Reference:
H. Cheng, BH. Kim, and N. Grishin (2008). Discrimination between distant homologs and structural analogs: lessons from manually constructed, reliable datasets.
J. Mol. Biol. 377(4): 1265-1278
BH. Kim, H. Cheng, and N. Grishin (2009). HorA web server to infer homology between proteins using sequence and structural similarity.
Nucleic Acids Res. 37(Web Server issue):W532-8
Comments and suggestions to: grishin@chop.swmed.edu
Query: T0542_Ad2+3.pdb
Database: SCOP1.69 less than 40% identity downloaded from ASTRAL
| SCOP Id | Protein | SCOP Superfamily | SCOP Fold | SCOP Class |
|
|---|---|---|---|---|---|
| Intermediate | d1k75a_ | L-histidinol dehydrogenase HisD | ALDH-like | ALDH-like | α/β |
| Hit | d1uzba_ | 1-pyrroline-5-carboxylate dehydrogenase | ALDH-like | ALDH-like | α/β |
Query <-- 0.681 --> IntermediateDALI alignment (Z-score: 3.6 Raw score:473.90) query 1 ------------------------------------------------------------ 1 d1k75a_ 1 ntiidwnsctaeqqrqllmrpaisasesitrtvndildnvkargdealreysakfdkttv 60 query 1 -----------------------------dadeEVYSA---------lvvglrayvakng 22 ::::: d1k75a_ 61 talkvsaeeiaaaserlsdelkqamavavknieTFHTAqklppvdvetqpgvrcqqvtrp 120 query 23 FRSVLIGLS-----GGIDSALVAAIACDALGaQNVYGVSMPSkyssdhsKGDAAELARRT 77 ::::::::: ::::::::::::::::: :::::::::: ::::::::::: d1k75a_ 121 VASVGLYIPggsapLFSTVLMLATPASIAGC-KKVVLCSPPP------iADEILYAAQLC 173 query 78 GL-NFRTVsiepmfdaymaslgltglaeenlqsrlRGTTLMAISNQ----EGHI-VLAPg 131 :: ::::: ::::::::::: :::: :::: d1k75a_ 174 GVqDVFNV--------------------------gGAQAIAALAFGtesvPKVDkIFGP- 206 query 132 nkselavgysTLYGDSVG----------AYGPikdvyktsifrlaewrnraaaergqtpp 181 :::::::: :::: d1k75a_ 207 ---------gNAFVTEAKrqvsqrldgaAIDM-----------------pagpsevlvia 240 query 182 ipeasitkpdyPVLD-------aiLELYvdrdtgADAIVAaGYDREL--------vvKTL 226 :::: :::: :::::: :::::: ::: d1k75a_ 241 dsgatpdfvasDLLSqaehgpdsqVILLtpaadmARRVAE-AVERQLaelpraetarQAL 299 query 227 RMvdtaeykrrqyppgtkisAKGF------------------------------------ 250 :: :::: d1k75a_ 300 NAsrlivtkdlaqcveisnqYGPEhliiqtrnarelvdsitsagsvflgdwspesagdya 359 query 251 ----------GKDR---------------------------------------------- 254 :::: d1k75a_ 360 sgtnhvlptyGYTAtcsslgladfqkrmtvqelskegfsalastietlaaaerltahkna 419 query 255 rlpitnrwregh 266 d1k75a_ 420 vtlrvnalkeqa 431 FAST alignment (Normalized score: 1.61 Raw score:543.70) query 1 DADEEVYSALVVGLRAYVAKNG-------------------------------------- 22 d1k75a_ 1 ----------------------NTIIDWNSCTAEQQRQLLMRPAISASESITRTVNDILD 38 query 23 ------------------------------------------------------------ 23 d1k75a_ 39 NVKARGDEALREYSAKFDKTTVTALKVSAEEIAAASERLSDELKQAMAVAVKNIETFHTA 98 query 23 ----------------------FRSVLIGLSG--------GIDSALVAAIACDALGAQNV 52 ::::::: ::::::::::::: :::::: d1k75a_ 99 QKLPPVDVETQPGVRCQQVTRPVASVGLY---IPGGSAPLFSTVLMLATPASI-AGCKKV 154 query 53 YGVSMPSKYSSDHSKGDAAELARRTGLN---FRTVSIEPMFDAYMASLGLTGLAEENLQ- 108 :: :::::::::::::::: :::: d1k75a_ 155 VL--CSPPPIADEILYAAQL--------CGVQDVF------------------------N 180 query 109 ---------------------------SRLRGTTLMAISNQE---GHIVLAPGNKSELAV 138 ::::::::::::: :::: d1k75a_ 181 VGGAQAIAALAFGTESVPKVDKIFGPGNAFVTEAKRQVSQ--RLDGAAI----------- 227 query 139 GYSTLYGDSVGAYGPIKDVYKTSIFRLAEWRNRAAAERGQTPPIPEASITKPDYPVLDAI 198 d1k75a_ 228 ------------------------------------------------------------ 228 query 199 LELYVDRDTGADAI------------VAAGYDRELVVKTLRMVDTAEYKRRQYPPGTKIS 246 ::::::::::::::::::: d1k75a_ 228 --------------DMPAGPSEVLVIADSGATPDFVASDLLSQAE--------------- 258 query 247 AKGFGKDRRLPITNRWREGH---------------------------------------- 266 d1k75a_ 259 --------------------HGPDSQVILLTPAADMARRVAEAVERQLAELPRAETARQA 298 query 267 ------------------------------------------------------------ 267 d1k75a_ 299 LNASRLIVTKDLAQCVEISNQYGPEHLIIQTRNARELVDSITSAGSVFLGDWSPESAGDY 358 query 267 ------------------------------------------------------------ 267 d1k75a_ 359 ASGTNHVLPTYGYTATCSSLGLADFQKRMTVQELSKEGFSALASTIETLAAAERLTAHKN 418 query 267 ------------- 267 d1k75a_ 419 AVTLRVNALKEQA 431 TMalign alignment (TM-score: 0.41 Raw score:108.12) query 1 ------------------------------------------------------------ 1 d1k75a_ 1 NTIIDWNSCTAEQQRQLLMRPAISASESITRTVNDILDNVKARGDEALREYSAKFDKTTV 60 query 1 -----------------------------DADEEVYSALVVGL---------------RA 16 :::::::::::: d1k75a_ 61 TALKVSAEEIAAASERLSDELKQAMAVAV--KNIETFHTAQKLPPVDVETQPGVRCQQ-- 116 query 17 YVAKNGFRSVLIGLS----GGIDSALVAAIACDALGAQNVYGVSMPSKYSSDHSKGDAAE 72 ::::::::::::: ::::::::::::::::::::::::::: : ::::::: d1k75a_ 117 --VTRPVASVGLYIPGGSAPLFSTVLMLATPASIAGCKKVVLCSPP-----P-IADEILY 168 query 73 LARRTGLNFRTVSIEPMFDAYMASLGLTGLAEENLQSRLRGTTLMAIS--NQEGHIVLAP 130 :::::::::::::: :::::::::::: :::::::::: d1k75a_ 169 AAQLCGVQDVFNVG----------------------GAQAIAALAFGTESVPKVDKIFGP 206 query 131 GNKSELAVGYSTLYGDS-V----------GAYGPIK-DVYK-------------TSIFRL 165 : :::::: : ::::::: ::: d1k75a_ 207 G----------NAFVTEAKRQVSQRLDGAAIDMPAGP-SEVLVIADSGATPDFV------ 249 query 166 AEWRNRAAAERGQTPPIPEASITKPDYPVLDAI-----LELYVDRDTGADAIVAAGYD-R 219 :::::::: :::: :::::::::::::: : d1k75a_ 250 -------------------------ASDLLSQAEHGPDSQVI--LLTPAADMARRVAEAV 282 query 220 E------------L-VVKTLR----------------MVDTAE--YKR------------ 236 : : :::::: : : d1k75a_ 283 ERQLAELPRAETARQALNASRLIVTKDLAQCVEISNQ-----YGP--EHLIIQTRNAREL 335 query 237 ------RQYPPGTKISA--------------------KG-F-GKD--------------- 253 ::::: :: : ::: d1k75a_ 336 VDSITS------AGSVFLGDWSPESAGDYASGTNHVLPTYGYTATCSSLGLADFQKRMTV 389 query 254 ------------------------------------------RRLPITNRWREGH 266 d1k75a_ 390 QELSKEGFSALASTIETLAAAERLTAHKNAVTLRVNALKEQA------------- 431 HHsearch alignment (Probability: 0.01 E-value:0.21) query 65 HSKGDAAELARRTGLNFRTVSIEPMFDAYMAS 96 :::::::::::::::::::::::::::::::: d1k75a_ 308 KDLAQCVEISNQYGPEHLIIQTRNARELVDSI 339
Intermediate <-- 1.616 --> HitDALI alignment (Z-score: 13.7 Raw score:2035.70) d1k75a_ 1 ntiidwnsctaeqqrqllmrpaisasesitrtvndildnvkargdealreysakfdkttv 60 d1uzba_ 1 -----------------------mtvepfrnepietfqteearramrealrrvreefgrh 37 d1k75a_ 61 tALKV--SAEE------------------------------------------------- 69 :::: :::: d1uzba_ 38 yPLYIggEWVDtkermvslnpsapsevvgttakagkaeaeaaleaawkafktwkdwpqed 97 d1k75a_ 70 ------iaaaserLSDELKQ---------------AMAVAVKNIETFHTAQ--KLPP--- 103 ::::::: :::::::::::::::: :::: d1uzba_ 98 rsrlllkaaalmrRRKRELEatlvyevgknwveasADVAEAIDFIEYYARAalRYRYpav 157 d1k75a_ 104 VDVETqPGVRCQQVTRPVASVGLYIPGgsapLFSTVLMLATPASIAGCkKVVLCSPPPIA 163 ::::: ::::::::::::::::::::: ::::::::::::::::: ::::::::::: d1uzba_ 158 EVVPY-PGEDNESFYVPLGAGVVIAPW--nfPVAIFTGMIVGPVAVGN-TVIAKPAEDAV 213 d1k75a_ 164 DEILYAAQLC-------gvQDVFNVggAQAIAALAFGtesvpKVDKIFGPGNAFVTEAKR 216 :::::::::: :::::: :::::::::: :::::::::::::::::: d1uzba_ 214 VVGAKVFEIFheagfppgvVNFLPGvgEEVGAYLVEH----pRIRFINFTGSLEVGLKIY 269 d1k75a_ 217 QVSQRLD-----gAAIDMPAGpSEVLVIADSGATPDFVASDLLSQA-EHGPD---SQVIL 267 ::::::: :::::::: :::::::::::::::::::::::: ::::: ::::: d1uzba_ 270 EAAGRLApgqtwfKRAYVETG-GKNAIIVDETADFDLAAEGVVVSAyGFQGQkcsAASRL 328 d1k75a_ 268 LTPAAdMARRVAEAVERQLAELP-------RAET-------------------------- 294 ::::: ::::::::::::::::: :::: d1uzba_ 329 ILTQG-AYEPVLERVLKRAERLSvgpaeenPDLGpvvsaeqerkvlsyieigknegqlvl 387 d1k75a_ 295 -----------aRQAL-----------------NASRLIVTKDLAQCVEISNQY-GPEHL 325 :::: ::::::::::::::::::::: ::::: d1uzba_ 388 ggkrlegegyfiAPTVftevppkariaqeeifgPVLSVIRVKDFAEALEVANDTpYGLTG 447 d1k75a_ 326 IIQTR---NARELVDSItSAGSVFLGdwSPESAGdYASGTNHvLPTYGYtatCSSL---- 378 ::::: ::::::::: :::::::: :::::: ::::::: :::::: :::: d1uzba_ 448 GVYSRkreHLEWARREF-HVGNLYFN--RKITGA-LVGVQPF-GGFKLS-gtNAKTgald 501 d1k75a_ 379 GLADFQKRMTVQELskegfsalastietlaaaerltahknavtlrvnalkeqa 431 :::::::::::::: d1uzba_ 502 YLRLFLEMKAVAER--------------------------------------f 516 FAST alignment (Normalized score: 7.24 Raw score:3416.00) d1k75a_ 1 NTIIDWNSCTAEQQRQLLMRPAISASESITRTVNDILDNVKARGDEALREYSAKFDKTTV 60 d1uzba_ 1 ------------------------------------------------------------ 1 d1k75a_ 61 TALKVSAEEIAAASE--------------------------------------------- 75 d1uzba_ 1 ---------------MTVEPFRNEPIETFQTEEARRAMREALRRVREEFGRHYPLYIGGE 45 d1k75a_ 76 ------------------------------------------------------------ 76 d1uzba_ 46 WVDTKERMVSLNPSAPSEVVGTTAKAGKAEAEAALEAAWKAFKTWKDWPQEDRSRLLLKA 105 d1k75a_ 76 -------------------RLSDELKQAMAVAVKNIETFHTAQKL-------PPVDVETQ 109 :::::::::::::::::::::::: ::::::: d1uzba_ 106 AALMRRRKRELEATLVYEVGKNWVEASADVAEAIDFIEYYARA--ALRYRYPAVEVVPY- 162 d1k75a_ 110 PGVRCQQVTRPVASVGLYIPGGSAP---LFSTVLMLATPASIAGCKKVVLCSPPPI--AD 164 :::::::::::::::::::: :::::::::::::::: ::::::::: :: d1uzba_ 163 PGEDNESFYVPLGAGVVIAP-----WNFPVAIFTGMIVGPVAVG-NTVIAKPAE--DAVV 214 d1k75a_ 165 EILYAAQLCGV----------QDVFNVGGAQAIAALAFGTESVP---KVDKIFGPGNAFV 211 :::::::: :::::::::::::::: ::::::::::::: d1uzba_ 215 VGAKVFEI---FHEAGFPPGVVNFLPGVGEEVGAYLV-------EHPRIRFINFTGSLEV 264 d1k75a_ 212 TEAKRQVSQRLD-------GAAIDMPAGP-----SEVLVIADSGATPDFVASDLLSQAEH 259 :::::::::: :::: :::::::::::::::::::::::: d1uzba_ 265 GLKIYEAAGR--LAPGQTWFKRA------YVETGGKNAIIVDETADFDLAAEGVVVSA-- 314 d1k75a_ 260 GPDSQ-----------VILLTPAADMARRVAEAVERQLAELPRAETARQAL--------- 299 ::::: ::::::::::::::::::: d1uzba_ 315 -----YGFQGQKCSAASRLIL-TQGAYEPVLERVLKRAERL----------SVGPAEENP 358 d1k75a_ 300 ------------------------------------------------------------ 300 d1uzba_ 359 DLGPVVSAEQERKVLSYIEIGKNEGQLVLGGKRLEGEGYFIAPTVFTEVPPKARIAQEEI 418 d1k75a_ 300 --NASRLIVTKDLAQCVEISNQYG--PEHLIIQTR----NARELVDSITSAGSVFLGDWS 351 ::::::::::::::::::::: :::::::: ::::::::: ::::::: :: d1uzba_ 419 FGPVLSVIRVKDFAEALEVANDT-PYGLTGGVYS-RKREHLEWARREF-HVGNLYF--NR 473 d1k75a_ 352 PESAGDYAS-----GTNHVLPTYGYTATCSSL--------------GLADFQKRMTVQEL 392 ::: :::::: ::::::::::::: d1uzba_ 474 KIT------GALVGVQPFGG------------FKLSGTNAKTGALDYLRLFLEMKAVAE- 514 d1k75a_ 393 SKEGFSALASTIETLAAAERLTAHKNAVTLRVNALKEQA-- 431 d1uzba_ 515 ---------------------------------------RF 516 TMalign alignment (TM-score: 0.56 Raw score:242.29) d1k75a_ 1 ------------------------------------------------NTIIDWNSCTAE 12 d1uzba_ 1 MTVEPFRNEPIETFQTEEARRAMREALRRVREEFGRHYPLYIGGEWVD------------ 48 d1k75a_ 13 QQRQLLMRPAISASESITRTVNDILDNVKARGDEALREYSA------------KFDKTTV 60 :::::: ::: d1uzba_ 49 -----------------------------------TKERMVSLNPSAPSEVVG----TTA 69 d1k75a_ 61 TAL--KV--------------------------------SAEEIAAAS-ERLSDELK--- 82 ::: :: : :::::::: d1uzba_ 70 KAGKAEAEAALEAAWKAFKTWKDWPQEDRSRLLLKAAAL--------MRRRKRELEATLV 121 d1k75a_ 83 ---------QA-MAVAVKNIETFH-TAQ-KLP--PVDVETQPGVRCQQVTRPVASVGLYI 128 :: :::::::::::: ::: ::: :::::::::::::::::::::::::: d1uzba_ 122 YEVGKNWVEASADVAEAIDFIEYYARAALRYRYPAVEVVPYPGEDNESFYVPLGAGVVIA 181 d1k75a_ 129 PGGSAPLFSTVLMLATPASIAGCKKVVLCSPPPIADEILYAAQLC----G---VQDVFNV 181 :: ::::::::::::::::::: ::::::::::::::::::::: : ::::::: d1uzba_ 182 PW--NFPVAIFTGMIVGPVAVGN-TVIAKPAEDAVVVGAKVFEIFHEAGFPPGVVNFLPG 238 d1k75a_ 182 GGAQAIAALAFGTESVPKVDKIFGPGNAFVTEAKRQVSQRLD--G---AAIDMPAGPSEV 236 :::::::::::: :::::::::::::::::::::::::: : ::::::: :::: d1uzba_ 239 VGEEVGAYLVEH----PRIRFINFTGSLEVGLKIYEAAGRLAPGQTWFKRAYVET-GGKN 293 d1k75a_ 237 LVIAD-SGA--T-PDFVASDLLSQAEHGPDSQVILLTPAADMARRVAEAVERQLA-ELP- 290 ::::: ::: : :::::::::::::::::::::::: ::::::::::::::::: ::: d1uzba_ 294 AIIVDETADFDLAAEGVVVSAYGFQGQKCSAASRLIL-TQGAYEPVLERVLKRAERLSVG 352 d1k75a_ 291 ---------RA-----E--TA-RQ--A------------------------L-------- 299 :: : :: :: : : d1uzba_ 353 PAEENPDLGPVVSAEQERKVLSYIEIGKNEGQLVLGGKRLEGEGYFIAPTVFTEVPPKAR 412 d1k75a_ 300 NA---------SRLIVTKDLAQCVEISNQY-GPEHLIIQTR-N-ARELVDSITSAGSVFL 347 :: :::::::: :::::::::: :::::::::: : :::::::::::::::: d1uzba_ 413 IAQEEIFGPVLSVIRVKDF-AEALEVANDTPYGLTGGVYSRKREHLEWARREFHVGNLYF 471 d1k75a_ 348 GDWSPESAGDYASGTNHVLPTYGYTATCSSL---GLADFQKRMTVQELSKEGFSALASTI 404 :: ::::: ::::::: ::::::: ::::: :::::::::::::::: d1uzba_ 472 NR--KITGA-LVGVQPF-GGFKLSG-TNAKTGALDYLRLFLEMKAVAERF---------- 516 d1k75a_ 405 ETLAAAERLTAHKNAVTLRVNALKEQA 431 d1uzba_ 517 --------------------------- 517 HHsearch alignment (Probability: 0.98 E-value:0.00) d1k75a_ 107 ETQPGVRCQQVTRPVASVGLYIPGGSAPLFSTVLM-LATPASIAGCKKVVLCSPPPIADE 165 :::::::::::::::::::::::: :::::::: :::::::::::::::::: :::: d1uzba_ 160 VPYPGEDNESFYVPLGAGVVIAPW---NFPVAIFTGMIVGPVAVGNTVIAKPAE--DAVV 214 d1k75a_ 166 IL----YAAQLCGV-QDVFNV---GGAQAIAALAFGTESVPKVDKIFGPGNAFVTEAKRQ 217 :: :::::::: :::::: :::::::::: :::::::::::::::::::::: d1uzba_ 215 VGAKVFEIFHEAGFPPGVVNFLPGVGEEVGAYLV----EHPRIRFINFTGSLEVGLKIYE 270 d1k75a_ 218 VSQRL-----DGAAIDMPAGPSEVLVIADSGATPDFVASDLLSQAEHGPDSQ-----VIL 267 ::::: ::: :::::::::::::::::::::::::::::::::::::: ::: d1uzba_ 271 AAGRLAPGQTWFK-RAYVETGGKNAIIVDETADFDLAAEGVVVSAYGFQGQKCSAASRLI 329 d1k75a_ 268 LTP--AADMARRVAEAVERQLA-------------ELPRAETA----RQA---------- 298 ::: ::::::::::::::::: :::::::: ::: d1uzba_ 330 LTQGAYEPVLERVLKRAERLSVGPAEENPDLGPVVSAEQERKVLSYIEIGKNEGQLVLGG 389 d1k75a_ 299 -----------------------------LN-ASRLIVTKDLAQCVEISNQYGP-EHLII 327 :: :::::::::::::::::::::: ::::: d1uzba_ 390 KRLEGEGYFIAPTVFTEVPPKARIAQEEIFGPVLSVIRVKDFAEALEVANDTPYGLTGGV 449 d1k75a_ 328 QTRNARELVDSIT--SAGSVFLGDWSPESAGDYASGTNHVLPT-----YGYTATCSSL-G 379 ::::::::::::: ::::::::::::::: :::::: :::::::::: : d1uzba_ 450 YSRKREHLEWARREFHVGNLYFNRKITGAL-------VGVQPFGGFKLSGTNAKTGALDY 502 d1k75a_ 380 LADFQKRMTVQ 390 ::::::::::: d1uzba_ 503 LRLFLEMKAVA 513