| Detail-Interactions: | |
| RAID ID: | RPI00000055 |
|---|---|
| RNA/Protein Symbol 1: | RNY3(hY3 RNA) |
| RNA/Protein Category 1: | lncRNA |
| RNA/Protein Symbol 2: | HNRNPK(hnRNP K) |
| RNA/Protein Category 2: | Protein |
| Validated Method: | Immunoprecipitation |
| Tissue: | HeLa cells |
| PMID: | 11279198 |
| Detail description: | The heterogeneous nuclear ribonucleoproteins (hnRNP) I and K are able to associate with a subset of hY RNAs in vitro and demonstrate these interactions to occur also in vivo in a yeast three-hybrid system. sequences recognized by hnRNP K show significant similarities with the central loop 2b region of hY3 RNA. |
| The Predicated Binding Sites between RNY3 and HNRNPK | |||||
| By miRanda | Structure | Match Score | Energy Score | RNY3 Location | HNRNPK Location |
| The Predicated Binding Sites between RNY3 and HNRNPK | ||||
| By RIsearch | Structure | RNY3 Location | HNRNPK Location | Score |
| The Predicated Binding Sites of HNRNPK | |
| RBPBD | KHx3 |
| RsiteDB | |
| BindN |
>sp|P61978|HNRPK_HUMAN Heterogeneous nuclear ribonucleoprotein K OS=Homo sapiens GN=HNRNPK PE=1 SV=1 Sequence: METEQPEETFPNTETNGEFGKRPAEDMEEEQAFKRSRNTDEMVELRILLQSKNAGAVIGK Prediction: --------------++-++-++-----------++++--------------+-------+ Confidence: 743445463422325526427646246788443585822354989397732524245428 Sequence: GGKNIKALRTDYNASVSVPDSSGPERILSISADIETIGEILKKIIPTLEEGLQLPSPTAT Prediction: +-++-+--+++++-+-+---++--++--+--------------------------+++-+ Confidence: 428638228556545664326724575748364973986992499649866736275627 Sequence: SQLPLESDAVECLNYQHYKGSDFDCELRLLIHQSLAGGIIGVKGAKIKELRENTQTTIKL Prediction: ++--------------+-+-----------------------+--+-+--+----+---- Confidence: 564275378847833342652363689299986577466746833767256422252638 Sequence: FQECCPHSTDRVVLIGGKPDRVVECIKIILDLISESPIKGRAQPYDPNFYDETYDYGGFT Prediction: ----------+------+--+-----------------+-+-+++--------------- Confidence: 858774322567966337557886993999999353247293656244636544725664 Sequence: MMFDDRRGRPVGFPMRGRGGFDRMPPGRGGRPMPPSRRDYDDMSPRRGPPPPPPGRGGRG Prediction: -----++-++-+---+-+----+---++++++++++++-+++-+-+++++++++++++++ Confidence: 767645849645224748223373225956988978983654242885778877797999 Sequence: GSRARNLPLPPPPPPRGGDLMAYDRRGRPGDRYDGMVGFSADETWDSAIDTWSPSEWQMA Prediction: +++-++-----+++-+------+-++-+++++--------------------+------- Confidence: 999296425224652844242643772996582553866366544934773244374368 Sequence: YEPQGGSGYDYSYAGGRGSYGDLGGPIITTQVTIPKDLAGSIIGKGGQRIKQIRHESGAS Prediction: ---+--+++-+++-+++-++--------+---------------+++++-++-+--+--+ Confidence: 463522757255736692873346447653262762666526528646938546435335 Sequence: IKIDEPLEGSEDRIITITGTQDQIQNAQYLLQNSVKQYSGKFF Prediction: -+----------+--+-+-+-------------+-++++-+-- Confidence: 6497668553575795755524252393267334576555567 *** Prediction: binding residues are labeled with '+' and in red; non-binding residues labeled with '-' and in green. *** Confidence: from level 0 (lowest) to level 9 (highest). |
| BindN+ |
>sp|P61978|HNRPK_HUMAN Heterogeneous nuclear ribonucleoprotein K OS=Homo sapiens GN=HNRNPK PE=1 SV=1 Sequence: METEQPEETFPNTETNGEFGKRPAEDMEEEQAFKRSRNTDEMVELRILLQSKNAGAVIGK Prediction: --------------++-++--+----------------------------++--+--+++ Confidence: 688999998823544314421424479676463122248998999594653323433448 Sequence: GGKNIKALRTDYNASVSVPDSSGPERILSISADIETIGEILKKIIPTLEEGLQLPSPTAT Prediction: ++++-+--------+-+------------------------------------------+ Confidence: 767538552442185745232348737969224855695996789759679879652333 Sequence: SQLPLESDAVECLNYQHYKGSDFDCELRLLIHQSLAGGIIGVKGAKIKELRENTQTTIKL Prediction: -+-------------------------------+-----+++++-+-+--------+-+- Confidence: 243321113415634645777888889485751335134355642456464753364748 Sequence: FQECCPHSTDRVVLIGGKPDRVVECIKIILDLISESPIKGRAQPYDPNFYDETYDYGGFT Prediction: --------------------------------------+-+------------------- Confidence: 747987667938978222542896997999989262343452221333548547436775 Sequence: MMFDDRRGRPVGFPMRGRGGFDRMPPGRGGRPMPPSRRDYDDMSPRRGPPPPPPGRGGRG Prediction: ------+-+--+--+++++--------++-+--+++++-------++--+--+--+--+- Confidence: 543531426113123536323323322552411534651234323442152241353354 Sequence: GSRARNLPLPPPPPPRGGDLMAYDRRGRPGDRYDGMVGFSADETWDSAIDTWSPSEWQMA Prediction: ---------------+-------------------------------------------- Confidence: 511624856543443344266435326247423445756235542534854433364454 Sequence: YEPQGGSGYDYSYAGGRGSYGDLGGPIITTQVTIPKDLAGSIIGKGGQRIKQIRHESGAS Prediction: ------+-++-++--++-++----------------------+++++++-+--------+ Confidence: 344233525423532341362458836769898983265231557655626251451274 Sequence: IKIDEPLEGSEDRIITITGTQDQIQNAQYLLQNSVKQYSGKFF Prediction: -+---------------+------------------------- Confidence: 7485258355581693831133366596289483956767347 *** Prediction: binding residues are labeled with '+' and in red; non-binding residues labeled with '-' and in green. *** Confidence: from level 0 (lowest) to level 9 (highest). |
| RNAbindR |
>P61978|HNRNPK Sequence: METEQPEETFPNTETNGEFGKRPAEDMEEEQAFKRSRNTDEMVELRILLQSKNAGAVIGK Prediction: --------------------------------------------------++++++++++ Confidence: 000000000000000000000000000000000221200000000400215765878889 Sequence: GGKNIKALRTDYNASVSVPDSSGPERILSISADIETIGEILKKIIPTLEEGLQLPSPTAT Prediction: +++++++-++-+--+-+-++-+--++--+------+--+--------------------- Confidence: 888989627535428274551624563261232135125100100120000010011110 Sequence: SQLPLESDAVECLNYQHYKGSDFDCELRLLIHQSLAGGIIGVKGAKIKELRENTQTTIKL Prediction: ---------------------------+--+-+++++++++++++++++-+--++-+++- Confidence: 101000000000000000000001100611629995878889897879518448647572 Sequence: FQECCPHSTDRVVLIGGKPDRVVECIKIILDLISESPIKGRAQPYDPNFYDETYDYGGFT Prediction: --------------------+------------------------+-------------- Confidence: 133112311210000021335122001200100010322421111513001000101000 Sequence: MMFDDRRGRPVGFPMRGRGGFDRMPPGRGGRPMPPSRRDYDDMSPRRGPPPPPPGRGGRG Prediction: --------+--+-++--++++-+----------------------------+-+------ Confidence: 010013125335355346756353323311123122100000000042234525342442 Sequence: GSRARNLPLPPPPPPRGGDLMAYDRRGRPGDRYDGMVGFSADETWDSAIDTWSPSEWQMA Prediction: -------------+-----------------------+---------------------- Confidence: 113210111222354111101211332321121311251310110000000010002101 Sequence: YEPQGGSGYDYSYAGGRGSYGDLGGPIITTQVTIPKDLAGSIIGKGGQRIKQIRHESGAS Prediction: ---------------------------------------++--+++++++++-++-++++ Confidence: 211410200000000121120000000010101014441554458877869517827757 Sequence: IKIDEPLEGSEDRIITITGTQDQIQNAQYLLQNSVKQYSGKFF Prediction: -+----------------+++-+--------------------- Confidence: 48113210000431033265626431011001011100112210 *** Prediction: binding residues are labeled with '+' and in red; non-binding residues labeled with '-' and in green. *** Confidence: from level 0 (lowest) to level 9 (highest). |
| Pprint |
Sequence: METEQPEETFPNTETNGEFGKRPAEDMEEEQAFKRSRNTDEMVELRILLQSKNAGAVIGK Prediction: ------------+-+++++++++++--------------------+-----++-++++++ Confidence: 210100000102335576557784533010200032211111000500000531385769 Sequence: GGKNIKALRTDYNASVSVPDSSGPERILSISADIETIGEILKKIIPTLEEGLQLPSPTAT Prediction: +++++++++++++-+-+-++++++-+------+-----------------------+--- Confidence: 999799648645828283555774160000104101000000000011220201234311 Sequence: SQLPLESDAVECLNYQHYKGSDFDCELRLLIHQSLAGGIIGVKGAKIKELRENTQTTIKL Prediction: ----------------------+----+-----++++++++++++++++-+-+++--++- Confidence: 010001110011111100010133000400102584456579989999515245403431 Sequence: FQECCPHSTDRVVLIGGKPDRVVECIKIILDLISESPIKGRAQPYDPNFYDETYDYGGFT Prediction: -----------------++-+-++------------+----------------------- Confidence: 002002202000000026425255110000000102400120121201000001001111 Sequence: MMFDDRRGRPVGFPMRGRGGFDRMPPGRGGRPMPPSRRDYDDMSPRRGPPPPPPGRGGRG Prediction: ----------++-----++++++--+-+-++-+-------------------------++ Confidence: 120111212344322225555462233433434110011000000200000320110143 Sequence: GSRARNLPLPPPPPPRGGDLMAYDRRGRPGDRYDGMVGFSADETWDSAIDTWSPSEWQMA Prediction: +++------------------------+++++++-------------------------- Confidence: 464020000000000000202322211544475431311112322101110110000000 Sequence: YEPQGGSGYDYSYAGGRGSYGDLGGPIITTQVTIPKDLAGSIIGKGGQRIKQIRHESGAS Prediction: ------+-----------------------------++--++++++++++++-+++++-+ Confidence: 000223322200110020001113000000000002433135479799779728767627 Sequence: IKIDEPLEGSEDRIITITGTQDQIQNAQYLLQNSVKQYSGKFF Prediction: ++------++--+------------------------------ Confidence: 8922230164215102010000200100000302012002122 ***Prediction: binding residues are labeled with '+' and in red; non-binding residues labeled with '-' and in green. ***Confidence: from level 0 (lowest) to level 9 (highest). |
The 'First Node' or 'Second Node' option represents the sub-network of interacting RNA/Protein with the first or second interaction node,
the 'Both the Nodes' option represents the sub-network of interacting RNA/Protein with both of interaction nodes.
The 'First Neighbour' represents the sub-network of direct interacting with the center node,
the 'Second Neighbour' represents the sub-network of direct or second step interacting with the center node.
Interaction sub-network based on the two nodes of this interaction may help the researchers represents all interacting partners immediately.
The Detail page: representing the detail information for RNA-RNA/RNA-Protein interaction;
The Binding page: representing the predicted binding sites and/or constants.
The Network page: representing the interaction sub-network of interacting RNA/Protein.