coli wild-type RNase II revealed ... |
99-175 |
3.21e-06 |
|
Cold shock domain; Crystallographic structure analysis of E. coli wild-type RNase II revealed that the amino-terminal region starts with an alpha-helix followed by two consecutive five-stranded anti-parallel beta-barrels, identified as cold-shock domains (CSD1 and CSD2). This entry relates to CSD2 which lacks the typical sequence motifs RNPI and RNPII but contributes to RNA binding.
Pssm-ID: 465546 [Multi-domain] Cd Length: 74 Bit Score: 45.07 E-value: 3.21e-06
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 446407153 99 IVPDHPLLKD--AIPCRAARGLnhefKEGDWAVAEMRRHPlkGDRSFYAELTQYITFGDDHFVPWWVTLARHNLEKEAP 175
Cdd:pfam17876 2 VVPDDKRIPQdiFIPKEDLKGA----KDGDKVVVEITEYP--DGKNPEGKIVEVLGDPGDPGVEILSIIRKHGLPHEFP 74
|
|
| S1 |
smart00316 |
Ribosomal protein S1-like RNA-binding domain; |
566-639 |
3.82e-03 |
|
Ribosomal protein S1-like RNA-binding domain;
Pssm-ID: 197648 [Multi-domain] Cd Length: 72 Bit Score: 36.43 E-value: 3.82e-03
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 446407153 566 AEIVDISRGGMRVRLvDNGAIAFIPApflhavrdelvcSQENGTVQIKGETAYKVTDVIDVTIAEVRMETRSII 639
Cdd:smart00316 8 GTVTEITPGGAFVDL-GNGVEGLIPI------------SELSDKRVKDPEEVLKVGDEVKVKVLSVDEEKGRII 68
|
|
| |
