Psyllid ID: psy4191

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440---
Protein Sequence
MLKKSFPLVRVKQLRPVVMAILRNTTHIDDKYLRVLVRDRELYKDTDTEVKRQIWKDNQSLFGDEVSPLLSQYIREKENILFDHHNLTNLFFFPTPKEFKEPKLDSQVVTKFVPALMSLMVDDQVRALNSKMPPDERESAITIIEHSGRFNRIGEVVQKLAHMIGSSVKLYDMVLQFLRTLFLRTHNVHYCTLRAELLMALHDLEIQDIISVDPCHKFTWCLDACIREKNVDIKRSRELQGFLDSIKRGHEQVLGDLSMTLCDPYAINFLATSAMKILHYLINNEALPRENTVLVLLLRMLALGLSAWVMIDTQGGNILIEIFRSCFKLYDMVLQFLRTLFLRTHNVHYWPVPDAVQAYVQESSVACIISMYYTLHTARSRDRVGLMRVLGVLATSESDRAFDDPFLHFLSSYEISLWTSLNWQRVWLRHYFQTSPKRNFNVL
Secondary Structure (PSIPRED)
cccccccccccccHHHHHHHHHHccccccHHHHHHHHHcHHHHHHccHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHccccccccccHHHHHHHHHHHcccHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHcccccccccccccccHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHccccccccccHHHcccHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccHHHHHHHHHccHHHHHHHHHHHHHHccccHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHcccHHHHHHHHHHHccccccccccc
Secondary Structure Prediction (SSPRO)
cHHHcccEEccHcHcHHHHHHHHHcccccHHHHHHHHHcHHHHHHcccHEHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHcccccccccccccccccccccccccHHHHcccHHHHHHccccccccccccccccccccHHHcccHHHHHHHHHHcccHHHHHHHHHHHHHHHHHcccccEHHHHHHHHHHHHccccHHHccccccHHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHcccHHHHHHHccccEEEHHcccccccHHHHHHHHHHHHHcccccccccccHHHHHHHHHccHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHcHHHHHHHHHHccccccccccc
Coil and Loop (DISEMBL)
mlkksfplvrvkqlRPVVMAILRNTTHIDDKYLRVLVRDrelykdtdTEVKRQIWKDnqslfgdevsPLLSQYIREKEnilfdhhnltnlfffptpkefkepkldsqvVTKFVPALMSLMVDDQVRAlnskmppdereSAITIIEHSGRFNRIGEVVQKLAHMIGSSVKLYDMVLQFLRTLFLRTHNVHYCTLRAELLMALHDLEiqdiisvdpchkftwcLDACIREKNVDIKRSRELQGFLDSIKRGHEQVLGdlsmtlcdpyaINFLATSAMKILHYLInnealpreNTVLVLLLRMLALGLSAWVMIDTQGGNILIEIFRSCFKLYDMVLQFLRTLFLRThnvhywpvpdAVQAYVQESSVACIISMYYTLHTARSRDRVGLMRVLGVLatsesdrafddpflHFLSSYEISLWTSLNWQRVWLRHYFqtspkrnfnvl
Flexible Loop (DISEMBL)
mlkksfplvrvkqlrpVVMAIlrntthiddkylrvlvrdrelykdtdtevkrqiwkdnqslfgdeVSPLLSQYIREKENILFDHHNLTNLFFFPTPKEFKEPKLDSQVVTKFVPALMSLMVDDQVRALNSKMPPDERESAITiiehsgrfNRIGEVVQKLAHMIGSSVKLYDMVLQFLRTLFLRTHNVHYCTLRAELLMALHDLEIQDIISVDPCHKFTWCLDACIREKNVDIKRSRELQGFLDSIKRGHEQVLGDLSMTLCDPYAINFLATSAMKILHYLINNEALPRENTVLVLLLRMLALGLSAWVMIDTQGGNILIEIFRSCFKLYDMVLQFLRTLFLRTHNVHYWPVPDAVQAYVQESSVACIISMYYTLHTARSRDRVGLMRVLGVLATsesdrafdDPFLHFLSSYEISLWTSLNWQRVWLRHYfqtspkrnfnvl
Low Complexity Region (SEG)
MLKKSFPLVRVKQLRPVVMAILRNTTHIDDKYLRVLVRDRELYKDTDTEVKRQIWKDNQSLFGDEVSPLLSQYIREKENILFDHHNLTNLfffptpkefkepkLDSQVVTKFVPALMSLMVDDQVRALNSKMPPDERESAITIIEHSGRFNRIGEVVQKLAHMIGSSVKLYDMVLQFLRTLFLRTHNVHYCTLRAELLMALHDLEIQDIISVDPCHKFTWCLDACIREKNVDIKRSRELQGFLDSIKRGHEQVLGDLSMTLCDPYAINFLATSAMKILHYLINNEALPRENTVlvlllrmlalglSAWVMIDTQGGNILIEIFRSCFKLYDMVLQFLRTLFLRTHNVHYWPVPDAVQAYVQESSVACIISMYYTLHTARSRDRVGLMRVLGVLATSESDRAFDDPFLHFLSSYEISLWTSLNWQRVWLRHYFQTSPKRNFNVL
Disordered region (IsUnstruct)
******PLVRVKQLRPVVMAILRNTTHIDDKYLRVLVRDRELYKDTDTEVKRQIWKDNQSLFGDEVSPLLSQYIREKENILFDHHNLTNLFFFPTPKEFKEPKLDSQVVTKFVPALMSLMVDDQV**************AITIIEHSGRFNRIGEVVQKLAHMIGSSVKLYDMVLQFLRTLFLRTHNVHYCTLRAELLMALHDLEIQDIISVDPCHKFTWCLDACIREKNVDIKRSRELQGFLDSIKRGHEQVLGDLSMTLCDPYAINFLATSAMKILHYLINNEALPRENTVLVLLLRMLALGLSAWVMIDTQGGNILIEIFRSCFKLYDMVLQFLRTLFLRTHNVHYWPVPDAVQAYVQESSVACIISMYYTLHTARSRDRVGLMRVLGVLATSESDRAFDDPFLHFLSSYEISLWTSLNWQRVWLRHYFQ**********
Disordered Region (DISOPRED)
*LKKSFPLVRVKQLRPVVMAILRNTTHIDDKYLRVLVRDRELYKDTDTEVKRQIWKDNQSLFGDEVSPLLSQYIREKENILFDHHNLTNLFFF***************VTKFVP***********************************************HMIGSSVKLYDMVLQFLRTLFLRTHNVHYCTLRAELLMALHDLEIQDIISVDPCHKFTWCLDACIREKNVDIKRSRELQGFLDS*KR**EQVLGDLSMTLCDPYAINFLATSAMKILHYLINNEALPRENTVLVLLLRMLALGLSAWVMIDTQGGNILIEIFRSCFKLYDMVLQFLRT***********PVPDAVQAYVQESSVACIISMYYTLHTARSRDRVGLMRVLGVLATSESDRAFDDPFLHFLSSYEISLWTSLNWQRVWLRHYFQTSPKRNF*VL
Disordered Region (DISEMBL)
MLKKSFPLVRVKQLRPVVMAILRNTTHIDDKYLRVLVRDRELYKDTDTEVKRQIWKDNQSLFGDEVSPLLSQYIREKENILFDHHNLTNLFFFPTPKEFKEPKLDSQVVTKFVPALMSLMVDDQVRALNSKMPPDERESAITIIEHSGRFNRIGEVVQKLAHMIGSSVKLYDMVLQFLRTLFLRTHNVHYCTLRAELLMALHDLEIQDIISVDPCHKFTWCLDACIREKNVDIKRSRELQGFLDSIKRGHEQVLGDLSMTLCDPYAINFLATSAMKILHYLINNEALPRENTVLVLLLRMLALGLSAWVMIDTQGGNILIEIFRSCFKLYDMVLQFLRTLFLRTHNVHYWPVPDAVQAYVQESSVACIISMYYTLHTARSRDRVGLMRVLGVLATSESDRAFDDPFLHFLSSYEISLWTSLNWQRVWLRHYFQTSPKRNFNVL
Disordered Region (DISPRO)
MLKKSFPLVRVKQLRPVVMAILRNTTHIDDKYLRVLVRDRELYKDTDTEVKRQIWKDNQSLFGDEVSPLLSQYIREKENILFDHHNLTNLFFFPTPK****************PALM*****************************SGRFNRIGEVVQKLAHMIGSSVKLYDMVLQFLRTLFLRTHNVHYCTLRAELLMALHDLEIQDIISVDPCHKFTWCLDACIREKNVDIKRSRELQGFLDSIKRGHEQVLGDLSMTLCDPYAINFLATSAMKILHYLINNEALPRENTVLVLLLRMLALGLSAWVMIDTQGGNILIEIFRSCFKLYDMVLQFLRTLFLRTHNVHYWPVPDAVQAYVQESSVACIISMYYTLHTARSRDRVGLMRVLGVLATSESDRAFDDPFLHFLSSYEISLWTSLNWQRVWLRHYFQTSPKR*****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MLKKSFPLVRVKQLRPVVMAILRNTTHIDDKYLRVLVRDRELYKDTDTEVKRQIWKDNQSLFGDEVSPLLSQYIREKENILFDHHNLTNLFFFPTPKEFKEPKLDSQVVTKFVPALMSLMVDDQVRALNSKMPPDERESAITIIEHSGRFNRIGEVVQKLAHMIGSSVKLYDMVLQFLRTLFLRTHNVHYCTLRAELLMALHDLEIQDIISVDPCHKFTWCLDACIREKNVDIKRSRELQGFLDSIKRGHEQVLGDLSMTLCDPYAINFLATSAMKILHYLINNEALPRENTVLVLLLRMLALGLSAWVMIDTQGGNILIEIFRSCFKLYDMVLQFLRTLFLRTHNVHYWPVPDAVQAYVQESSVACIISMYYTLHTARSRDRVGLMRVLGVLATSESDRAFDDPFLHFLSSYEISLWTSLNWQRVWLRHYFQTSPKRNFNVL
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	443	2.2.26 [Sep-21-2011]
Q9Y113	594	Negative elongation facto	yes	N/A	0.803	0.599	0.644	1e-144
Q8C4Y3	580	Negative elongation facto	yes	N/A	0.796	0.608	0.452	6e-94
Q8WX92	580	Negative elongation facto	yes	N/A	0.796	0.608	0.457	2e-93

>sp|Q9Y113|NELFB_DROME Negative elongation factor B OS=Drosophila melanogaster GN=NELF-B PE=1 SV=1

 Score =  511 bits (1316), Expect = e-144,   Method: Compositional matrix adjust.
 Identities = 275/427 (64%), Positives = 313/427 (73%), Gaps = 71/427 (16%)

Query: 1   MLKKSFPLVRVKQLRPVVMAILRNTTHIDDKYLRVLVRDRELYKDTDTEVKRQIWKDNQS 60
           +L KSFP+VRVK LRPVVMAILRNT HIDDKYL++LVRDRELY DTDTEVKRQIW+DNQS
Sbjct: 105 LLVKSFPVVRVKSLRPVVMAILRNTQHIDDKYLKILVRDRELYADTDTEVKRQIWRDNQS 164

Query: 61  LFGDEVSPLLSQYIREKENILFDHHNLTNLFFFPTPKEFKEPKLDSQVVTKFVPALMSLM 120
           LFGDEVSPLLSQYIREKE+ILFDH NL NLFF PTP                        
Sbjct: 165 LFGDEVSPLLSQYIREKEHILFDHTNLNNLFFHPTP------------------------ 200

Query: 121 VDDQVRALNSKMPPDERESAITIIEHSGRFNRIGEVVQKLAHMIGSSVKLYDMVLQFLRT 180
                                       +  R GEVVQKLA+MIG+SVKLYDMVLQFLRT
Sbjct: 201 ----------------------------KVRRQGEVVQKLANMIGTSVKLYDMVLQFLRT 232

Query: 181 LFLRTHNVHYCTLRAELLMALHDLEIQDIISVDPCHKFTWCLDACIREKNVDIKRSRELQ 240
           LFLRT NVHYCTLRAELLMALHDLE+Q+IIS+DPCHKFTWCLDACIREKNVDIKRSRELQ
Sbjct: 233 LFLRTRNVHYCTLRAELLMALHDLEVQEIISIDPCHKFTWCLDACIREKNVDIKRSRELQ 292

Query: 241 GFLDSIKRGHEQVLGDLSMTLCDPYAINFLATSAMKILHYLINNEALPRENTVLVLLLRM 300
           GFLD+IKRG EQVLGDLSMTLCDPYAINFLATSA+KILH+LINNE +PR+N +L+LLLRM
Sbjct: 293 GFLDNIKRGQEQVLGDLSMTLCDPYAINFLATSAIKILHHLINNEGMPRDNQILILLLRM 352

Query: 301 LALGLSAWVMIDTQ-------GGNILIEIFRSCFKLYDMVLQFLRTLFLR---------- 343
           LALGLSAWVMID+Q          ++ +   +   L  MV    R+L  +          
Sbjct: 353 LALGLSAWVMIDSQDFKEPKLDCQVVTKFLPALMSL--MVDDQCRSLHAKLPPDERESAL 410

Query: 344 THNVHYWPVPDAVQAYVQESSVACIISMYYTLHTARSRDRVGLMRVLGVLATSESDRAFD 403
           T   H  P PDAV+AY+QESSVA I++MYYTLHTAR +DRVG++RVL +L+  + DRA++
Sbjct: 411 TTIEHSGPAPDAVEAYIQESSVASILAMYYTLHTARLKDRVGVLRVLAILSACKDDRAYE 470

Query: 404 DPFLHFL 410
           DPFLH L
Sbjct: 471 DPFLHSL 477

Essential component of the NELF complex, a complex that negatively regulates the elongation of transcription by RNA polymerase II.
Drosophila melanogaster (taxid: 7227)

>sp|Q8C4Y3|NELFB_MOUSE Negative elongation factor B OS=Mus musculus GN=Cobra1 PE=2 SV=2

 Score =  344 bits (883), Expect = 6e-94,   Method: Compositional matrix adjust.
 Identities = 195/431 (45%), Positives = 263/431 (61%), Gaps = 78/431 (18%)

Query: 1   MLKKSFPLVRVKQLRPVVMAILRNTTHIDDKYLRVLVRDRELYKDTDTEVKRQIWKDNQS 60
           +L+KSF LV++  L+PVVM ++++   + +K L++++ D+ELY+    EVKRQIW+DNQ+
Sbjct: 96  LLEKSFSLVKMPSLQPVVMCVMKHLPKVPEKKLKLVMADKELYRACAVEVKRQIWQDNQA 155

Query: 61  LFGDEVSPLLSQYIREKENILFDHH-NLTNLFFFPTPKEFKEPKLDSQVVTKFVPALMSL 119
           LFGDEVSPLL QYI EKE+ LF    ++ + FF P                         
Sbjct: 156 LFGDEVSPLLKQYILEKESALFSTELSVLHNFFSP------------------------- 190

Query: 120 MVDDQVRALNSKMPPDERESAITIIEHSGRFNRIGEVVQKLAHMIGSSVKLYDMVLQFLR 179
                                      S +  R GEVVQKL  M+G +VKLYDMVLQFLR
Sbjct: 191 ---------------------------SPKTRRQGEVVQKLTQMVGKNVKLYDMVLQFLR 223

Query: 180 TLFLRTHNVHYCTLRAELLMALHDLEIQDIISVDPCHKFTWCLDACIREKNVDIKRSREL 239
           TLFLRT NVHYCTLRAELLM+LHDL++ DI +VDPCHKFTWCLDACIRE+ VD KR+REL
Sbjct: 224 TLFLRTRNVHYCTLRAELLMSLHDLDVSDICTVDPCHKFTWCLDACIRERFVDSKRAREL 283

Query: 240 QGFLDSIKRGHEQVLGDLSMTLCDPYAINFLATSAMKILHYLINNEALPRENTVLVLLLR 299
           QGFLD +K+G EQVLGDLSM LCDP+AIN L+ S ++ L  L++ E LPR++  L+LLLR
Sbjct: 284 QGFLDGVKKGQEQVLGDLSMILCDPFAINTLSLSTIRHLQELVSQETLPRDSPDLLLLLR 343

Query: 300 MLALGLSAWVMIDTQGGNILIEIFRSCFKLYDMVLQFLRTLFLR-----THNVHY----- 349
           +LALG  AW +ID+Q       +F+      +++ +FL  L        T NV       
Sbjct: 344 LLALGQGAWDLIDSQ-------VFKEPKMEAELITKFLPMLMSLVVDDFTFNVDQKLPAE 396

Query: 350 ------WP--VPDAVQAYVQESSVACIISMYYTLHTARSRDRVGLMRVLGVLATSESDRA 401
                 +P  +P++   ++QE  +AC + +YY LH  + R++  L+R+L  L  +  D A
Sbjct: 397 EKASVTYPNTLPESFTKFLQEQRMACEVGLYYVLHITKQRNKNALLRLLPGLVETFGDLA 456

Query: 402 FDDPFLHFLSS 412
           F D FLH L+ 
Sbjct: 457 FSDIFLHLLTG 467

Essential component of the NELF complex, a complex that negatively regulates the elongation of transcription by RNA polymerase II. The NELF complex, which acts via an association with the DSIF complex and causes transcriptional pausing, is counteracted by the P-TEFb kinase complex. May be able to induce chromatin unfolding.

Mus musculus (taxid: 10090)

>sp|Q8WX92|NELFB_HUMAN Negative elongation factor B OS=Homo sapiens GN=COBRA1 PE=1 SV=1

 Score =  343 bits (880), Expect = 2e-93,   Method: Compositional matrix adjust.
 Identities = 197/431 (45%), Positives = 264/431 (61%), Gaps = 78/431 (18%)

Query: 1   MLKKSFPLVRVKQLRPVVMAILRNTTHIDDKYLRVLVRDRELYKDTDTEVKRQIWKDNQS 60
           +L+KSF LV++  L+PVVM ++++   + +K L++++ D+ELY+    EVKRQIW+DNQ+
Sbjct: 96  LLEKSFSLVKMPSLQPVVMCVMKHLPKVPEKKLKLVMADKELYRACAVEVKRQIWQDNQA 155

Query: 61  LFGDEVSPLLSQYIREKENILFDHH-NLTNLFFFPTPKEFKEPKLDSQVVTKFVPALMSL 119
           LFGDEVSPLL QYI EKE+ LF    ++ + FF P                         
Sbjct: 156 LFGDEVSPLLKQYILEKESALFSTELSVLHNFFSP------------------------- 190

Query: 120 MVDDQVRALNSKMPPDERESAITIIEHSGRFNRIGEVVQKLAHMIGSSVKLYDMVLQFLR 179
                                      S +  R GEVVQ+L  M+G +VKLYDMVLQFLR
Sbjct: 191 ---------------------------SPKTRRQGEVVQRLTRMVGKNVKLYDMVLQFLR 223

Query: 180 TLFLRTHNVHYCTLRAELLMALHDLEIQDIISVDPCHKFTWCLDACIREKNVDIKRSREL 239
           TLFLRT NVHYCTLRAELLM+LHDL++ +I +VDPCHKFTWCLDACIRE+ VD KR+REL
Sbjct: 224 TLFLRTRNVHYCTLRAELLMSLHDLDVGEICTVDPCHKFTWCLDACIRERFVDSKRAREL 283

Query: 240 QGFLDSIKRGHEQVLGDLSMTLCDPYAINFLATSAMKILHYLINNEALPRENTVLVLLLR 299
           QGFLD +K+G EQVLGDLSM LCDP+AIN LA S ++ L  L+  E LPR++  L+LLLR
Sbjct: 284 QGFLDGVKKGQEQVLGDLSMILCDPFAINTLALSTVRHLQELVGQETLPRDSPDLLLLLR 343

Query: 300 MLALGLSAWVMIDTQGGNILIEIFRSCFKLYDMVLQFLRTL--FL---RTHNVHY----- 349
           +LALG  AW MID+Q       +F+      +++ +FL  L  FL    T NV       
Sbjct: 344 LLALGQGAWDMIDSQ-------VFKEPKMEVELITRFLPMLMSFLVDDYTFNVDQKLPAE 396

Query: 350 ------WP--VPDAVQAYVQESSVACIISMYYTLHTARSRDRVGLMRVLGVLATSESDRA 401
                 +P  +P++   ++QE  +AC + +YY LH  + R++  L+R+L  L  +  D A
Sbjct: 397 EKAPVSYPNTLPESFTKFLQEQRMACEVGLYYVLHITKQRNKNALLRLLPGLVETFGDLA 456

Query: 402 FDDPFLHFLSS 412
           F D FLH L+ 
Sbjct: 457 FGDIFLHLLTG 467

Essential component of the NELF complex, a complex that negatively regulates the elongation of transcription by RNA polymerase II. The NELF complex, which acts via an association with the DSIF complex and causes transcriptional pausing, is counteracted by the P-TEFb kinase complex. May be able to induce chromatin unfolding.

Homo sapiens (taxid: 9606)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	443
170053288	590	negative elongation factor B [Culex quin	0.803	0.603	0.653	1e-144
157106897	588	hypothetical protein AaeL_AAEL014752 [Ae	0.819	0.617	0.640	1e-144
193627464	590	PREDICTED: negative elongation factor B-	0.803	0.603	0.655	1e-144
195036506	592	GH18941 [Drosophila grimshawi] gi|193893	0.803	0.601	0.651	1e-143
195353509	592	GM17461 [Drosophila sechellia] gi|194127	0.803	0.601	0.644	1e-142
18857943	594	NELF-B [Drosophila melanogaster] gi|3837	0.803	0.599	0.644	1e-142
194896912	592	GG17612 [Drosophila erecta] gi|190650208	0.803	0.601	0.644	1e-142
195398977	631	GJ15676 [Drosophila virilis] gi|19415052	0.803	0.564	0.639	1e-141
195041727	598	GH12128 [Drosophila grimshawi] gi|193901	0.805	0.596	0.638	1e-141
195390466	592	GJ24126 [Drosophila virilis] gi|19415197	0.803	0.601	0.641	1e-141

>gi|170053288|ref|XP_001862604.1| negative elongation factor B [Culex quinquefasciatus] gi|167873859|gb|EDS37242.1| negative elongation factor B [Culex quinquefasciatus]

 Score =  518 bits (1334), Expect = e-144,   Method: Compositional matrix adjust.
 Identities = 279/427 (65%), Positives = 314/427 (73%), Gaps = 71/427 (16%)

Query: 1   MLKKSFPLVRVKQLRPVVMAILRNTTHIDDKYLRVLVRDRELYKDTDTEVKRQIWKDNQS 60
           +L KSFP+VRVK LRPVVM ILRNT HIDDKYLR+LVRDRELY+DTDTEVKRQIW+DNQS
Sbjct: 102 LLVKSFPVVRVKALRPVVMCILRNTAHIDDKYLRILVRDRELYQDTDTEVKRQIWRDNQS 161

Query: 61  LFGDEVSPLLSQYIREKENILFDHHNLTNLFFFPTPKEFKEPKLDSQVVTKFVPALMSLM 120
           LFGDEVSPLLSQYIREKE+ILFDH NL NLFF PTP                        
Sbjct: 162 LFGDEVSPLLSQYIREKEHILFDHLNLNNLFFTPTP------------------------ 197

Query: 121 VDDQVRALNSKMPPDERESAITIIEHSGRFNRIGEVVQKLAHMIGSSVKLYDMVLQFLRT 180
                                       +  R GEVVQKLAHMIG+SVKLYDMVLQFLRT
Sbjct: 198 ----------------------------KVRRQGEVVQKLAHMIGNSVKLYDMVLQFLRT 229

Query: 181 LFLRTHNVHYCTLRAELLMALHDLEIQDIISVDPCHKFTWCLDACIREKNVDIKRSRELQ 240
           LFLRT NVHYCTLRAELLMALHDLE+QDIISVDPCHKFTWCLDACIREKNVDIKRSRELQ
Sbjct: 230 LFLRTRNVHYCTLRAELLMALHDLEVQDIISVDPCHKFTWCLDACIREKNVDIKRSRELQ 289

Query: 241 GFLDSIKRGHEQVLGDLSMTLCDPYAINFLATSAMKILHYLINNEALPRENTVLVLLLRM 300
           GFLD+IKRG EQVLGDLSMTLCDPYAINFLATSA+KIL +LINNE LPRENT+L+LLLRM
Sbjct: 290 GFLDNIKRGQEQVLGDLSMTLCDPYAINFLATSAIKILQHLINNEGLPRENTILILLLRM 349

Query: 301 LALGLSAWVMIDTQ-------GGNILIEIFRSCFKLYDMVLQFLRTLFLR---------- 343
           LALGLSAW+MID+Q          ++ +   +   L  MV   +R L  +          
Sbjct: 350 LALGLSAWIMIDSQDFKEPKLDSQVVTKFLPALMSL--MVDDQVRNLHAKLPPDERESAI 407

Query: 344 THNVHYWPVPDAVQAYVQESSVACIISMYYTLHTARSRDRVGLMRVLGVLATSESDRAFD 403
           T   H  P PDAV+AY+QESSVA I++MYYTLHTAR +DRVG++RV+ +LA+ + DRA++
Sbjct: 408 TTIEHSGPAPDAVEAYIQESSVASILAMYYTLHTARQKDRVGILRVMAILASCKDDRAYE 467

Query: 404 DPFLHFL 410
           DPFLH L
Sbjct: 468 DPFLHSL 474

Source: Culex quinquefasciatus

Species: Culex quinquefasciatus

Genus: Culex

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|157106897|ref|XP_001649534.1| hypothetical protein AaeL_AAEL014752 [Aedes aegypti] gi|108868768|gb|EAT32993.1| AAEL014752-PA [Aedes aegypti]

 Score =  517 bits (1331), Expect = e-144,   Method: Compositional matrix adjust.
 Identities = 278/434 (64%), Positives = 318/434 (73%), Gaps = 71/434 (16%)

Query: 1   MLKKSFPLVRVKQLRPVVMAILRNTTHIDDKYLRVLVRDRELYKDTDTEVKRQIWKDNQS 60
           +L KSFP+VRVK LRPVVM ILRNT+HIDDKYLR+LVRDRELY+DTDTEVKRQIW+DNQS
Sbjct: 102 LLVKSFPVVRVKALRPVVMCILRNTSHIDDKYLRILVRDRELYQDTDTEVKRQIWRDNQS 161

Query: 61  LFGDEVSPLLSQYIREKENILFDHHNLTNLFFFPTPKEFKEPKLDSQVVTKFVPALMSLM 120
           LFGDEVSPLLSQYIREKE+ILFDH NL NLFF PTP                        
Sbjct: 162 LFGDEVSPLLSQYIREKEHILFDHMNLNNLFFTPTP------------------------ 197

Query: 121 VDDQVRALNSKMPPDERESAITIIEHSGRFNRIGEVVQKLAHMIGSSVKLYDMVLQFLRT 180
                                       +  R GEVVQKLAHMIG+SVKLYDMVLQFLRT
Sbjct: 198 ----------------------------KVRRQGEVVQKLAHMIGNSVKLYDMVLQFLRT 229

Query: 181 LFLRTHNVHYCTLRAELLMALHDLEIQDIISVDPCHKFTWCLDACIREKNVDIKRSRELQ 240
           LFLRT NVHYCTLRAELLMALHDLE+QDIISVDPCHKFTWCLDACIREKNVDIKRSRELQ
Sbjct: 230 LFLRTRNVHYCTLRAELLMALHDLEVQDIISVDPCHKFTWCLDACIREKNVDIKRSRELQ 289

Query: 241 GFLDSIKRGHEQVLGDLSMTLCDPYAINFLATSAMKILHYLINNEALPRENTVLVLLLRM 300
           GFLD+IKRG EQVLGDLSMTLCDPYAINFLATSA+KIL +LINNE LPR+NT+L+LLLRM
Sbjct: 290 GFLDNIKRGQEQVLGDLSMTLCDPYAINFLATSAIKILQHLINNEGLPRDNTILILLLRM 349

Query: 301 LALGLSAWVMIDTQ-------GGNILIEIFRSCFKLYDMVLQFLRTLFLR---------- 343
           LALGLSAW+MID+Q          ++ +   +   L  MV   +R L  +          
Sbjct: 350 LALGLSAWIMIDSQDFKEPKLDSQVVTKFLPALMSL--MVDDQVRNLHAKLPPDERESAI 407

Query: 344 THNVHYWPVPDAVQAYVQESSVACIISMYYTLHTARSRDRVGLMRVLGVLATSESDRAFD 403
           T   H  P PDAV+AY+QES+VA I++MYYTLHTAR +DRVG++RV+ +LA+ + DRA++
Sbjct: 408 TTIEHSGPAPDAVEAYIQESAVASILAMYYTLHTARQKDRVGILRVMAILASCKDDRAYE 467

Query: 404 DPFLHFLSSYEISL 417
           DPFLH L +  I +
Sbjct: 468 DPFLHSLIALMIPM 481

Source: Aedes aegypti

Species: Aedes aegypti

Genus: Aedes

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|193627464|ref|XP_001951169.1| PREDICTED: negative elongation factor B-like [Acyrthosiphon pisum]

 Score =  516 bits (1329), Expect = e-144,   Method: Compositional matrix adjust.
 Identities = 280/427 (65%), Positives = 313/427 (73%), Gaps = 71/427 (16%)

Query: 1   MLKKSFPLVRVKQLRPVVMAILRNTTHIDDKYLRVLVRDRELYKDTDTEVKRQIWKDNQS 60
           ML KSFP V +KQLRP++MAIL+N +HIDDKYL VLV+D ELYKDTDTEVKRQIWKDNQS
Sbjct: 107 MLAKSFPSVHIKQLRPIIMAILKNISHIDDKYLNVLVKDTELYKDTDTEVKRQIWKDNQS 166

Query: 61  LFGDEVSPLLSQYIREKENILFDHHNLTNLFFFPTPKEFKEPKLDSQVVTKFVPALMSLM 120
           L  +EVSPLL+QYIREKENILFDH+NLTNLFF P+      PKL                
Sbjct: 167 LLVNEVSPLLTQYIREKENILFDHNNLTNLFFTPS------PKL---------------- 204

Query: 121 VDDQVRALNSKMPPDERESAITIIEHSGRFNRIGEVVQKLAHMIGSSVKLYDMVLQFLRT 180
                                          R GEVVQKLAHMIGSSVKLYDMVLQFLRT
Sbjct: 205 ------------------------------RRQGEVVQKLAHMIGSSVKLYDMVLQFLRT 234

Query: 181 LFLRTHNVHYCTLRAELLMALHDLEIQDIISVDPCHKFTWCLDACIREKNVDIKRSRELQ 240
           LFLRTHNVHYCTLRAELLMALHDLEIQDIIS+DPCHKFTWCLDACIRE+NVD+KRSRELQ
Sbjct: 235 LFLRTHNVHYCTLRAELLMALHDLEIQDIISIDPCHKFTWCLDACIRERNVDVKRSRELQ 294

Query: 241 GFLDSIKRGHEQVLGDLSMTLCDPYAINFLATSAMKILHYLINNEALPRENTVLVLLLRM 300
           GFLDSIKRGHE VLGDLSMTLCDPYAINFLATS ++ILH+LINNE LPREN VLVLLLRM
Sbjct: 295 GFLDSIKRGHETVLGDLSMTLCDPYAINFLATSTIRILHHLINNENLPRENHVLVLLLRM 354

Query: 301 LALGLSAWVMIDTQ-------GGNILIEIFRSCFKLYDMVLQFLRTLFLR---------- 343
           L+LGLSAWVMIDTQ          ++ +   +   L  MV   +R L  +          
Sbjct: 355 LSLGLSAWVMIDTQDFKEPKLDSQVVTKFMPALMSL--MVDDQVRALNTKMPPDERESAI 412

Query: 344 THNVHYWPVPDAVQAYVQESSVACIISMYYTLHTARSRDRVGLMRVLGVLATSESDRAFD 403
           T   H  PVPDAVQAY+QESSVAC ++MYYTLH A+++DR+ LMR+LG LA  + DRAF+
Sbjct: 413 TIIEHSGPVPDAVQAYIQESSVACTVAMYYTLHVAKAKDRLALMRILGSLANCDHDRAFE 472

Query: 404 DPFLHFL 410
           DPFLHFL
Sbjct: 473 DPFLHFL 479

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195036506|ref|XP_001989711.1| GH18941 [Drosophila grimshawi] gi|193893907|gb|EDV92773.1| GH18941 [Drosophila grimshawi]

 Score =  513 bits (1321), Expect = e-143,   Method: Compositional matrix adjust.
 Identities = 278/427 (65%), Positives = 314/427 (73%), Gaps = 71/427 (16%)

Query: 1   MLKKSFPLVRVKQLRPVVMAILRNTTHIDDKYLRVLVRDRELYKDTDTEVKRQIWKDNQS 60
           +L KSFP+VRVK LRPVVMAILRNT HIDDKYLRVLVRDRELY DTDTEVKRQIW+DNQS
Sbjct: 102 LLVKSFPVVRVKYLRPVVMAILRNTQHIDDKYLRVLVRDRELYADTDTEVKRQIWRDNQS 161

Query: 61  LFGDEVSPLLSQYIREKENILFDHHNLTNLFFFPTPKEFKEPKLDSQVVTKFVPALMSLM 120
           LFGDEVSPLLSQYIREKE+ILFDH NL+NLFF PTP                        
Sbjct: 162 LFGDEVSPLLSQYIREKEHILFDHSNLSNLFFQPTP------------------------ 197

Query: 121 VDDQVRALNSKMPPDERESAITIIEHSGRFNRIGEVVQKLAHMIGSSVKLYDMVLQFLRT 180
                                       +  R GEVVQKLA MIG+SVKLYDMVLQFLRT
Sbjct: 198 ----------------------------KVRRQGEVVQKLAKMIGNSVKLYDMVLQFLRT 229

Query: 181 LFLRTHNVHYCTLRAELLMALHDLEIQDIISVDPCHKFTWCLDACIREKNVDIKRSRELQ 240
           LFLRT NVHYCTLRAELLMALHDLE+Q+IIS+DPCHKFTWCLDACIREKNVDIKRSRELQ
Sbjct: 230 LFLRTRNVHYCTLRAELLMALHDLEVQEIISIDPCHKFTWCLDACIREKNVDIKRSRELQ 289

Query: 241 GFLDSIKRGHEQVLGDLSMTLCDPYAINFLATSAMKILHYLINNEALPRENTVLVLLLRM 300
           GFLD+IKRG EQVLGDLSMTLCDPYAINFLATSA+KIL +LINN+ +PR+N +L+LLLRM
Sbjct: 290 GFLDNIKRGQEQVLGDLSMTLCDPYAINFLATSAIKILQHLINNDGIPRDNQILILLLRM 349

Query: 301 LALGLSAWVMIDTQ-------GGNILIEIFRSCFKLYDMVLQFLRTLFLR---------- 343
           LALGLSAWVMID+Q        G ++ +   +   L  MV    R+L  +          
Sbjct: 350 LALGLSAWVMIDSQDFKEPKLDGQVVTKFLPALMSL--MVDDQCRSLHAKLPPDERESAL 407

Query: 344 THNVHYWPVPDAVQAYVQESSVACIISMYYTLHTARSRDRVGLMRVLGVLATSESDRAFD 403
           T   H  P P+AV+AY+QESSVA I+SMYYTLHTARSRDRVG++RVL +L+  + DRA++
Sbjct: 408 TIIEHSGPAPNAVEAYIQESSVASILSMYYTLHTARSRDRVGVLRVLAILSGCKDDRAYE 467

Query: 404 DPFLHFL 410
           DPFLH L
Sbjct: 468 DPFLHSL 474

Source: Drosophila grimshawi

Species: Drosophila grimshawi

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195353509|ref|XP_002043247.1| GM17461 [Drosophila sechellia] gi|194127345|gb|EDW49388.1| GM17461 [Drosophila sechellia]

 Score =  511 bits (1317), Expect = e-142,   Method: Compositional matrix adjust.
 Identities = 275/427 (64%), Positives = 313/427 (73%), Gaps = 71/427 (16%)

Query: 1   MLKKSFPLVRVKQLRPVVMAILRNTTHIDDKYLRVLVRDRELYKDTDTEVKRQIWKDNQS 60
           +L KSFP+VRVK LRPVVMAILRNT HIDDKYL++LVRDRELY DTDTEVKRQIW+DNQS
Sbjct: 103 LLVKSFPVVRVKSLRPVVMAILRNTQHIDDKYLKILVRDRELYADTDTEVKRQIWRDNQS 162

Query: 61  LFGDEVSPLLSQYIREKENILFDHHNLTNLFFFPTPKEFKEPKLDSQVVTKFVPALMSLM 120
           LFGDEVSPLLSQYIREKE+ILFDH NL NLFF PTP                        
Sbjct: 163 LFGDEVSPLLSQYIREKEHILFDHTNLNNLFFHPTP------------------------ 198

Query: 121 VDDQVRALNSKMPPDERESAITIIEHSGRFNRIGEVVQKLAHMIGSSVKLYDMVLQFLRT 180
                                       +  R GEVVQKLA+MIG+SVKLYDMVLQFLRT
Sbjct: 199 ----------------------------KVRRQGEVVQKLANMIGTSVKLYDMVLQFLRT 230

Query: 181 LFLRTHNVHYCTLRAELLMALHDLEIQDIISVDPCHKFTWCLDACIREKNVDIKRSRELQ 240
           LFLRT NVHYCTLRAELLMALHDLE+Q+IIS+DPCHKFTWCLDACIREKNVDIKRSRELQ
Sbjct: 231 LFLRTRNVHYCTLRAELLMALHDLEVQEIISIDPCHKFTWCLDACIREKNVDIKRSRELQ 290

Query: 241 GFLDSIKRGHEQVLGDLSMTLCDPYAINFLATSAMKILHYLINNEALPRENTVLVLLLRM 300
           GFLD+IKRG EQVLGDLSMTLCDPYAINFLATSA+KILH+LINNE +PR+N +L+LLLRM
Sbjct: 291 GFLDNIKRGQEQVLGDLSMTLCDPYAINFLATSAIKILHHLINNEGMPRDNQILILLLRM 350

Query: 301 LALGLSAWVMIDTQ-------GGNILIEIFRSCFKLYDMVLQFLRTLFLR---------- 343
           LALGLSAWVMID+Q          ++ +   +   L  MV    R+L  +          
Sbjct: 351 LALGLSAWVMIDSQDFKEPKLDCQVVTKFLPALMSL--MVDDQCRSLHAKLPPDERESAL 408

Query: 344 THNVHYWPVPDAVQAYVQESSVACIISMYYTLHTARSRDRVGLMRVLGVLATSESDRAFD 403
           T   H  P PDAV+AY+QESSVA I++MYYTLHTAR +DRVG++RVL +L+  + DRA++
Sbjct: 409 TTIEHSGPAPDAVEAYIQESSVASILAMYYTLHTARLKDRVGVLRVLAILSACKDDRAYE 468

Query: 404 DPFLHFL 410
           DPFLH L
Sbjct: 469 DPFLHSL 475

Source: Drosophila sechellia

Species: Drosophila sechellia

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|18857943|ref|NP_572402.1| NELF-B [Drosophila melanogaster] gi|38372398|sp|Q9Y113.1|NELFB_DROME RecName: Full=Negative elongation factor B gi|5052608|gb|AAD38634.1|AF145659_1 BcDNA.GH10333 [Drosophila melanogaster] gi|7290825|gb|AAF46268.1| NELF-B [Drosophila melanogaster] gi|220943838|gb|ACL84462.1| CG32721-PA [synthetic construct] gi|220960322|gb|ACL92697.1| NELF-B-PA [synthetic construct]

 Score =  511 bits (1316), Expect = e-142,   Method: Compositional matrix adjust.
 Identities = 275/427 (64%), Positives = 313/427 (73%), Gaps = 71/427 (16%)

Query: 1   MLKKSFPLVRVKQLRPVVMAILRNTTHIDDKYLRVLVRDRELYKDTDTEVKRQIWKDNQS 60
           +L KSFP+VRVK LRPVVMAILRNT HIDDKYL++LVRDRELY DTDTEVKRQIW+DNQS
Sbjct: 105 LLVKSFPVVRVKSLRPVVMAILRNTQHIDDKYLKILVRDRELYADTDTEVKRQIWRDNQS 164

Query: 61  LFGDEVSPLLSQYIREKENILFDHHNLTNLFFFPTPKEFKEPKLDSQVVTKFVPALMSLM 120
           LFGDEVSPLLSQYIREKE+ILFDH NL NLFF PTP                        
Sbjct: 165 LFGDEVSPLLSQYIREKEHILFDHTNLNNLFFHPTP------------------------ 200

Query: 121 VDDQVRALNSKMPPDERESAITIIEHSGRFNRIGEVVQKLAHMIGSSVKLYDMVLQFLRT 180
                                       +  R GEVVQKLA+MIG+SVKLYDMVLQFLRT
Sbjct: 201 ----------------------------KVRRQGEVVQKLANMIGTSVKLYDMVLQFLRT 232

Query: 181 LFLRTHNVHYCTLRAELLMALHDLEIQDIISVDPCHKFTWCLDACIREKNVDIKRSRELQ 240
           LFLRT NVHYCTLRAELLMALHDLE+Q+IIS+DPCHKFTWCLDACIREKNVDIKRSRELQ
Sbjct: 233 LFLRTRNVHYCTLRAELLMALHDLEVQEIISIDPCHKFTWCLDACIREKNVDIKRSRELQ 292

Query: 241 GFLDSIKRGHEQVLGDLSMTLCDPYAINFLATSAMKILHYLINNEALPRENTVLVLLLRM 300
           GFLD+IKRG EQVLGDLSMTLCDPYAINFLATSA+KILH+LINNE +PR+N +L+LLLRM
Sbjct: 293 GFLDNIKRGQEQVLGDLSMTLCDPYAINFLATSAIKILHHLINNEGMPRDNQILILLLRM 352

Query: 301 LALGLSAWVMIDTQ-------GGNILIEIFRSCFKLYDMVLQFLRTLFLR---------- 343
           LALGLSAWVMID+Q          ++ +   +   L  MV    R+L  +          
Sbjct: 353 LALGLSAWVMIDSQDFKEPKLDCQVVTKFLPALMSL--MVDDQCRSLHAKLPPDERESAL 410

Query: 344 THNVHYWPVPDAVQAYVQESSVACIISMYYTLHTARSRDRVGLMRVLGVLATSESDRAFD 403
           T   H  P PDAV+AY+QESSVA I++MYYTLHTAR +DRVG++RVL +L+  + DRA++
Sbjct: 411 TTIEHSGPAPDAVEAYIQESSVASILAMYYTLHTARLKDRVGVLRVLAILSACKDDRAYE 470

Query: 404 DPFLHFL 410
           DPFLH L
Sbjct: 471 DPFLHSL 477

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|194896912|ref|XP_001978559.1| GG17612 [Drosophila erecta] gi|190650208|gb|EDV47486.1| GG17612 [Drosophila erecta]

 Score =  511 bits (1315), Expect = e-142,   Method: Compositional matrix adjust.
 Identities = 275/427 (64%), Positives = 313/427 (73%), Gaps = 71/427 (16%)

Query: 1   MLKKSFPLVRVKQLRPVVMAILRNTTHIDDKYLRVLVRDRELYKDTDTEVKRQIWKDNQS 60
           +L KSFP+VRVK LRPVVMAILRNT HIDDKYL++LVRDRELY DTDTEVKRQIW+DNQS
Sbjct: 103 LLVKSFPVVRVKSLRPVVMAILRNTQHIDDKYLKILVRDRELYADTDTEVKRQIWRDNQS 162

Query: 61  LFGDEVSPLLSQYIREKENILFDHHNLTNLFFFPTPKEFKEPKLDSQVVTKFVPALMSLM 120
           LFGDEVSPLLSQYIREKE+ILFDH NL NLFF PTP                        
Sbjct: 163 LFGDEVSPLLSQYIREKEHILFDHTNLNNLFFQPTP------------------------ 198

Query: 121 VDDQVRALNSKMPPDERESAITIIEHSGRFNRIGEVVQKLAHMIGSSVKLYDMVLQFLRT 180
                                       +  R GEVVQKLA+MIG+SVKLYDMVLQFLRT
Sbjct: 199 ----------------------------KVRRQGEVVQKLANMIGTSVKLYDMVLQFLRT 230

Query: 181 LFLRTHNVHYCTLRAELLMALHDLEIQDIISVDPCHKFTWCLDACIREKNVDIKRSRELQ 240
           LFLRT NVHYCTLRAELLMALHDLE+Q+IIS+DPCHKFTWCLDACIREKNVDIKRSRELQ
Sbjct: 231 LFLRTRNVHYCTLRAELLMALHDLEVQEIISIDPCHKFTWCLDACIREKNVDIKRSRELQ 290

Query: 241 GFLDSIKRGHEQVLGDLSMTLCDPYAINFLATSAMKILHYLINNEALPRENTVLVLLLRM 300
           GFLD+IKRG EQVLGDLSMTLCDPYAINFLATSA+KILH+LINNE +PR+N +L+LLLRM
Sbjct: 291 GFLDNIKRGQEQVLGDLSMTLCDPYAINFLATSAIKILHHLINNEGMPRDNQILILLLRM 350

Query: 301 LALGLSAWVMIDTQ-------GGNILIEIFRSCFKLYDMVLQFLRTLFLR---------- 343
           LALGLSAWVMID+Q          ++ +   +   L  MV    R+L  +          
Sbjct: 351 LALGLSAWVMIDSQDFKEPKLDCQVVTKFLPALMSL--MVDDQCRSLHAKLPPDERESAL 408

Query: 344 THNVHYWPVPDAVQAYVQESSVACIISMYYTLHTARSRDRVGLMRVLGVLATSESDRAFD 403
           T   H  P PDAV+AY+QESSVA I++MYYTLHTAR +DRVG++RVL +L+  + DRA++
Sbjct: 409 TTIEHSGPAPDAVEAYIQESSVASILAMYYTLHTARLKDRVGVLRVLAILSACKDDRAYE 468

Query: 404 DPFLHFL 410
           DPFLH L
Sbjct: 469 DPFLHSL 475

Source: Drosophila erecta

Species: Drosophila erecta

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195398977|ref|XP_002058097.1| GJ15676 [Drosophila virilis] gi|194150521|gb|EDW66205.1| GJ15676 [Drosophila virilis]

 Score =  508 bits (1309), Expect = e-141,   Method: Compositional matrix adjust.
 Identities = 273/427 (63%), Positives = 313/427 (73%), Gaps = 71/427 (16%)

Query: 1   MLKKSFPLVRVKQLRPVVMAILRNTTHIDDKYLRVLVRDRELYKDTDTEVKRQIWKDNQS 60
           +L KSFP+VRVK LRPVVMAILRNT HIDDKYLR+LVRDRELY DTDTEVKRQIW+DNQS
Sbjct: 101 LLVKSFPVVRVKSLRPVVMAILRNTQHIDDKYLRILVRDRELYADTDTEVKRQIWRDNQS 160

Query: 61  LFGDEVSPLLSQYIREKENILFDHHNLTNLFFFPTPKEFKEPKLDSQVVTKFVPALMSLM 120
           LFGDEVSPLLSQYIREKE+ILFDH NL NLFF PTP                        
Sbjct: 161 LFGDEVSPLLSQYIREKEHILFDHTNLNNLFFQPTP------------------------ 196

Query: 121 VDDQVRALNSKMPPDERESAITIIEHSGRFNRIGEVVQKLAHMIGSSVKLYDMVLQFLRT 180
                                       +  R GEVVQKLA+MIG+SVKLYDMVLQFLRT
Sbjct: 197 ----------------------------KVRRQGEVVQKLANMIGTSVKLYDMVLQFLRT 228

Query: 181 LFLRTHNVHYCTLRAELLMALHDLEIQDIISVDPCHKFTWCLDACIREKNVDIKRSRELQ 240
           LFLRT NVHYCTLRAELLMALHDLE+Q+IIS+DPCHKFTWCLDACIREKNVDIKRSRELQ
Sbjct: 229 LFLRTRNVHYCTLRAELLMALHDLEVQEIISIDPCHKFTWCLDACIREKNVDIKRSRELQ 288

Query: 241 GFLDSIKRGHEQVLGDLSMTLCDPYAINFLATSAMKILHYLINNEALPRENTVLVLLLRM 300
           GFLD+IKRG EQVLGDLSMTLCDPYAINFLA+SA+KIL +LINNE + R+N +L+LLLRM
Sbjct: 289 GFLDNIKRGQEQVLGDLSMTLCDPYAINFLASSAIKILQHLINNEGMARDNQILILLLRM 348

Query: 301 LALGLSAWVMIDTQ-------GGNILIEIFRSCFKLYDMVLQFLRTLFLR---------- 343
           LALGLSAWVMID+Q        G ++ +   +   L  MV    R+L  +          
Sbjct: 349 LALGLSAWVMIDSQDFKEPKLDGQVVTKFLPALMSL--MVDDQCRSLHAKLPPDERESAL 406

Query: 344 THNVHYWPVPDAVQAYVQESSVACIISMYYTLHTARSRDRVGLMRVLGVLATSESDRAFD 403
           T   H  P PDAV+AY+QES+VA I++MYYTLHTAR++DRVG++RVL +L+  + DRA++
Sbjct: 407 TTIEHSGPAPDAVEAYIQESAVASILAMYYTLHTARAKDRVGVLRVLAILSVCKDDRAYE 466

Query: 404 DPFLHFL 410
           DPFLH L
Sbjct: 467 DPFLHSL 473

Source: Drosophila virilis

Species: Drosophila virilis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195041727|ref|XP_001991305.1| GH12128 [Drosophila grimshawi] gi|193901063|gb|EDV99929.1| GH12128 [Drosophila grimshawi]

 Score =  508 bits (1308), Expect = e-141,   Method: Compositional matrix adjust.
 Identities = 272/426 (63%), Positives = 312/426 (73%), Gaps = 69/426 (16%)

Query: 1   MLKKSFPLVRVKQLRPVVMAILRNTTHIDDKYLRVLVRDRELYKDTDTEVKRQIWKDNQS 60
           +L KSFP+VRVK LRPVVMAILRNT HIDDKYLR+LVRDRELY DTDTEVKRQIW+DNQS
Sbjct: 103 LLVKSFPVVRVKSLRPVVMAILRNTQHIDDKYLRILVRDRELYADTDTEVKRQIWRDNQS 162

Query: 61  LFGDEVSPLLSQYIREKENILFDHHNLTNLFFFPTPKEFKEPKLDSQVVTKFVPALMSLM 120
           LFGDEVSPLLSQYIREKE+ILFDH NL NLFF PTP                        
Sbjct: 163 LFGDEVSPLLSQYIREKEHILFDHTNLNNLFFQPTP------------------------ 198

Query: 121 VDDQVRALNSKMPPDERESAITIIEHSGRFNRIGEVVQKLAHMIGSSVKLYDMVLQFLRT 180
                                       +  R GEVVQKLA+MIG+SVKLYDMVLQFLRT
Sbjct: 199 ----------------------------KVRRQGEVVQKLANMIGTSVKLYDMVLQFLRT 230

Query: 181 LFLRTHNVHYCTLRAELLMALHDLEIQDIISVDPCHKFTWCLDACIREKNVDIKRSRELQ 240
           LFLRT NVHYCTLRAELLMALHDLE+Q+IIS+DPCHKFTWCLDACIREKNVDIKRSRELQ
Sbjct: 231 LFLRTRNVHYCTLRAELLMALHDLEVQEIISIDPCHKFTWCLDACIREKNVDIKRSRELQ 290

Query: 241 GFLDSIKRGHEQVLGDLSMTLCDPYAINFLATSAMKILHYLINNEALPRENTVLVLLLRM 300
           GFLD+IKRG EQVLGDLSMTLCDPYAINFLA+SA+KILH+LINNE +PR+N VL+LLLRM
Sbjct: 291 GFLDNIKRGQEQVLGDLSMTLCDPYAINFLASSAIKILHHLINNEGMPRDNQVLILLLRM 350

Query: 301 LALGLSAWVMIDTQG----------------GNILIEIFRSCFKLYDMVLQFLRTLFLRT 344
           LALGLSAWVMID+Q                   + + +   C  L+  +    R   L T
Sbjct: 351 LALGLSAWVMIDSQDFKEPKLDCQVVTKFLPALMSLMVDDQCRGLHGKLPPDERESALTT 410

Query: 345 HNVHYWPVPDAVQAYVQESSVACIISMYYTLHTARSRDRVGLMRVLGVLATSESDRAFDD 404
              H  P PDAV+AY+QES+V+ I++MYYTLH+AR++DRVG++RVL +L+  + DRA++D
Sbjct: 411 IE-HSGPAPDAVEAYIQESAVSSILAMYYTLHSARTKDRVGVLRVLAILSVCKDDRAYED 469

Query: 405 PFLHFL 410
           PFLH L
Sbjct: 470 PFLHSL 475

Source: Drosophila grimshawi

Species: Drosophila grimshawi

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195390466|ref|XP_002053889.1| GJ24126 [Drosophila virilis] gi|194151975|gb|EDW67409.1| GJ24126 [Drosophila virilis]

 Score =  508 bits (1308), Expect = e-141,   Method: Compositional matrix adjust.
 Identities = 274/427 (64%), Positives = 312/427 (73%), Gaps = 71/427 (16%)

Query: 1   MLKKSFPLVRVKQLRPVVMAILRNTTHIDDKYLRVLVRDRELYKDTDTEVKRQIWKDNQS 60
           +L KSFP+VRVK LRPVVMAILRNT HIDDKYLR+L+RDRELY DTDTEVKRQIW+DNQS
Sbjct: 102 LLVKSFPVVRVKYLRPVVMAILRNTQHIDDKYLRILMRDRELYADTDTEVKRQIWRDNQS 161

Query: 61  LFGDEVSPLLSQYIREKENILFDHHNLTNLFFFPTPKEFKEPKLDSQVVTKFVPALMSLM 120
           LFGDEVSPLLSQYIREKE+ILFDH NL NLFF PTP                        
Sbjct: 162 LFGDEVSPLLSQYIREKEHILFDHTNLNNLFFQPTP------------------------ 197

Query: 121 VDDQVRALNSKMPPDERESAITIIEHSGRFNRIGEVVQKLAHMIGSSVKLYDMVLQFLRT 180
                                       +  R GEVVQKLA+MIG+SVKLYDMVLQFLRT
Sbjct: 198 ----------------------------KVRRQGEVVQKLANMIGNSVKLYDMVLQFLRT 229

Query: 181 LFLRTHNVHYCTLRAELLMALHDLEIQDIISVDPCHKFTWCLDACIREKNVDIKRSRELQ 240
           LFLRT NVHYCTLRAELLMALHDLE+Q+IIS+DPCHKFTWCLDACIREKNVDIKRSRELQ
Sbjct: 230 LFLRTRNVHYCTLRAELLMALHDLEVQEIISIDPCHKFTWCLDACIREKNVDIKRSRELQ 289

Query: 241 GFLDSIKRGHEQVLGDLSMTLCDPYAINFLATSAMKILHYLINNEALPRENTVLVLLLRM 300
           GFLD+IKRG EQVLGDLSMTLCDPYAINFLATSA+KIL +LINNE +PR+N +L+LLLRM
Sbjct: 290 GFLDNIKRGQEQVLGDLSMTLCDPYAINFLATSAIKILQHLINNEGMPRDNQILILLLRM 349

Query: 301 LALGLSAWVMIDTQ-------GGNILIEIFRSCFKLYDMVLQFLRTLFLR---------- 343
           LALGLSAWVMID+Q          ++ +   +   L  MV    R+L  +          
Sbjct: 350 LALGLSAWVMIDSQDFKEPKLDNQVVTKFLPALMSL--MVDDQCRSLHAKLPPDERESAL 407

Query: 344 THNVHYWPVPDAVQAYVQESSVACIISMYYTLHTARSRDRVGLMRVLGVLATSESDRAFD 403
           T   H  P PDAV+AY+QESSVA I++MYYTLHTAR +DRVG++RVL +L+  + DRA++
Sbjct: 408 TTIEHSGPAPDAVEAYIQESSVASILAMYYTLHTARVKDRVGVLRVLAILSACKDDRAYE 467

Query: 404 DPFLHFL 410
           DPFLH L
Sbjct: 468 DPFLHSL 474

Source: Drosophila virilis

Species: Drosophila virilis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	443
FB|FBgn0027553	594	NELF-B "NELF-B" [Drosophila me	0.586	0.437	0.648	1.1e-129
UNIPROTKB|F1P5D4	584	COBRA1 "Uncharacterized protei	0.582	0.441	0.515	1.7e-90
UNIPROTKB|Q5ZLK9	577	COBRA1 "Uncharacterized protei	0.582	0.447	0.515	1.7e-90
UNIPROTKB|F1RVX9	580	COBRA1 "Uncharacterized protei	0.582	0.444	0.508	3.9e-89
UNIPROTKB|G5E5S2	580	COBRA1 "Uncharacterized protei	0.582	0.444	0.498	1.5e-87
RGD|1307832	580	Nelfb "negative elongation fac	0.582	0.444	0.491	1.9e-87
UNIPROTKB|E2QX07	580	COBRA1 "Uncharacterized protei	0.580	0.443	0.496	1.9e-87
UNIPROTKB|Q8WX92	580	NELFB "Negative elongation fac	0.582	0.444	0.494	2.4e-87
MGI|MGI:1931035	580	Nelfb "negative elongation fac	0.582	0.444	0.487	3.1e-87
ZFIN|ZDB-GENE-040426-765	594	nelfb "negative elongation fac	0.593	0.442	0.489	1.3e-86

FB|FBgn0027553 NELF-B "NELF-B" [Drosophila melanogaster (taxid:7227)]

 Score = 887 (317.3 bits), Expect = 1.1e-129, Sum P(2) = 1.1e-129
 Identities = 181/279 (64%), Positives = 212/279 (75%)

Query:   149 RFNRIGEVVQKLAHMIGSSVKLYDMVLQFLRTLFLRTHNVHYCTLRAELLMALHDLEIQD 208
             +  R GEVVQKLA+MIG+SVKLYDMVLQFLRTLFLRT NVHYCTLRAELLMALHDLE+Q+
Sbjct:   201 KVRRQGEVVQKLANMIGTSVKLYDMVLQFLRTLFLRTRNVHYCTLRAELLMALHDLEVQE 260

Query:   209 IISVDPCHKFTWCLDACIREKNVDIKRSRELQGFLDSIKRGHEQVLGDLSMTLCDPYAIN 268
             IIS+DPCHKFTWCLDACIREKNVDIKRSRELQGFLD+IKRG EQVLGDLSMTLCDPYAIN
Sbjct:   261 IISIDPCHKFTWCLDACIREKNVDIKRSRELQGFLDNIKRGQEQVLGDLSMTLCDPYAIN 320

Query:   269 FLATSAMKILHYLINNEALPRENTVXXXXXXXXXXXXSAWVMIDTQGGN-------ILIE 321
             FLATSA+KILH+LINNE +PR+N +            SAWVMID+Q          ++ +
Sbjct:   321 FLATSAIKILHHLINNEGMPRDNQILILLLRMLALGLSAWVMIDSQDFKEPKLDCQVVTK 380

Query:   322 IFRSCFKLYDMVLQFLRTLFLR----------THNVHYWPVPDAVQAYVQESSVACIISM 371
                +   L  MV    R+L  +          T   H  P PDAV+AY+QESSVA I++M
Sbjct:   381 FLPALMSL--MVDDQCRSLHAKLPPDERESALTTIEHSGPAPDAVEAYIQESSVASILAM 438

Query:   372 YYTLHTARSRDRVGLMRVLGVLATSESDRAFDDPFLHFL 410
             YYTLHTAR +DRVG++RVL +L+  + DRA++DPFLH L
Sbjct:   439 YYTLHTARLKDRVGVLRVLAILSACKDDRAYEDPFLHSL 477

GO:0003729 "mRNA binding" evidence=ISS

GO:0007070 "negative regulation of transcription from RNA polymerase II promoter during mitosis" evidence=ISS

GO:0017053 "transcriptional repressor complex" evidence=ISS

GO:0032021 "NELF complex" evidence=IPI

GO:0005634 "nucleus" evidence=IDA

GO:0034244 "negative regulation of transcription elongation from RNA polymerase II promoter" evidence=IDA

UNIPROTKB|F1P5D4 COBRA1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 669 (240.6 bits), Expect = 1.7e-90, Sum P(2) = 1.7e-90
 Identities = 146/283 (51%), Positives = 183/283 (64%)

Query:   147 SGRFNRIGEVVQKLAHMIGSSVKLYDMVLQFLRTLFLRTHNVHYCTLRAELLMALHDLEI 206
             S +  R GEVVQKL  MIG +VKLYDMVLQFLRTLFLRT NVHYCTLRAELLM+LHDLEI
Sbjct:   198 SPKARRQGEVVQKLTQMIGKNVKLYDMVLQFLRTLFLRTRNVHYCTLRAELLMSLHDLEI 257

Query:   207 QDIISVDPCHKFTWCLDACIREKNVDIKRSRELQGFLDSIKRGHEQVLGDLSMTLCDPYA 266
              +I +VDPCHKFTWCLDACIREK VD KR+RELQGFLD +K+G EQVLGDLSM LCDP+A
Sbjct:   258 SEICTVDPCHKFTWCLDACIREKFVDNKRARELQGFLDGVKKGQEQVLGDLSMILCDPFA 317

Query:   267 INFLATSAMKILHYLINNEALPRENTVXXXXXXXXXXXXSAWVMIDTQGGNILIEIFRSC 326
             IN LA S ++ L  L+  + LPRE+               AW MID+Q       +F+  
Sbjct:   318 INTLALSTIRHLQDLVGQDTLPRESPDLLLLLRMLSLGQGAWDMIDSQ-------VFKEP 370

Query:   327 FKLYDMVLQFLRTL--FL---RTHNVHY-----------WP--VPDAVQAYVQESSVACI 368
                 +++ +FL  L  F+    T NV             +P  +P+A   ++QE+ +AC 
Sbjct:   371 KMEAELITKFLPMLMSFVVDDHTFNVDQKLPSEEKGPIPYPSTIPEAFTKFLQENRIACE 430

Query:   369 ISMYYTLHTARSRDRVGLMRVLGVLATSESDRAFDDPFLHFLS 411
             I +YY LH  + R++   +R+L  L  + SD AF D FLH L+
Sbjct:   431 IGLYYILHITKQRNKNAFLRLLPALVETFSDLAFSDIFLHLLT 473

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0032021 "NELF complex" evidence=IEA

UNIPROTKB|Q5ZLK9 COBRA1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 669 (240.6 bits), Expect = 1.7e-90, Sum P(2) = 1.7e-90
 Identities = 146/283 (51%), Positives = 183/283 (64%)

Query:   147 SGRFNRIGEVVQKLAHMIGSSVKLYDMVLQFLRTLFLRTHNVHYCTLRAELLMALHDLEI 206
             S +  R GEVVQKL  MIG +VKLYDMVLQFLRTLFLRT NVHYCTLRAELLM+LHDLEI
Sbjct:   191 SPKARRQGEVVQKLTQMIGKNVKLYDMVLQFLRTLFLRTRNVHYCTLRAELLMSLHDLEI 250

Query:   207 QDIISVDPCHKFTWCLDACIREKNVDIKRSRELQGFLDSIKRGHEQVLGDLSMTLCDPYA 266
              +I +VDPCHKFTWCLDACIREK VD KR+RELQGFLD +K+G EQVLGDLSM LCDP+A
Sbjct:   251 SEICTVDPCHKFTWCLDACIREKFVDNKRARELQGFLDGVKKGQEQVLGDLSMILCDPFA 310

Query:   267 INFLATSAMKILHYLINNEALPRENTVXXXXXXXXXXXXSAWVMIDTQGGNILIEIFRSC 326
             IN LA S ++ L  L+  + LPRE+               AW MID+Q       +F+  
Sbjct:   311 INTLALSTIRHLQDLVGQDTLPRESPDLLLLLRMLSLGQGAWDMIDSQ-------VFKEP 363

Query:   327 FKLYDMVLQFLRTL--FL---RTHNVHY-----------WP--VPDAVQAYVQESSVACI 368
                 +++ +FL  L  F+    T NV             +P  +P+A   ++QE+ +AC 
Sbjct:   364 KMEAELITKFLPMLMSFVVDDHTFNVDQKLPSEEKGPIPYPSTIPEAFTKFLQENRIACE 423

Query:   369 ISMYYTLHTARSRDRVGLMRVLGVLATSESDRAFDDPFLHFLS 411
             I +YY LH  + R++   +R+L  L  + SD AF D FLH L+
Sbjct:   424 IGLYYILHITKQRNKNAFLRLLPALVETFSDLAFSDIFLHLLT 466

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0032021 "NELF complex" evidence=IEA

UNIPROTKB|F1RVX9 COBRA1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 661 (237.7 bits), Expect = 3.9e-89, Sum P(2) = 3.9e-89
 Identities = 144/283 (50%), Positives = 183/283 (64%)

Query:   147 SGRFNRIGEVVQKLAHMIGSSVKLYDMVLQFLRTLFLRTHNVHYCTLRAELLMALHDLEI 206
             S +  R GEVVQKL  M+G +VKLYDMVLQFLRTLFLRT NVHYCTLRAELLM+LHDL++
Sbjct:   191 SPKTRRQGEVVQKLTRMVGRNVKLYDMVLQFLRTLFLRTRNVHYCTLRAELLMSLHDLDV 250

Query:   207 QDIISVDPCHKFTWCLDACIREKNVDIKRSRELQGFLDSIKRGHEQVLGDLSMTLCDPYA 266
              DI SVDPCHKFTWCLDACIRE+ VD KR+RELQGFLD +K+G EQVLGDLSM LCDP+A
Sbjct:   251 GDICSVDPCHKFTWCLDACIRERFVDGKRARELQGFLDGVKKGQEQVLGDLSMILCDPFA 310

Query:   267 INFLATSAMKILHYLINNEALPRENTVXXXXXXXXXXXXSAWVMIDTQGGNILIEIFRSC 326
             IN L+ S ++ L  L+  E LPRE+               AW MID+Q       +F+  
Sbjct:   311 INTLSLSTVRHLQELVGQEMLPRESPDLLLLLRLLALGQGAWDMIDSQ-------VFKEP 363

Query:   327 FKLYDMVLQFLRTL--FL---RTHNVHY-----------WP--VPDAVQAYVQESSVACI 368
                 ++V +FL TL  F+    T NV             +P  +P++   ++QE  +AC 
Sbjct:   364 KMEVELVTRFLPTLMSFVVDDHTFNVDQKLPAEEKAPVTYPSTLPESFTKFLQEQRMACE 423

Query:   369 ISMYYTLHTARSRDRVGLMRVLGVLATSESDRAFDDPFLHFLS 411
             + +YY LH  + R++  L+R+L  L  +  D AF D FLH L+
Sbjct:   424 VGLYYVLHITKQRNKNALLRLLPGLVETFGDLAFSDIFLHLLT 466

GO:0032021 "NELF complex" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=IEA

UNIPROTKB|G5E5S2 COBRA1 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 651 (234.2 bits), Expect = 1.5e-87, Sum P(2) = 1.5e-87
 Identities = 141/283 (49%), Positives = 182/283 (64%)

Query:   147 SGRFNRIGEVVQKLAHMIGSSVKLYDMVLQFLRTLFLRTHNVHYCTLRAELLMALHDLEI 206
             S +  R GEVVQ+L  M+G +VKLYDMVLQFLRTLFLRT NVHYCTLRAELLM+LHDL++
Sbjct:   191 SPKTRRQGEVVQRLTRMVGRNVKLYDMVLQFLRTLFLRTRNVHYCTLRAELLMSLHDLDV 250

Query:   207 QDIISVDPCHKFTWCLDACIREKNVDIKRSRELQGFLDSIKRGHEQVLGDLSMTLCDPYA 266
              DI SVDPCHKFTWCLDACIRE+ VD KR+RELQGFLD +K+G EQVLGDLSM LCDP+A
Sbjct:   251 GDICSVDPCHKFTWCLDACIRERFVDSKRARELQGFLDGVKKGQEQVLGDLSMILCDPFA 310

Query:   267 INFLATSAMKILHYLINNEALPRENTVXXXXXXXXXXXXSAWVMIDTQGGNILIEIFRSC 326
             IN L+ S ++ L  L+  E LPR++               AW MID+Q       +F+  
Sbjct:   311 INTLSLSTVRHLQELVGQEVLPRDSPDLLLLLRLLALGQGAWDMIDSQ-------VFKEP 363

Query:   327 FKLYDMVLQFLRTL--FL---RTHNVHY-----------WP--VPDAVQAYVQESSVACI 368
                 ++V +FL  L  F+    T NV             +P  +P++   ++QE  +AC 
Sbjct:   364 KMEVELVTRFLPMLMSFVVDDHTFNVDQKLPAEEKAPVTYPNTLPESFTKFLQEQRMACE 423

Query:   369 ISMYYTLHTARSRDRVGLMRVLGVLATSESDRAFDDPFLHFLS 411
             + +YY LH  + R++  L+R+L  L  +  D AF D FLH L+
Sbjct:   424 VGLYYVLHITKQRNKNALLRLLPGLVETFGDLAFGDIFLHLLT 466

GO:0032021 "NELF complex" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=IEA

RGD|1307832 Nelfb "negative elongation factor complex member B" [Rattus norvegicus (taxid:10116)]

 Score = 649 (233.5 bits), Expect = 1.9e-87, Sum P(2) = 1.9e-87
 Identities = 139/283 (49%), Positives = 183/283 (64%)

Query:   147 SGRFNRIGEVVQKLAHMIGSSVKLYDMVLQFLRTLFLRTHNVHYCTLRAELLMALHDLEI 206
             S +  R GEVVQKL  M+G +VKLYDMVLQFLRTLFLRT NVHYCTLRAELLM+LHDL++
Sbjct:   191 SPKTRRQGEVVQKLTQMVGKNVKLYDMVLQFLRTLFLRTRNVHYCTLRAELLMSLHDLDV 250

Query:   207 QDIISVDPCHKFTWCLDACIREKNVDIKRSRELQGFLDSIKRGHEQVLGDLSMTLCDPYA 266
              DI +VDPCHKFTWCLDACIRE+ VD KR+RELQGFLD +K+G EQVLGDLSM LCDP+A
Sbjct:   251 SDICTVDPCHKFTWCLDACIRERFVDSKRARELQGFLDGVKKGQEQVLGDLSMILCDPFA 310

Query:   267 INFLATSAMKILHYLINNEALPRENTVXXXXXXXXXXXXSAWVMIDTQGGNILIEIFRSC 326
             IN L+ S ++ L  L++ E LPR++               AW +ID+Q       +F+  
Sbjct:   311 INTLSLSTIRHLQELVSQETLPRDSPDLLLLLRLLALGQGAWDLIDSQ-------VFKEP 363

Query:   327 FKLYDMVLQFLRTL--FL---RTHNVHY-----------WP--VPDAVQAYVQESSVACI 368
                 +++ +FL  L  F+    T NV             +P  +P++   ++QE  +AC 
Sbjct:   364 KMEAELITKFLPMLMSFVVDDYTFNVDQKLPAEEKAPVTYPNTLPESFTKFLQEQRMACE 423

Query:   369 ISMYYTLHTARSRDRVGLMRVLGVLATSESDRAFDDPFLHFLS 411
             + +YY LH  + R++  L+R+L  L  +  D AF D FLH L+
Sbjct:   424 VGLYYVLHITKQRNKNALLRLLPGLVETFGDLAFSDIFLHLLT 466

GO:0003746 "translation elongation factor activity" evidence=IEA

GO:0005634 "nucleus" evidence=ISO

GO:0005737 "cytoplasm" evidence=IEA;ISO

GO:0032021 "NELF complex" evidence=IEA;ISO

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=IEA

GO:0005730 "nucleolus" evidence=ISO

UNIPROTKB|E2QX07 COBRA1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 649 (233.5 bits), Expect = 1.9e-87, Sum P(2) = 1.9e-87
 Identities = 140/282 (49%), Positives = 181/282 (64%)

Query:   147 SGRFNRIGEVVQKLAHMIGSSVKLYDMVLQFLRTLFLRTHNVHYCTLRAELLMALHDLEI 206
             S +  R GEVVQKL  M+G +VKLYDMVLQFLRTLFLRT NVHYCTLRAELLM+LH+L++
Sbjct:   191 SPKARRQGEVVQKLTQMVGKNVKLYDMVLQFLRTLFLRTRNVHYCTLRAELLMSLHELDV 250

Query:   207 QDIISVDPCHKFTWCLDACIREKNVDIKRSRELQGFLDSIKRGHEQVLGDLSMTLCDPYA 266
              DI SVDPCHKFTWCLDACIRE+ VD KR+RELQGFLD +K+G EQVLGDLSM LCDP+A
Sbjct:   251 GDICSVDPCHKFTWCLDACIRERFVDSKRARELQGFLDGVKKGQEQVLGDLSMILCDPFA 310

Query:   267 INFLATSAMKILHYLINNEALPRENTVXXXXXXXXXXXXSAWVMIDTQGGNILIEIFRSC 326
             IN L+ S ++ L  L+  E LPR++               AW MID+Q       +F+  
Sbjct:   311 INTLSLSTVRHLQELVGQETLPRDSPDLLLLLRLLALGQGAWDMIDSQ-------VFKEP 363

Query:   327 FKLYDMVLQFLRTL--FL---RTHNVHY-----------WP--VPDAVQAYVQESSVACI 368
                 +++ +FL  L  F+    T NV             +P  +P++   ++QE  +AC 
Sbjct:   364 KMEVELITRFLPMLMSFVVDDHTFNVDQKLPAEEKAPVTYPNTLPESFTKFLQEQRMACE 423

Query:   369 ISMYYTLHTARSRDRVGLMRVLGVLATSESDRAFDDPFLHFL 410
             + +YY LH  + R++  L+R+L  L  +  D AF D FLH L
Sbjct:   424 VGLYYVLHITKQRNKNALLRLLPGLVETFGDLAFGDIFLHLL 465

GO:0032021 "NELF complex" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=IEA

UNIPROTKB|Q8WX92 NELFB "Negative elongation factor B" [Homo sapiens (taxid:9606)]

 Score = 648 (233.2 bits), Expect = 2.4e-87, Sum P(2) = 2.4e-87
 Identities = 140/283 (49%), Positives = 182/283 (64%)

Query:   147 SGRFNRIGEVVQKLAHMIGSSVKLYDMVLQFLRTLFLRTHNVHYCTLRAELLMALHDLEI 206
             S +  R GEVVQ+L  M+G +VKLYDMVLQFLRTLFLRT NVHYCTLRAELLM+LHDL++
Sbjct:   191 SPKTRRQGEVVQRLTRMVGKNVKLYDMVLQFLRTLFLRTRNVHYCTLRAELLMSLHDLDV 250

Query:   207 QDIISVDPCHKFTWCLDACIREKNVDIKRSRELQGFLDSIKRGHEQVLGDLSMTLCDPYA 266
              +I +VDPCHKFTWCLDACIRE+ VD KR+RELQGFLD +K+G EQVLGDLSM LCDP+A
Sbjct:   251 GEICTVDPCHKFTWCLDACIRERFVDSKRARELQGFLDGVKKGQEQVLGDLSMILCDPFA 310

Query:   267 INFLATSAMKILHYLINNEALPRENTVXXXXXXXXXXXXSAWVMIDTQGGNILIEIFRSC 326
             IN LA S ++ L  L+  E LPR++               AW MID+Q       +F+  
Sbjct:   311 INTLALSTVRHLQELVGQETLPRDSPDLLLLLRLLALGQGAWDMIDSQ-------VFKEP 363

Query:   327 FKLYDMVLQFLRTL--FL---RTHNVHY-----------WP--VPDAVQAYVQESSVACI 368
                 +++ +FL  L  FL    T NV             +P  +P++   ++QE  +AC 
Sbjct:   364 KMEVELITRFLPMLMSFLVDDYTFNVDQKLPAEEKAPVSYPNTLPESFTKFLQEQRMACE 423

Query:   369 ISMYYTLHTARSRDRVGLMRVLGVLATSESDRAFDDPFLHFLS 411
             + +YY LH  + R++  L+R+L  L  +  D AF D FLH L+
Sbjct:   424 VGLYYVLHITKQRNKNALLRLLPGLVETFGDLAFGDIFLHLLT 466

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=IEA

GO:0032021 "NELF complex" evidence=IDA

GO:0005654 "nucleoplasm" evidence=TAS

GO:0006366 "transcription from RNA polymerase II promoter" evidence=TAS

GO:0006368 "transcription elongation from RNA polymerase II promoter" evidence=TAS

GO:0010467 "gene expression" evidence=TAS

GO:0016032 "viral reproduction" evidence=TAS

GO:0050434 "positive regulation of viral transcription" evidence=TAS

GO:0005737 "cytoplasm" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

MGI|MGI:1931035 Nelfb "negative elongation factor complex member B, Cobra1" [Mus musculus (taxid:10090)]

 Score = 647 (232.8 bits), Expect = 3.1e-87, Sum P(2) = 3.1e-87
 Identities = 138/283 (48%), Positives = 181/283 (63%)

Query:   147 SGRFNRIGEVVQKLAHMIGSSVKLYDMVLQFLRTLFLRTHNVHYCTLRAELLMALHDLEI 206
             S +  R GEVVQKL  M+G +VKLYDMVLQFLRTLFLRT NVHYCTLRAELLM+LHDL++
Sbjct:   191 SPKTRRQGEVVQKLTQMVGKNVKLYDMVLQFLRTLFLRTRNVHYCTLRAELLMSLHDLDV 250

Query:   207 QDIISVDPCHKFTWCLDACIREKNVDIKRSRELQGFLDSIKRGHEQVLGDLSMTLCDPYA 266
              DI +VDPCHKFTWCLDACIRE+ VD KR+RELQGFLD +K+G EQVLGDLSM LCDP+A
Sbjct:   251 SDICTVDPCHKFTWCLDACIRERFVDSKRARELQGFLDGVKKGQEQVLGDLSMILCDPFA 310

Query:   267 INFLATSAMKILHYLINNEALPRENTVXXXXXXXXXXXXSAWVMIDTQGGNILIEIFRSC 326
             IN L+ S ++ L  L++ E LPR++               AW +ID+Q       +F+  
Sbjct:   311 INTLSLSTIRHLQELVSQETLPRDSPDLLLLLRLLALGQGAWDLIDSQ-------VFKEP 363

Query:   327 FKLYDMVLQFLRTLFLR-----THNVHY-----------WP--VPDAVQAYVQESSVACI 368
                 +++ +FL  L        T NV             +P  +P++   ++QE  +AC 
Sbjct:   364 KMEAELITKFLPMLMSLVVDDFTFNVDQKLPAEEKASVTYPNTLPESFTKFLQEQRMACE 423

Query:   369 ISMYYTLHTARSRDRVGLMRVLGVLATSESDRAFDDPFLHFLS 411
             + +YY LH  + R++  L+R+L  L  +  D AF D FLH L+
Sbjct:   424 VGLYYVLHITKQRNKNALLRLLPGLVETFGDLAFSDIFLHLLT 466

GO:0005634 "nucleus" evidence=IEA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0032021 "NELF complex" evidence=ISO

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=IEA

ZFIN|ZDB-GENE-040426-765 nelfb "negative elongation factor complex member B" [Danio rerio (taxid:7955)]

 Score = 638 (229.6 bits), Expect = 1.3e-86, Sum P(2) = 1.3e-86
 Identities = 139/284 (48%), Positives = 174/284 (61%)

Query:   147 SGRFNRIGEVVQKLAHMIGSSVKLYDMVLQFLRTLFLRTHNVHYCTLRAELLMALHDLEI 206
             S +  R GEVV KL  MIG +VKLYDMVLQFLRTLFLRT NVHYCTLRAELLM+LHDL+I
Sbjct:   190 SPKTRRQGEVVLKLTQMIGKNVKLYDMVLQFLRTLFLRTRNVHYCTLRAELLMSLHDLDI 249

Query:   207 QDIISVDPCHKFTWCLDACIREKNVDIKRSRELQGFLDSIKRGHEQVLGDLSMTLCDPYA 266
              +I SVDPCHKF+WCLDACIREK VD KR+RELQGFLD +K+G EQVLGDLSM LCDP+A
Sbjct:   250 SEICSVDPCHKFSWCLDACIREKFVDAKRARELQGFLDGVKKGQEQVLGDLSMILCDPFA 309

Query:   267 INFLATSAMKILHYLINNEALPRENTVXXXXXXXXXXXXSAWVMIDTQ---------GGN 317
              N L  S ++ L  L++ +ALPR++               AW MID+Q         GG 
Sbjct:   310 CNTLVLSTVRNLQELLSKDALPRDSPDLSPPAAVLSLGQGAWDMIDSQVFKEPRMDLGGG 369

Query:   318 ILIEIFRSC--------FKLYDMVLQFLRTLFLRTHNVHYWPVPDAVQAYVQESSVACII 369
               +     C        F       +    L  RT       +P+    ++ ++ VAC I
Sbjct:   370 DTLSACHECHSGGTNSTFNGEPKPGRAKEKLLSRTPTT----LPETFSRFILDNRVACEI 425

Query:   370 SMYYTLHTARSRDRVGLMRVLGVLATSESDRAFDDPFLHFLSSY 413
              +YY LH A+ R++  L R+L  L  + +D AF D FLH L+ +
Sbjct:   426 GLYYALHIAKLRNKNALQRLLPALVDTYNDMAFGDIFLHLLTGH 469

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0003674 "molecular_function" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q8C4Y3	NELFB_MOUSE	No assigned EC number	0.4524	0.7968	0.6086	yes	N/A
Q8WX92	NELFB_HUMAN	No assigned EC number	0.4570	0.7968	0.6086	yes	N/A
Q9Y113	NELFB_DROME	No assigned EC number	0.6440	0.8036	0.5993	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	443
pfam06209	475	pfam06209, COBRA1, Cofactor of BRCA1 (COBRA1)	1e-170

>gnl|CDD|218940 pfam06209, COBRA1, Cofactor of BRCA1 (COBRA1)

 Score =  487 bits (1255), Expect = e-170
 Identities = 201/423 (47%), Positives = 257/423 (60%), Gaps = 80/423 (18%)

Query: 11  VKQLRPVVMAILRNTTHIDDKYLRVLVRDRELYKDTDTEVKRQIWKDNQSLFGDEVSPLL 70
           +  L+PVVM ++++   + +K L++++ D+ELYKD   EVKRQIW+DNQ+LFGDEVSPLL
Sbjct: 1   MPSLQPVVMCVMKHLPKVPEKKLKIVMADKELYKDCAVEVKRQIWQDNQALFGDEVSPLL 60

Query: 71  SQYIREKENILFDHH-NLTNLFFFPTPKEFKEPKLDSQVVTKFVPALMSLMVDDQVRALN 129
            QYI EKE  LF    ++ + FF P                                   
Sbjct: 61  KQYIVEKEAALFSTDLSVLHNFFSP----------------------------------- 85

Query: 130 SKMPPDERESAITIIEHSGRFNRIGEVVQKLAHMIGSSVKLYDMVLQFLRTLFLRTHNVH 189
               P  R              R GEVVQKL  MIG +VKLYDMVLQFLRTLFLRT NVH
Sbjct: 86  ---SPKTR--------------RQGEVVQKLTQMIGKNVKLYDMVLQFLRTLFLRTRNVH 128

Query: 190 YCTLRAELLMALHDLEIQDIISVDPCHKFTWCLDACIREKNVDIKRSRELQGFLDSIKRG 249
           YCTLRAELLM+LHDL++ +I SVDPCHKFTWCLDACIREK VD KR+RELQGFLD +K+G
Sbjct: 129 YCTLRAELLMSLHDLDVSEICSVDPCHKFTWCLDACIREKFVDGKRARELQGFLDGVKKG 188

Query: 250 HEQVLGDLSMTLCDPYAINFLATSAMKILHYLINNEALPRENTVLVLLLRMLALGLSAWV 309
            EQVLGDLSM LCDP+AIN LA S ++ L  LIN + LPR++  L+LLLRML+LG  AW 
Sbjct: 189 QEQVLGDLSMILCDPFAINTLALSTIRNLQELINQDTLPRDSPDLLLLLRMLSLGQGAWD 248

Query: 310 MIDTQGGNILIEIFRSCFKLYDMVLQFLRTLFL-----RTHNVHY--------------- 349
           MID+Q       +F+      ++V +FL  L        T N+                 
Sbjct: 249 MIDSQ-------VFKEPRLDDELVTKFLPALMSLMVDDSTFNLEQKLPEDEKESVLYSDP 301

Query: 350 WPVPDAVQAYVQESSVACIISMYYTLHTARSRDRVGLMRVLGVLATSESDRAFDDPFLHF 409
             +PDA   ++QE+ VAC + +YYTLH A+ R++  L+R+L  L ++ +D AF D FLH 
Sbjct: 302 TTLPDAFTRFLQENRVACELGLYYTLHIAKQRNKNALLRLLPALVSTYNDMAFGDIFLHL 361

Query: 410 LSS 412
           L+ 
Sbjct: 362 LTG 364

This family consists of several cofactor of BRCA1 (COBRA1) like proteins. It is thought that COBRA1 along with BRCA1 is involved in chromatin unfolding. COBRA1 is recruited to the chromosome site by the first BRCT repeat of BRCA1, and is itself sufficient to induce chromatin unfolding. BRCA1 mutations that enhance chromatin unfolding also increase its affinity for, and recruitment of, COBRA1. It is thought that that reorganisation of higher levels of chromatin structure is an important regulated step in BRCA1-mediated nuclear functions. Length = 475

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	443
PF06209	474	COBRA1: Cofactor of BRCA1 (COBRA1); InterPro: IPR0	100.0
PF06209	474	COBRA1: Cofactor of BRCA1 (COBRA1); InterPro: IPR0	95.97

>PF06209 COBRA1: Cofactor of BRCA1 (COBRA1); InterPro: IPR010405 This family consists of several cofactor of BRCA1 (COBRA1) like proteins

Probab=100.00  E-value=1e-128  Score=1003.12  Aligned_cols=379  Identities=56%  Similarity=0.883  Sum_probs=370.9

Q ss_pred             cCchhHHHHHHHhcCCCCcHHHHHHHhhCHhHhhhcCHHHHHHHHhcChhhHhhhhhHHHHHHHHHhhhcccc-cccccc
Q psy4191          11 VKQLRPVVMAILRNTTHIDDKYLRVLVRDRELYKDTDTEVKRQIWKDNQSLFGDEVSPLLSQYIREKENILFD-HHNLTN   89 (443)
Q Consensus        11 ~~eLrpvvm~vL~~~~~iP~~yL~~L~~d~~Ly~~~pveVkRQIW~~n~~lF~~~v~Pll~~Yi~e~~~~l~~-~~~~~~   89 (443)
                      +|+||||||+||+++|+||++||++|++|++||++||+|||||||+.|+++|+|||+|+++||++||++++++ +.+.++
T Consensus         1 ~~~lrpvvm~vl~~~~~vp~~~L~~l~~d~~Ly~~~~~~VkRqIW~~~~~lF~~~v~Pll~~Y~~~~~~~l~~~~~~~~~   80 (474)
T PF06209_consen    1 VPELRPVVMAVLKHLPKVPEKYLKKLVADPELYDDCPLEVKRQIWQDNQSLFGDEVSPLLNQYIEEKETILFSADMSVSN   80 (474)
T ss_pred             CcchhhHHHHHHhhCCCCCHHHHHHHhcCHHHHHhCCHHHHHHHHHcCHHHHHHHHHHHHHHHHHHHHHHhccccccccc
Confidence            6899999999999999999999999999999999999999999999999999999999999999999999999 788889


Q ss_pred             ccccCCCcCCCCCCcccchhhccchhhhhhhhhhHHhhhcCCCCcchhhhhHHHHhccCccccchHHHHHHHHHhcCCHH
Q psy4191          90 LFFFPTPKEFKEPKLDSQVVTKFVPALMSLMVDDQVRALNSKMPPDERESAITIIEHSGRFNRIGEVVQKLAHMIGSSVK  169 (443)
Q Consensus        90 ~f~~~s~~~~kep~~ds~~~s~~vP~~~~~~~d~~~~a~~~~~p~~~R~~~~~~i~~sg~~Rr~~~~lqkL~~MiG~s~~  169 (443)
                      +||+++|+.                                                    |||++++|||++|||+|++
T Consensus        81 ~f~~~~~k~----------------------------------------------------rr~~~~vq~l~~miG~~~~  108 (474)
T PF06209_consen   81 SFFSPSPKR----------------------------------------------------RRQGEVVQKLVQMIGKSVK  108 (474)
T ss_pred             cccCCCHHH----------------------------------------------------HhccHHHHHHHHHhCCCHH
Confidence            999998877                                                    9999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhcCCccchhhHHHHHHHhcccccccccccCccchhhhhHHHHhhhcccchHhHHHHHHHHHHhhcC
Q psy4191         170 LYDMVLQFLRTLFLRTHNVHYCTLRAELLMALHDLEIQDIISVDPCHKFTWCLDACIREKNVDIKRSRELQGFLDSIKRG  249 (443)
Q Consensus       170 LY~~~L~~lR~~f~~t~nv~yCtLR~eLLMalhd~~i~~i~~~DPcHKfaWcLDAciRd~~lD~kr~~ELq~~L~~~Krg  249 (443)
                      ||+|++++||++|++|+|+||||||+|||||+||++++|||++||||||||||||||||+.||+||++|||+||+++|+|
T Consensus       109 LY~~~l~~lr~~f~~~~~~~yc~lR~~llm~~hd~~~~~i~~~D~ch~faw~ldac~rd~~id~~~~~el~~~l~~~~~~  188 (474)
T PF06209_consen  109 LYDMVLQFLRTLFLRTGNVHYCSLRAELLMALHDAEIDEICSSDPCHKFAWCLDACIRDKNIDGRRIRELQGFLESIKKG  188 (474)
T ss_pred             HHHHHHHHHHHHHHhccchHHHHHHHHHHHHhhhcchhhhhcCCchHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHhcC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CccccchhhhhhcChhHHHHHHHHHHHHHHHHhcccCCCCcchhHHHHHHHHhcccchhhhhhccchh------HHHHHH
Q psy4191         250 HEQVLGDLSMTLCDPYAINFLATSAMKILHYLINNEALPRENTVLVLLLRMLALGLSAWVMIDTQGGN------ILIEIF  323 (443)
Q Consensus       250 ~~~vLgDlaMil~DP~vi~~L~~s~ik~L~~~v~~~~LPrd~~~l~~LlrLL~LG~~a~~mi~~q~f~------~ii~~F  323 (443)
                      ++|||||+|||||||+|+||||++++|+|+++|++++||||+++|.+|+|||+||+|||+||++|+|+      +|+++|
T Consensus       189 ~eqvLGDlaMiL~DP~a~n~L~~s~vk~L~~lv~~~~LPRd~~~L~~LlrLL~LG~~A~~Mi~~Q~fkeP~ld~~ivtkF  268 (474)
T PF06209_consen  189 QEQVLGDLAMILCDPFAINTLCRSIVKQLQELVNREALPRDSPDLRLLLRLLSLGLSAWDMIRSQDFKEPKLDKEIVTKF  268 (474)
T ss_pred             CCCcchhHHHHhcCHHHHHHHHHHHHHHHHHHHhccCCCCCChhhHHHHHHHHhhcchHHHHHhcccCCCCcchHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999998      999999


Q ss_pred             HHHHhhhhhHHHHHhhhccccc--------ccCCCCCcHHHHHHHHhchhHHHHHHHHHHHHhhcCChhHHHHHHHhhhc
Q psy4191         324 RSCFKLYDMVLQFLRTLFLRTH--------NVHYWPVPDAVQAYVQESSVACIISMYYTLHTARSRDRVGLMRVLGVLAT  395 (443)
Q Consensus       324 lP~l~~~~mv~d~~r~~~~kl~--------~~~~~~~~~~~~~~i~~~~va~~l~~~Y~L~~~~~~~~~~l~r~L~~l~~  395 (443)
                      ||+++ ++||||++|++++|++        ...+++++++|.+||++|++|+++++||+||++++||+++++|+||++++
T Consensus       269 LP~L~-slmvdd~~r~~~~kl~~de~~~a~~~~~~~l~~~f~~~l~~~~va~~l~l~YiLh~~~~rd~~al~rlLp~L~~  347 (474)
T PF06209_consen  269 LPLLM-SLMVDDQLRDVDAKLPDDERAEAITSISSTLPDAFEAYLRESRVARKLALYYILHLLKKRDKNALMRLLPALVE  347 (474)
T ss_pred             HHHHH-HHHHHHHHHHHhccCCccccccccccCCCccHHHHHHHHHhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHhhh
Confidence            99999 9999999999999985        12378999999999999999999999999999999999999999999999


Q ss_pred             ccCCCCCCChhHHHHHHHHhhccc---hhhHHHHHHHhhcccCCCcccCC
Q psy4191         396 SESDRAFDDPFLHFLSSYEISLWT---SLNWQRVWLRHYFQTSPKRNFNV  442 (443)
Q Consensus       396 ~~~~~~~~d~flh~l~~~l~~l~~---~e~f~~~~f~~ffl~~~~~~~~v  442 (443)
                      +++|.+|+|||+|+|+++|+.++|   +|+||++||||||++|++++|||
T Consensus       348 ~~~d~~~~d~FlH~Lv~~L~~l~~ef~~e~fc~~vfD~FlL~~~~~~~~v  397 (474)
T PF06209_consen  348 CDDDSAFEDIFLHLLVSSLVQLSDEFSTEDFCTIVFDEFLLAGLSSKENV  397 (474)
T ss_pred             hcccccccchHHHHHHHHHHhhHHhcCChhHHHHHHHHHHHHhcccchHH
Confidence            999999999999999999999999   99999999999999999999997

It is thought that COBRA1 along with BRCA1 is involved in chromatin unfolding. COBRA1 is recruited to the chromosome site by the first BRCT repeat of BRCA1, and is itself sufficient to induce chromatin unfolding. BRCA1 mutations that enhance chromatin unfolding also increase its affinity for, and recruitment of, COBRA1. It is thought that that reorganisation of higher levels of chromatin structure is an important regulated step in BRCA1-mediated nuclear functions [].; GO: 0045892 negative regulation of transcription, DNA-dependent, 0005634 nucleus

>PF06209 COBRA1: Cofactor of BRCA1 (COBRA1); InterPro: IPR010405 This family consists of several cofactor of BRCA1 (COBRA1) like proteins

Probab=95.97  E-value=0.0047  Score=66.25  Aligned_cols=54  Identities=59%  Similarity=0.951  Sum_probs=48.5

Q ss_pred             CCcCCCCCCcccchhhccchhhhhhhhhhHHhhhcCCCCcchhhhhHHHHhccCcc
Q psy4191          95 TPKEFKEPKLDSQVVTKFVPALMSLMVDDQVRALNSKMPPDERESAITIIEHSGRF  150 (443)
Q Consensus        95 s~~~~kep~~ds~~~s~~vP~~~~~~~d~~~~a~~~~~p~~~R~~~~~~i~~sg~~  150 (443)
                      ..|.||+|+.|....++|+|.+|+.|+|++.+..++++|.++|+++.+.+  +|+.
T Consensus       251 ~~Q~fkeP~ld~~ivtkFLP~L~slmvdd~~r~~~~kl~~de~~~a~~~~--~~~l  304 (474)
T PF06209_consen  251 RSQDFKEPKLDKEIVTKFLPLLMSLMVDDQLRDVDAKLPDDERAEAITSI--SSTL  304 (474)
T ss_pred             HhcccCCCCcchHHHHHHHHHHHHHHHHHHHHHHhccCCccccccccccC--CCcc
Confidence            67899999999999999999999999999999999999999998877655  4444

It is thought that COBRA1 along with BRCA1 is involved in chromatin unfolding. COBRA1 is recruited to the chromosome site by the first BRCT repeat of BRCA1, and is itself sufficient to induce chromatin unfolding. BRCA1 mutations that enhance chromatin unfolding also increase its affinity for, and recruitment of, COBRA1. It is thought that that reorganisation of higher levels of chromatin structure is an important regulated step in BRCA1-mediated nuclear functions [].; GO: 0045892 negative regulation of transcription, DNA-dependent, 0005634 nucleus

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	443
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-09

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 58.7 bits (141), Expect = 2e-09
 Identities = 72/472 (15%), Positives = 140/472 (29%), Gaps = 111/472 (23%)

Query: 6   FPLVRVKQLRPVVMAILRNTTHIDDKY------LRVLVRDRELYKDTDTEVKRQIWKDNQ 59
           F  +  KQ   V   +      +   Y      ++   R   +      E + +++ DNQ
Sbjct: 68  FWTLLSKQEEMVQKFV---EEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQ 124

Query: 60  SLFGDEVSPLLSQYIREKENILFDHHNLTNLFFFPTPKEFKEPKLDSQVVT-------KF 112
                 VS       R +      +  L             E +    V+        K 
Sbjct: 125 VFAKYNVS-------RLQP-----YLKLRQA--------LLELRPAKNVLIDGVLGSGKT 164

Query: 113 VPALMSLMVDDQVRALNSKMPPDERESAITIIEHSGRFNRIGEVVQKLAHMIGSSVKLYD 172
             AL   +       ++ K+        + +       N    V++ L  ++      + 
Sbjct: 165 WVALDVCLSYKVQCKMDFKI------FWLNL----KNCNSPETVLEMLQKLLYQIDPNWT 214

Query: 173 MVLQFLRTLFLRTHNVHYCTLRAEL--LMALHDLEIQDIISVDPCHKFTWCLDA----CI 226
                   + LR H+     ++AEL  L+     E   ++ ++  +      +A    C 
Sbjct: 215 SRSDHSSNIKLRIHS-----IQAELRRLLKSKPYENCLLVLLNVQNA--KAWNAFNLSC- 266

Query: 227 REKNVDIKRSRELQGFLDSIKRGHEQVLGDLSMTLCDPYAINFLATSAMKILHYLINNEA 286
             K +   R +++  FL +    H   L   SMTL      + L     K L      + 
Sbjct: 267 --KILLTTRFKQVTDFLSAATTTHI-SLDHHSMTLTPDEVKSLLL----KYLD--CRPQD 317

Query: 287 LPRE-NTVLVLLLRMLALGLSA-------WVMIDTQGGNILIEIFRSCFKLYDMVLQFLR 338
           LPRE  T     L ++A  +         W  ++      +IE   +  +  +   +   
Sbjct: 318 LPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEY-RKMFD 376

Query: 339 TLFLRTHNVH--------YW--PVPDAVQAYVQESSVACII-----SMYYTLHTARSRDR 383
            L +   + H         W   +   V   V +     ++         ++        
Sbjct: 377 RLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIP------- 429

Query: 384 VGLMRVLGVLATSESDRAFDDPFLH--FLSSYEISL-WTSLNWQRVWLRHYF 432
             +   L      E++ A     LH   +  Y I   + S +    +L  YF
Sbjct: 430 -SIYLEL--KVKLENEYA-----LHRSIVDHYNIPKTFDSDDLIPPYLDQYF 473

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

No hit with probability above 80.00

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

No hit with probability above 80.00