RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9950
(732 letters)
>2rgn_B RHOA/RAC/CDC42 exchange factor; heterotrimeric G-protein, small
molecular weight G-protein, complex, protein-protein
complex, rhogef, galphaq; HET: GDP; 3.50A {Homo sapiens}
Length = 354
Score = 343 bits (882), Expect = e-112
Identities = 105/345 (30%), Positives = 194/345 (56%), Gaps = 19/345 (5%)
Query: 295 KTQKNLLFIMREMIQTERDYVKSLEYVILNYIPELTREDIPQALRGQRNVIFGNIEKIYE 354
K + ++++ E+++TE+ YV L ++ Y+ + + +P++LRG+ ++FGNI++IYE
Sbjct: 8 KALERSMYVLSELVETEKMYVDDLGQIVEGYMATMAAQGVPESLRGRDRIVFGNIQQIYE 67
Query: 355 FHSQHFLGELEQCANLPLSVGQCFLNHENKFYLYALYNKNKPKSDALMTEYGSSFFKAKQ 414
+H +FL EL++C P + Q F+ HE + ++Y +Y +NKPKS+ +++E+G S+F+ +
Sbjct: 68 WHRDYFLQELQRCLKDPDWLAQLFIKHERRLHMYVVYCQNKPKSEHVVSEFGDSYFEELR 127
Query: 415 LELADRMDLASYLLKPVQRMGKYALLLQQLMK---ASRQDVKDIKEAESMVRFQLRHGND 471
+L R+ L L+KPVQR+ KY LLL+ +K + D D+++A ++ F + ND
Sbjct: 128 QQLGHRLQLNDLLIKPVQRIMKYQLLLKDFLKYYNRAGMDTADLEQAVEVMCFVPKRCND 187
Query: 472 LLAMDSLRECDVNLKEQGRLLRQNEFIVSQGK------GKKCLRHVFLFEELILFSKARR 525
++ + LR + L QG+LL Q+ F V++ + + R VFLFE++I+FS+A
Sbjct: 188 MMTLGRLRGFEGKLTAQGKLLGQDTFWVTEPEAGGLLSSRGRERRVFLFEQIIIFSEALG 247
Query: 526 FPDRK-NLDLYIYKHSMKMSDIGITAQIGDSSTKFEIWFRKRK-PNETFTLQSMSEDIKQ 583
R Y+YK+S+K+S +G+ + +F + R + + + LQ+ I Q
Sbjct: 248 GGVRGGTQPGYVYKNSIKVSCLGLEGNLQGDPCRFALTSRGPEGGIQRYVLQAADPAISQ 307
Query: 584 AWTDELSNLLWKQALRNRAM--------RLQEMSSMGIGNKPCLD 620
AW ++ +L Q A+ R + +S+G P +
Sbjct: 308 AWIKHVAQILESQRDFLNALQSPIEYQRRESQTNSLGRPRGPGVG 352
>1nty_A Triple functional domain protein; DBL, pleckstrin, GEF, RHO,
GTPase, guanine-nucleotide releas factor,
phosphorylation, signaling protein; 1.70A {Homo sapiens}
SCOP: a.87.1.1 b.55.1.1 PDB: 2nz8_B 2kr9_A
Length = 311
Score = 341 bits (875), Expect = e-112
Identities = 104/308 (33%), Positives = 166/308 (53%), Gaps = 8/308 (2%)
Query: 295 KTQKNLLFIMREMIQTERDYVKSLEYVILNYIPELTRE--DIPQALRGQRNVIFGNIEKI 352
K+ + FIM E+IQTE+ YV+ L + Y+ E+T +IP + + +IFGN+++I
Sbjct: 5 KSARRKEFIMAELIQTEKAYVRDLRECMDTYLWEMTSGVEEIPPGIVNKELIIFGNMQEI 64
Query: 353 YEFHSQHFLGELEQCANLPLSVGQCFLNHENKFYLYALYNKNKPKSDALMTEYGSSFFKA 412
YEFH+ FL ELE+ LP VG CF+ +KF +Y Y KNKP S L+ E+ S+F
Sbjct: 65 YEFHNNIFLKELEKYEQLPEDVGHCFVTWADKFQMYVTYCKNKPDSTQLILEHAGSYFDE 124
Query: 413 KQLELADRMDLASYLLKPVQRMGKYALLLQQLMKASRQDVKDIKEAESMVRFQLRHGNDL 472
Q ++SYL+KPVQR+ KY LLL++L+ + +IK+ ++ + ND
Sbjct: 125 IQQRHGLANSISSYLIKPVQRITKYQLLLKELLTCCEEGKGEIKDGLEVMLSVPKRANDA 184
Query: 473 LAMDSLRECDVNLKEQGRLLRQNEFIVSQGKG---KKCLRHVFLFEELILFSKARRFPDR 529
+ + L D N++ QG L+ Q F V K K RH+FLFE ++FSK + D
Sbjct: 185 MHLSMLEGFDENIESQGELILQESFQVWDPKTLIRKGRERHLFLFEMSLVFSKEVK--DS 242
Query: 530 KNLDLYIYKHSMKMSDIGITAQIGDSSTKFEIWFRK-RKPNETFTLQSMSEDIKQAWTDE 588
Y+YK + S++G+T + KF +W + + L++ S + KQ W
Sbjct: 243 SGRSKYLYKSKLFTSELGVTEHVEGDPCKFALWVGRTPTSDNKIVLKASSIENKQDWIKH 302
Query: 589 LSNLLWKQ 596
+ ++ ++
Sbjct: 303 IREVIQER 310
>1kz7_A Guanine nucleotide exchange factor DBS; guanine nucleotide exchange
factor (GEF), small G-protein, signaling protein; 2.40A
{Mus musculus} SCOP: a.87.1.1 b.55.1.1 PDB: 1lb1_A
1kzg_A 1rj2_A
Length = 353
Score = 314 bits (807), Expect = e-101
Identities = 114/335 (34%), Positives = 183/335 (54%), Gaps = 27/335 (8%)
Query: 302 FIMREMIQTERDYVKSLEYVILNYIPELTRE----DIPQALRGQRNVIFGNIEKIYEFHS 357
+M E++ TER YV+ L V+ Y E+ I L+ ++N++FGN+E+IY FH+
Sbjct: 14 HVMNELLDTERAYVEELLCVLEGYAAEMDNPLMAHLISTGLQNKKNILFGNMEEIYHFHN 73
Query: 358 QHFLGELEQCANLPLSVGQCFLNHENKFYLYALYNKNKPKSDALMTEYGSS-FFKAKQLE 416
+ FL ELE C + P VG+CFL +F +Y Y +NKP+S++L + FF+ Q +
Sbjct: 74 RIFLRELESCIDCPELVGRCFLERMEEFQIYEKYCQNKPRSESLWRQCSDCPFFQECQKK 133
Query: 417 LADRMDLASYLLKPVQRMGKYALLLQQLMKASR--QDVKDIKEAESMVRFQLRHGNDLLA 474
L ++ L SYLLKPVQR+ KY LLL++++K S+ + +D++EA S + L+ ND +
Sbjct: 134 LDHKLSLDSYLLKPVQRITKYQLLLKEMLKYSKHCEGAEDLQEALSSILGILKAVNDSMH 193
Query: 475 MDSLRECDVNLKEQGRLLRQNEFIVSQG------------KGKKCLRHVFLFEELILFSK 522
+ ++ D NL + G+LL Q F V + K RH+FL E+ +LF K
Sbjct: 194 LIAITGYDGNLGDLGKLLMQGSFSVWTDHKKGHTKVKELARFKPMQRHLFLHEKAVLFCK 253
Query: 523 ARRFP--DRKNLDLYIYKHSMKMSDIGITAQIGDSSTKFEIWFRKRKPNETFTLQSMSED 580
R + Y YK S+ M+ +GIT + + KFEIW+ R+ E + +Q+ + +
Sbjct: 254 KREENGEGYEKAPSYSYKQSLNMTAVGITENVKGDTKKFEIWYNARE--EVYIIQAPTPE 311
Query: 581 IKQAWTDELSNLLWKQALRNRAM----RLQEMSSM 611
IK AW + + +L Q R L++ S+
Sbjct: 312 IKAAWVNAIRKVLTSQLQACREASQHRALEQSHSL 346
>2vrw_B P95VAV, VAV1, proto-oncogene VAV; lipoprotein, GTP-binding,
metal-binding, phosphoprotein, exchange factor, RAC,
GTPase, membrane domain; 1.85A {Mus musculus} PDB:
3bji_A 1f5x_A
Length = 406
Score = 264 bits (675), Expect = 2e-81
Identities = 71/334 (21%), Positives = 135/334 (40%), Gaps = 47/334 (14%)
Query: 302 FIMREMIQTERDYVKSLEYVILNYIPELTREDIPQALRGQRNVIFGNIEKIYEFHSQHFL 361
+RE+ QTE Y +L + +++ L R PQ + IF NIE+++ H+ FL
Sbjct: 28 CCLREIQQTEEKYTDTLGSIQQHFMKPLQRFLKPQDM----ETIFVNIEELFSVHTH-FL 82
Query: 362 GELEQCANLP--LSVGQCFLNHENKFYLYALYNKNKPKSDALMTEYGSS-------FFKA 412
EL+ P ++ Q F+ ++ +F +Y Y + + + ++ +
Sbjct: 83 KELKDALAGPGATTLYQVFIKYKERFLVYGRYCSQVESASKHLDQVATAREDVQMKLEEC 142
Query: 413 KQLELADRMDLASYLLKPVQRMGKYALLLQQLMKAS-----RQDVKD----IKEAESMVR 463
Q R L L+ P+QR+ KY LLLQ+L+K + +++++ +++ V
Sbjct: 143 SQRANNGRFTLRDLLMVPMQRVLKYHLLLQELVKHTQDATEKENLRLALDAMRDLAQCVN 202
Query: 464 FQLRHGNDLLAMD----SLRECDVNLKEQGRLLRQNEFIV-SQGKGKKCLRHVFLFEELI 518
R L + S+ D +L GR E + S + K R+ FL ++ +
Sbjct: 203 EVKRDNETLRQITNFQLSIENLDQSLANYGRPKIDGELKITSVERRSKTDRYAFLLDKAL 262
Query: 519 LFSKARRFPDRKNLDLYIYKHSMKMSDIGITAQIGDSSTK------FEIWFRKRKPNETF 572
L K R D Y K S+ + + F + + + +
Sbjct: 263 LICKRRG-------DSYDLKASVNLHSFQVRDDSSGERDNKKWSHMFLLIEDQGA--QGY 313
Query: 573 TLQSMSEDIKQAWTDEL----SNLLWKQALRNRA 602
L + ++K+ W ++ SN+ + A N
Sbjct: 314 ELFFKTRELKKKWMEQFEMAISNIYPENATANGH 347
>3ky9_A Proto-oncogene VAV; calponin homology domain, DBL homology domain,
pleckst homology domain, C1 domain, guanine-nucleotide
releasing FA metal-binding; 2.73A {Homo sapiens} PDB:
2d86_A
Length = 587
Score = 257 bits (658), Expect = 8e-77
Identities = 80/425 (18%), Positives = 158/425 (37%), Gaps = 51/425 (12%)
Query: 209 HSNHPLQRSCTWQYPTEN-YDEEEDKVSSVDNTTEGSDTGKSGEECCEEPSENSLSKPMP 267
++ L + Q + EE+ V D + SD E E+ + ++
Sbjct: 113 YTLSALSWTPIAQNRGIMPFPTEEESVGDEDIYSGLSDQIDDTVEEDEDLYDCVENEEAE 172
Query: 268 PVSVNSHLHYSQLSLDLDSASCGVQTLKTQKNLLFIMREMIQTERDYVKSLEYVILNYIP 327
+ L S+ + +RE+ QTE Y +L + +++
Sbjct: 173 GDEIYEDLMRSEPVSMPPK-------MTEYDKRCCCLREIQQTEEKYTDTLGSIQQHFLK 225
Query: 328 ELTREDIPQALRGQRNVIFGNIEKIYEFHSQHFLGELEQCANLP--LSVGQCFLNHENKF 385
L R PQ + +IF NIE + H+ FL E+++ P ++ Q F+ ++ +F
Sbjct: 226 PLQRFLKPQDI----EIIFINIEDLLRVHTH-FLKEMKEALGTPGAANLYQVFIKYKERF 280
Query: 386 YLYALYNKNKPKSDALMTEYGSS-------FFKAKQLELADRMDLASYLLKPVQRMGKYA 438
+Y Y + + ++ + Q R L L+ P+QR+ KY
Sbjct: 281 LVYGRYCSQVESASKHLDRVAAAREDVQMKLEECSQRANNGRFTLRDLLMVPMQRVLKYH 340
Query: 439 LLLQQLMKAS-----RQDVKD----IKEAESMVRFQLRHGNDLLAMD----SLRECDVNL 485
LLLQ+L+K + +++++ +++ V R L + S+ D +L
Sbjct: 341 LLLQELVKHTQEAMEKENLRLALDAMRDLAQCVNEVKRDNETLRQITNFQLSIENLDQSL 400
Query: 486 KEQGRLLRQNEFIV-SQGKGKKCLRHVFLFEELILFSKARRFPDRKNLDLYIYKHSMKMS 544
GR E + S + K R+ FL ++ +L K R D Y K + +
Sbjct: 401 AHYGRPKIDGELKITSVERRSKMDRYAFLLDKALLICKRRG-------DSYDLKDFVNLH 453
Query: 545 DIGIT----AQIGDSSTKFEIWFRKRKPNETFTLQSMSEDIKQAWTDEL----SNLLWKQ 596
+ + + + + + L + ++K+ W ++ SN+ +
Sbjct: 454 SFQVRDDSSGDRDNKKWSHMFLLIEDQGAQGYELFFKTRELKKKWMEQFEMAISNIYPEN 513
Query: 597 ALRNR 601
A N
Sbjct: 514 ATANG 518
>1foe_A T-lymphoma invasion and metastasis inducing protein 1; DBL homology
domain, pleckstrin homology domain, GTPase, guanine
nucleotide exchange factor; 2.80A {Mus musculus} SCOP:
a.87.1.1 b.55.1.1
Length = 377
Score = 216 bits (552), Expect = 6e-64
Identities = 72/372 (19%), Positives = 140/372 (37%), Gaps = 66/372 (17%)
Query: 292 QTLKTQKNLLFIMREMIQTERDYVKSLEYVILNYIPELTREDIPQALRGQRNVIFGNIEK 351
+ L L ++ E+++TER YVK L ++ Y+ L +E + + +V+FGN+ +
Sbjct: 4 RQLSDADKLRKVICELLETERTYVKDLNCLMERYLKPLQKETF--LTQDELDVLFGNLTE 61
Query: 352 IYEFHSQHFLGELEQCANLP----------------LSVGQCFLNHENKFYLYALYNKNK 395
+ EF + FL LE L S+G FL + ++F LY+ + +
Sbjct: 62 MVEFQVE-FLKTLEDGVRLVPDLEKLEKVDQFKKVLFSLGGSFLYYADRFKLYSAFCASH 120
Query: 396 PKSDALMTEYGSS-----FFKAKQLELADRMDLASYLLKPVQRMGKYALLLQQLMKASRQ 450
K ++ + + F A+ L SYL+KP+QR+ KY LLL++L +
Sbjct: 121 TKVPKVLVKAKTDTAFKAFLDAQNPRQQHSSTLESYLIKPIQRVLKYPLLLRELFALTDA 180
Query: 451 ---DVKDIKEAESMVRFQLRHGND--------------LLAMDSLRECDVNLKEQGRLLR 493
+ + A + H N+ L+A + + +V G LL
Sbjct: 181 ESEEHYHLDVAIKTMNKVASHINEMQKIHEEFGAVFDQLIAEQTGEKKEVADLSMGDLLL 240
Query: 494 QNEFIVSQGK------GKKCLRHVFLFEELILFSKARRFPDRKNL------------DLY 535
I K+ F+F+ ++ +K L D +
Sbjct: 241 HTSVIWLNPPASLGKWKKEPELAAFVFKTAVVLVYKDGSKQKKKLVGSHRLSIYEEWDPF 300
Query: 536 IYKHSMKMSDIGITAQIGDSSTKFEIWF-------RKRKPNETFTLQSMSEDIKQAWTDE 588
++H + + + A + + + +P F L S + ++ +
Sbjct: 301 RFRHMIPTEALQVRALPSADAEANAVCEIVHVKSESEGRPERVFHLCCSSPESRKDFLKS 360
Query: 589 LSNLLWKQALRN 600
+ ++L + R
Sbjct: 361 VHSILRDKHRRQ 372
>2dfk_A Collybistin II; DH domain, PH domain, cell cycle; 2.15A {Rattus
norvegicus} SCOP: a.87.1.1 b.55.1.1
Length = 402
Score = 214 bits (546), Expect = 8e-63
Identities = 84/410 (20%), Positives = 153/410 (37%), Gaps = 51/410 (12%)
Query: 255 EEPSENSLSKPMPPVSVNSHLHYSQLSLDLDSASCGVQTLKTQKNLLFIMREMIQTERDY 314
E+ E S L + D G + ++ E++ TER Y
Sbjct: 7 EDGVEEGPSDVQN----------GHLDPNSDCLCLGRPLQNRDQMRANVINEIMSTERHY 56
Query: 315 VKSLEYVILNYIPELTREDIPQALRGQRNVIFGNIEKIYEFHSQHFLGELEQCANLP--- 371
+K L+ + Y+ + R+ Q VIFGNIE IY F F+ +LE+ N
Sbjct: 57 IKHLKDICEGYLKQC-RKRRDMFSDEQLKVIFGNIEDIYRFQMG-FVRDLEKQYNNDDPH 114
Query: 372 -LSVGQCFLNHENKFYLYALYNKNKPKSDALMTEYGSS-----FFKAKQ-LELADRMDLA 424
+G CFL H++ F++Y+ Y N + +++ FF+A + L+ + +
Sbjct: 115 LSEIGPCFLEHQDGFWIYSEYCNNHLDACMELSKLMKDSRYQHFFEACRLLQQMIDIAID 174
Query: 425 SYLLKPVQRMGKYALLLQQLMKASRQ---DVKDIKEAESMVRFQLRHGND-------LLA 474
+LL PVQ++ KY L L +L+K + Q D + + A +++R + N+ +
Sbjct: 175 GFLLTPVQKICKYPLQLAELLKYTAQDHSDYRYVAAALAVMRNVTQQINERKRRLENIDK 234
Query: 475 MDSL------RECDVNLKEQGRLLRQNEF-IVSQGKGKKCLRHVFLFEELILFSKARRFP 527
+ E D L L+ E + Q G+ R FLF+ ++ K
Sbjct: 235 IAQWQASVLDWEGDDILDRSSELIYTGEMAWIYQPYGRNQQRVFFLFDHQMVLCK----K 290
Query: 528 DRKNLDLYIYKHSMKMSDIGITAQIGDSSTKFEIWFRK------RKPNETFTLQSMSEDI 581
D D+ YK + M + F + + ++ E + +
Sbjct: 291 DLIRRDILYYKGRIDMDKYEVIDIEDGRDDDFNVSMKNAFKLHNKETEEVHLFFAKKLEE 350
Query: 582 KQAWTDELSNLLWKQALRNRAMRLQEMSSMGIGNKPCLDIRPSADQISDR 631
K W + ++ E+S + S +++ R
Sbjct: 351 KIRWLRAFREER--KMVQEDEKIGFEISENQKRQAAMTVRKASKQKVTQR 398
>3mpx_A FYVE, rhogef and PH domain-containing protein 5; structural
genomics consortium, DH domain, SGC, L binding protein;
2.80A {Homo sapiens}
Length = 434
Score = 198 bits (505), Expect = 1e-56
Identities = 59/371 (15%), Positives = 129/371 (34%), Gaps = 43/371 (11%)
Query: 295 KTQKNLLFIMREMIQTERDYVKSLEYVILNYIPELTREDIPQALRG-------QRNVIFG 347
Q L I +E++ +E+ YV+ L+++ L++ + R G +
Sbjct: 18 GGQSRALVIAQELLSSEKAYVEMLQHLNLDFHGAVMRALDDMDHEGRDTLAREELRQGLS 77
Query: 348 NIEKIYEFHSQHFLGELEQCANL---PLSVGQCFLNHENKFYLYALYNKNKPKSDALMTE 404
+ I++ H L ELE+ + V FL E F +A + + L++E
Sbjct: 78 ELPAIHDLHQG-ILEELEERLSNWESQQKVADVFLAREQGFDHHATHILQFDRYLGLLSE 136
Query: 405 YGSS------FFKAKQLELA-DRMDLASYLLKPVQRMGKYALLLQQLMK---ASRQDVKD 454
+ + + LL+ VQR+ +Y +LL + + +
Sbjct: 137 NCLHSPRLAAAVREFEQSVQGGSQTAKHRLLRVVQRLFQYQVLLTDYLNNLCPDSAEYDN 196
Query: 455 IKEAESMVRFQLRHGNDLLAM-----------DSLRECDVNLKEQGRLLRQNEFIVSQGK 503
+ A S++ ND + S+R L+ L++ + GK
Sbjct: 197 TQGALSLISKVTDRANDSMEQGENLQKLVHIEHSVRGQGDLLQPGREFLKEGTLMKVTGK 256
Query: 504 GKKCLRHVFLFEELILFSKARRFPDRKNLDLYIYKHSMKMSDIGITAQIGDSSTKFEIWF 563
+ RH+FL +++L++ + Y K+++ ++++ ++ + + K
Sbjct: 257 -NRRPRHLFLMNDVLLYTY------PQKDGKYRLKNTLAVANMKVSRPVME---KVPYAL 306
Query: 564 RKRKPNETFTLQSMSEDIKQAWTDELSNLLWKQALRNRAMRLQEMSSMGIGNKPCLDIRP 623
+ L + S + W LS L + + +A+ S
Sbjct: 307 KIETSESCLMLSASSCAERDEWYGCLSRAL-PEDYKAQALAAFHHSVEIRERLGVSLGER 365
Query: 624 SADQISDRSIS 634
+ +
Sbjct: 366 PPTLVPVTHVM 376
>1dbh_A Protein (human SOS 1); guanine nucleotide exchange factor, gene
regulation; 2.30A {Homo sapiens} SCOP: a.87.1.1 b.55.1.1
PDB: 1pms_A 1awe_A
Length = 354
Score = 184 bits (468), Expect = 3e-52
Identities = 57/361 (15%), Positives = 114/361 (31%), Gaps = 67/361 (18%)
Query: 297 QKNLLFIMREMIQTERDYVKSLEYVILNYIPELTRED--IPQALRGQRNVIFGNIEKIYE 354
++ +++ + R Y++ L +I + IF I I+E
Sbjct: 1 EQTYYDLVKAFMAEIRQYIRELNLIIKVFREPFVSNSKLFSAN---DVENIFSRIVDIHE 57
Query: 355 FHSQHFLGELEQCANLP------LSVGQCFLN--HENKFYLYALYNKNKPKSD------A 400
+ LG +E + VG CF + E F Y Y ++ + +
Sbjct: 58 LSVK-LLGHIEDTVEMTDEGSPHPLVGSCFEDLAEELAFDPYESYARDILRPGFHDRFLS 116
Query: 401 LMTEYGSSFF---KAKQLELADRMDLASYLLKPVQRMGKYALLLQQLMKASRQ--DVKDI 455
+++ G++ + + + A + L LL PV Y LL+QL + S D + +
Sbjct: 117 QLSKPGAALYLQSIGEGFKEAVQYVLPRLLLAPVYHCLHYFELLKQLEEKSEDQEDKECL 176
Query: 456 KEAESMVRFQLRHGNDLLAMDSLRECDVNLKEQ--------------------------- 488
K+A + + + + + +
Sbjct: 177 KQAITALLNVQSGMEKICSKSLAKRRLSESACRFYSQQMKGKQLAIKKMNEIQKNIDGWE 236
Query: 489 --------GRLLRQNEFIVSQGKGKKCLRHVFLFEELILFSKAR---RFPDRKNLDLYIY 537
+ + G K RH+FLF+ L++ K+ + Y
Sbjct: 237 GKDIGQCCNEFIMEGTLTR---VGAKHERHIFLFDGLMICCKSNHGQPRLPGASNAEYRL 293
Query: 538 KHSMKMSDIGITAQIGDSSTKFEIWFRKRKPNETFTLQSMSEDIKQAWTDELSNLLWKQA 597
K M + I + + K + K + + S + K W L +L ++
Sbjct: 294 KEKFFMRKVQINDKDDTNEYKHA-FEIILKDENSVIFSAKSAEEKNNWMAALISLQYRST 352
Query: 598 L 598
L
Sbjct: 353 L 353
>2pz1_A RHO guanine nucleotide exchange factor 4; helical bundle, beta
barrel, beta sandwich, signaling protei; 2.25A {Homo
sapiens} PDB: 2dx1_A 3nmz_D 3nmx_D
Length = 466
Score = 187 bits (476), Expect = 3e-52
Identities = 85/429 (19%), Positives = 161/429 (37%), Gaps = 47/429 (10%)
Query: 220 WQYPTENYDE----EEDKVSSVDNTTEGSDTGKSGEECCEEPSENSLSKPMPPVSVNSHL 275
W + T + E D + +D T G+ + P+ + +
Sbjct: 37 WDHVTMDDQELGFKAGDVIEVMDATNREWWWGRVADGEGWFPASFVRLRVNQDEPADDDA 96
Query: 276 HYSQLSLDLDSASCGVQTLKTQKNLLFIMREMIQTERDYVKSLEYVILNYIPELTREDIP 335
+ S D + + + ++ E++ TERDY+K L + Y+ + R+
Sbjct: 97 PLAGNSGAEDGGAEAQSSKDQMRT--NVINEILSTERDYIKHLRDICEGYVRQC-RKRAD 153
Query: 336 QALRGQRNVIFGNIEKIYEFHSQHFLGELEQCANLPLS----VGQCFLNHENKFYLYALY 391
Q IFGNIE IY F+ LEQ N +G CFL H+ F +Y+ Y
Sbjct: 154 MFSEEQLRTIFGNIEDIYRCQKA-FVKALEQRFNRERPHLSELGACFLEHQADFQIYSEY 212
Query: 392 NKNKPKSDALMTEYGSS-----FFKAKQ-LELADRMDLASYLLKPVQRMGKYALLLQQLM 445
N P + ++ FF+A + L+ + L +LL PVQ++ KY L L +L+
Sbjct: 213 CNNHPNACVELSRLTKLSKYVYFFEACRLLQKMIDISLDGFLLTPVQKICKYPLQLAELL 272
Query: 446 KASRQ---DVKDIKEAESMVRFQLRHGNDLLA----MDSLRECDVNLK---------EQG 489
K + D KD++ A ++ + N+ +D + + +++
Sbjct: 273 KYTHPQHRDFKDVEAALHAMKNVAQLINERKRRLENIDKIAQWQSSIEDWEGEDLLVRSS 332
Query: 490 RLLRQNEF-IVSQGKGKKCLRHVFLFEELILFSKARRFPDRKNLDLYIYKHSMKMSDIGI 548
L+ E V+Q + K R FLF+ +++ K D D+ YK + M + +
Sbjct: 333 ELIYSGELTRVTQPQAKSQQRMFFLFDHQLIYCK----KDLLRRDVLYYKGRLDMDGLEV 388
Query: 549 TAQIGDSSTKFEIW------FRKRKPNETFTLQSMSEDIKQAWTDELSNLLWKQALRNRA 602
+ + ++ L + + KQ W + + ++
Sbjct: 389 VDLEDGKDRDLHVSIKNAFRLHRGATGDSHLLCTRKPEQKQRWLKAFARER--EQVQLDQ 446
Query: 603 MRLQEMSSM 611
++ +
Sbjct: 447 ETGFSITEL 455
>1by1_A Protein (PIX); RHO-GTPase exchange factor, transport protein; NMR
{Homo sapiens} SCOP: a.87.1.1
Length = 209
Score = 167 bits (426), Expect = 5e-48
Identities = 47/195 (24%), Positives = 88/195 (45%), Gaps = 18/195 (9%)
Query: 302 FIMREMIQTERDYVKSLEYVILNYIPELTREDIPQALRGQRNVIFGNIEKIYEFHSQHFL 361
+++ +++TE +Y K L+ V+ Y+ L + + + + GN+E+I F +
Sbjct: 16 VVLQNILETENEYSKELQTVLSTYLRPLQTSEKLSS--ANISYLMGNLEEICSFQQM-LV 72
Query: 362 GELEQCANLP---LSVGQCFLNHENKFY-LYALYNKNKPKSDALMTEYG---SSFFKAKQ 414
LE+C LP VG CFLN + LY Y N P + ++TE+ F + K
Sbjct: 73 QSLEECTKLPEAQQRVGGCFLNLMPQMKTLYLTYCANHPSAVNVLTEHSEELGEFMETKG 132
Query: 415 LELADRMDLASYLLKPVQRMGKYALLLQQLMKASRQ---DVKDIKEAESMVRFQLRHGND 471
+ L + L KP R+ KY LL++L + D +DI+++ + +
Sbjct: 133 ASSPGILVLTTGLSKPFMRLDKYPTLLKELERHMEDYHTDRQDIQKSMAAFKNLSAQCQ- 191
Query: 472 LLAMDSLRECDVNLK 486
+ + ++ L+
Sbjct: 192 ----EVRKRKELELQ 202
>2z0q_A XPLN, RHO guanine nucleotide exchange factor 3; DH-PH domain,
alternative splicing, cytoplasm, guanine- nucleotide
releasing factor; 1.79A {Mus musculus} PDB: 3eo2_A
Length = 346
Score = 151 bits (383), Expect = 1e-40
Identities = 62/331 (18%), Positives = 128/331 (38%), Gaps = 52/331 (15%)
Query: 303 IMREMIQTERDYVKSLEYVILNYIPELTREDI-PQALRGQRNVIFGNIEKIYEFHSQHFL 361
+ E+ Q E D ++ L+ Y + + I + + N IFG ++ + H L
Sbjct: 23 AIFELSQGEEDLIEDLKLAKKAYHDPMLKLSIMTEQ---ELNQIFGTLDSLIPLHE-ELL 78
Query: 362 GELEQCAN---LPLSVGQCFLNHENKFYLYALYNKNKPKSDALMTEYGSS-----FFKAK 413
+L VG + Y Y N+ + AL+ F +
Sbjct: 79 SQLRDVRKPDGSTEHVGPILVGWLPCLSSYDSYCSNQVAAKALLDHKKQDHRVQDFLQRC 138
Query: 414 Q-LELADRMDLASYLLKPVQRMGKYALLLQQLMK---ASRQDVKDIKEAESMVRFQLRHG 469
+ ++DL ++L P R+ KY LLL+++++ D + ++EA ++++ +
Sbjct: 139 LESPFSRKLDLWNFLDIPRSRLVKYPLLLREILRHTPNDNPDQQHLEEAINIIQGIVAEI 198
Query: 470 ND----------LLAMDSLRE-CDVNLKEQGRLLRQNEFIVSQGKGKKCLRHVFLFEELI 518
N + L E +L + R+L + +G K HVFLF+E++
Sbjct: 199 NTKTGESECRYYKERLLYLEEGQKDSLIDSSRVLCC-HGELKNNRGVK--LHVFLFQEVL 255
Query: 519 LFSKARRFPDRKNLDLYIYKHSMKMSDIGITAQIGDSSTK------------------FE 560
+ ++A + L +Y+ + + D+ + + D + F
Sbjct: 256 VITRAVT--HNEQLCYQLYRQPIPVKDLTLE-DLQDGEVRLGGSLRGAFSNNERVKNFFR 312
Query: 561 IWFRKRKPNETFTLQSMSEDIKQAWTDELSN 591
+ F+ ++T +LQ+ KQ W + +
Sbjct: 313 VSFKNGSQSQTHSLQANDTFNKQQWLNCIRQ 343
>3jzy_A Intersectin 2; C2 domain, structural genomics consortium (SGC),
endocytosis; 1.56A {Homo sapiens} PDB: 3qbv_B* 1ki1_B
Length = 510
Score = 135 bits (340), Expect = 9e-34
Identities = 63/418 (15%), Positives = 141/418 (33%), Gaps = 53/418 (12%)
Query: 276 HYSQLSLDLDSASCGVQTL-KTQKNLLFIMREMIQTERDYVKSLEYVILNYIPELTREDI 334
H+ S ++ T+ ++ + E+IQTE Y+ L+ V+ + +
Sbjct: 3 HHHHHSSGRENLYFQGDTMQPIERKRQGYIHELIQTEERYMADLQLVVEVFQKRMAESGF 62
Query: 335 PQALRGQRNVIFGNIEKIYEFHSQHFLGELEQC-----ANLPLS-VGQCFLNHENKFYLY 388
G+ +IF N +++ +++ L L +P+ +G + Y
Sbjct: 63 LTE--GEMALIFVNWKELIMSNTK-LLKALRVRKKTGGEKMPVQMIGDILAAELSHMQAY 119
Query: 389 ALYNKNKPKSDALMTEYGSS------FFKAKQ-LELADRMDLASYLLKPVQRMGKYALLL 441
+ + AL+ + F K M L+S+LLKP+QR+ +Y LL+
Sbjct: 120 IRFCSCQLNGAALLQQKTDEDTDFKEFLKKLASDPRCKGMPLSSFLLKPMQRITRYPLLI 179
Query: 442 QQLMK---ASRQDVKDIKEAESMVRFQLRHGNDLLA--------------MDSLRECDVN 484
+ +++ S D +K A N+ + + +
Sbjct: 180 RSILENTPESHADHSSLKLALERAEELCSQVNEGVREKENSDRLEWIQAHVQCEGLAEQL 239
Query: 485 LKEQGRLLRQNEFIVSQG----KGKKCLRHVFLFEELILFSKARR-----------FPDR 529
+ ++ G H FLF + +L + + F +
Sbjct: 240 IFNSLTNCLGPRKLLHSGKLYKTKSNKELHGFLFNDFLLLTYMVKQFAVSSGSEKLFSSK 299
Query: 530 KNLDLYIYKHSMKMSDIGITAQIGDSSTKFEIWFRKRKPNETFTLQSMSEDIKQAWTDEL 589
N +YK + ++++ + SS + F + +TL++ + + + AW ++
Sbjct: 300 SNAQFKMYKTPIFLNEVLVKLPTDPSSDEPV--FHISHIDRVYTLRTDNINERTAWVQKI 357
Query: 590 SNLLWKQALRNRAMRLQEMSSMGIGNKPCLDIRPSADQISDRSISITQLNKTTPKFRN 647
+ + + +E + K R I + + N + +
Sbjct: 358 KAA--SEQYIDTEKKQREKAYQARSQKTSGIGRLMVHVIEATELKACKPNGKSNPYCE 413
>3jv3_A Intersectin-1; SH3 domain, DH domain, guanine nucleotide exchange
factor, autoinhibition, domain-swapped, cell junction,
cell project endocytosis; 2.40A {Mus musculus} PDB:
3gf9_A
Length = 283
Score = 129 bits (326), Expect = 1e-33
Identities = 46/276 (16%), Positives = 93/276 (33%), Gaps = 27/276 (9%)
Query: 213 PLQRSCTWQYPTENYDEEEDKVSSVDNTTEGSDTGKSGEECCEEPSENSLSKPMPPVSVN 272
Q + Y +N DE + N D E + + ++
Sbjct: 2 SCQVIGMYDYTAQNDDELAFSKGQIINVLNKEDPDWWKGEVSGQVGLFPSNYVKLTTDMD 61
Query: 273 SHLHYSQLSLDLDSASCGVQTLKTQKNLLFIMREMIQTERDYVKSLEYVILNYIPELTRE 332
+ LD + T++ + E+I TE +YV L+ V + LT
Sbjct: 62 PSQQWCSDLHLLDMLT------PTERKRQGYIHELIVTEENYVNDLQLVTEIFQKPLTES 115
Query: 333 DI-PQALRGQRNVIFGNIEKIYEFHSQHFLGELEQCANLPL------SVGQCFLNHENKF 385
++ + + +IF N +++ + + L L + +G
Sbjct: 116 ELLTEK---EVAMIFVNWKELIMCNIK-LLKALRVRKKMSGEKMPVKMIGDILSAQLPHM 171
Query: 386 YLYALYNKNKPKSDALMTEYGSS------FFKAKQ-LELADRMDLASYLLKPVQRMGKYA 438
Y + + AL+ + F K M L+S++LKP+QR+ +Y
Sbjct: 172 QPYIRFCSCQLNGAALIQQKTDEAPDFKEFVKRLAMDPRCKGMPLSSFILKPMQRVTRYP 231
Query: 439 LLLQQLMK---ASRQDVKDIKEAESMVRFQLRHGND 471
L+++ +++ + D +K A N+
Sbjct: 232 LIIKNILENTPENHPDHSHLKHALEKAEELCSQVNE 267
>1fho_A UNC-89; pleckstrin homology domain, electrostatics, muscle, signal
transduction, signaling protein; NMR {Caenorhabditis
elegans} SCOP: b.55.1.1
Length = 119
Score = 123 bits (310), Expect = 2e-33
Identities = 24/117 (20%), Positives = 48/117 (41%), Gaps = 7/117 (5%)
Query: 484 NLKEQGRLLRQNEFIVSQGKGKKCLRHVFLFEELILFSKARRFPDRKNLDLYIYKHSMKM 543
+ + GR++R + F V +G LR+VFLF I+F++ + Y + S+++
Sbjct: 3 DTGKLGRIIRHDAFQVWEGDEPPKLRYVFLFRNKIMFTEQDASTSPPS---YTHYSSIRL 59
Query: 544 SDIGITAQIGDSSTKFEIWFRKRKPNE---TFTLQSMSEDIKQAWTDELSNLLWKQA 597
I D + ++ SE +++AW +++ K A
Sbjct: 60 DKYNIRQHTTDED-TIVLQPQEPGLPSFRIKPKDFETSEYVRKAWLRDIAEEQEKYA 115
>1xcg_A PDZ-rhogef, RHO guanine nucleotide exchange factor 11; X-RAY
crystallography, regulation of RHOA GTPase, protein
complex; 2.50A {Homo sapiens} SCOP: a.87.1.1 b.55.1.1
PDB: 3kz1_A*
Length = 368
Score = 130 bits (329), Expect = 3e-33
Identities = 56/352 (15%), Positives = 130/352 (36%), Gaps = 63/352 (17%)
Query: 303 IMREMIQTERDYVKSLEYVILNYIPELTREDI-PQALRGQRNVIFGNIEKIYEFHSQHFL 361
++ E+ TE ++++L + L + + +E++ P+ + +F N+ ++ E H+ +
Sbjct: 25 VINELFVTEASHLRTLRVLDLIFYQRMKKENLMPRE---ELARLFPNLPELIEIHNS-WC 80
Query: 362 GELEQC-ANLPL--SVGQCFLNH------ENKFYLYALYNKNKPKSDALMTEYGSS---- 408
+++ P+ + L E + A + + + L+
Sbjct: 81 EAMKKLREEGPIIKEISDLMLARFDGPAREELQQVAAQFCSYQSIALELIKTKQRKESRF 140
Query: 409 --FFKAKQ-LELADRMDLASYLLKPVQRMGKYALLLQQLMKASRQDVKD----------- 454
F + + R+ L ++ +QR+ KY LLL+ ++K + +
Sbjct: 141 QLFMQEAESHPQCRRLQLRDLIISEMQRLTKYPLLLESIIKHTEGGTSEHEKLCRARDQC 200
Query: 455 ----------IKEAESMVRF-----QLRHGNDLLAMDSLRECDVNLKEQGR-LLRQNEFI 498
+K+ E+ R +L A + L +L R ++ +
Sbjct: 201 REILKYVNEAVKQTENRHRLEGYQKRLDATALERASNPLAAEFKSLDLTTRKMIHEGPLT 260
Query: 499 VSQGKGKKCLRHVFLFEELILFSKAR----------RFPDRKNLDLYIYKHSMKMSDIGI 548
K K HV L E+L++ + + + + + +K++ + I
Sbjct: 261 WRISKDKTLDLHVLLLEDLLVLLQKQDEKLLLKCHSKTAVGSSDSKQTFSPVLKLNAVLI 320
Query: 549 TAQIGDSSTKFEIWFRKRKPNETFTLQSMSEDIKQAWTDELSNLLWKQALRN 600
+ D F I K P + + L +++ K W + L ++A+RN
Sbjct: 321 RSVATDKRAFFIICTSKLGPPQIYELVALTSSDKNTWMELL-----EEAVRN 367
>3t06_A PDZ-rhogef, RHO guanine nucleotide exchange factor 11; DH-PH RHOA
complex, pdzrhogef, guanine nucleotide exchange F RHOA,
signaling protein; 2.84A {Homo sapiens}
Length = 418
Score = 127 bits (321), Expect = 9e-32
Identities = 53/343 (15%), Positives = 124/343 (36%), Gaps = 58/343 (16%)
Query: 303 IMREMIQTERDYVKSLEYVILNYIPELTREDI-PQALRGQRNVIFGNIEKIYEFHSQHFL 361
++ E+ TE ++++L + L + + +E++ P+ + +F N+ ++ E H+ +
Sbjct: 67 VINELFVTEASHLRTLRVLDLIFYQRMKKENLMPRE---ELARLFPNLPELIEIHNS-WC 122
Query: 362 GELEQC-ANLPL--SVGQCFLNH------ENKFYLYALYNKNKPKSDALMTEYGSS---- 408
+++ P+ + L E + A + + + L+
Sbjct: 123 EAMKKLREEGPIIKEISDLMLARFDGPAREELQQVAAQFCSYQSIALELIKTKQRKESRF 182
Query: 409 --FFKAKQ-LELADRMDLASYLLKPVQRMGKYALLLQQLMKASRQDVKD----------- 454
F + + R+ L ++ +QR+ KY LLL+ ++K + +
Sbjct: 183 QLFMQEAESHPQCRRLQLRDLIISEMQRLTKYPLLLESIIKHTEGGTSEHEKLCRARDQC 242
Query: 455 ----------IKEAESMVRF-----QLRHGNDLLAMDSLRECDVNLKEQGR-LLRQNEFI 498
+K+ E+ R +L A + L +L R ++ +
Sbjct: 243 REILKYVNEAVKQTENRHRLEGYQKRLDATALERASNPLAAEFKSLDLTTRKMIHEGPLT 302
Query: 499 VSQGKGKKCLRHVFLFEELILFSKAR----------RFPDRKNLDLYIYKHSMKMSDIGI 548
K K HV L E+L++ + + + + + +K++ + I
Sbjct: 303 WRISKDKTLDLHVLLLEDLLVLLQKQDEKLLLKCHSKTAVGSSDSKQTFSPVLKLNAVLI 362
Query: 549 TAQIGDSSTKFEIWFRKRKPNETFTLQSMSEDIKQAWTDELSN 591
+ D F I K P + + L +++ K W + L
Sbjct: 363 RSVATDKRAFFIICTSKLGPPQIYELVALTSSDKNTWMELLEE 405
>1txd_A RHO guanine nucleotide exchange factor 12; helical bundle (DH),
beta sandwich (PH), signaling protein; 2.13A {Homo
sapiens} SCOP: a.87.1.1 b.55.1.1 PDB: 1x86_A
Length = 385
Score = 126 bits (318), Expect = 1e-31
Identities = 55/363 (15%), Positives = 127/363 (34%), Gaps = 60/363 (16%)
Query: 303 IMREMIQTERDYVKSLEYVILNYIPELTREDIPQALRGQRNVIFGNIEKIYEFHSQHFLG 362
++ E+ TER +V++L+ + + ++RE I + IF N+E I + H
Sbjct: 28 VINELFYTERAHVRTLKVLDQVFYQRVSREGILSP--SELRKIFSNLEDILQLHIG-LNE 84
Query: 363 ELEQC-----ANLPLSVGQCFLNH------ENKFYLYALYNKNKPKSDALMTEYGSS--- 408
+++ ++ +G+ L E + A + N+P + ++
Sbjct: 85 QMKAVRKRNETSVIDQIGEDLLTWFSGPGEEKLKHAAATFCSNQPFALEMIKSRQKKDSR 144
Query: 409 ---FFKAKQ-LELADRMDLASYLLKPVQRMGKYALLLQQLMKASRQ--DVKDIKEAESMV 462
F + + L R+ L + +QR+ KY LLL + K + + + +K+A
Sbjct: 145 FQTFVQDAESNPLCRRLQLKDIIPTQMQRLTKYPLLLDNIAKYTEWPTEREKVKKAADHC 204
Query: 463 RFQLRHGND-----------------LLAMDSLRECDVNLKEQGRLLRQNEFIVSQG--- 502
R L N L N++E L ++ +G
Sbjct: 205 RQILNFVNQAVKEAENKQRLEDYQRRLDTSSLKLSEYPNVEELRNLDLTKRKMIHEGPLV 264
Query: 503 ----KGKKCLRHVFLFEELILFSKAR----------RFPDRKNLDLYIYKHSMKMSDIGI 548
+ K + L E++++ + + + + + +K+S + +
Sbjct: 265 WKVNRDKTIDLYTLLLEDILVLLQKQDDRLVLRCHSKILASTADSKHTFSPVIKLSTVLV 324
Query: 549 TAQIGDSSTKFEIWFRKRKPNETFTLQSMSEDIKQAWTDELSNLLWKQALRNRAMRLQEM 608
D+ F I + + L + + K W D + + +++ +++
Sbjct: 325 RQVATDNKALFVISMSDNGA-QIYELVAQTVSEKTVWQDLICRM--AASVKEQSVDGGHH 381
Query: 609 SSM 611
Sbjct: 382 HHH 384
>3p6a_A RHO guanine nucleotide exchange factor 1; regulation of RHOA
GTPase, rhogef, DH, PH, signaling PR; 2.50A {Homo
sapiens} PDB: 3odo_A
Length = 377
Score = 121 bits (306), Expect = 4e-30
Identities = 49/343 (14%), Positives = 116/343 (33%), Gaps = 59/343 (17%)
Query: 303 IMREMIQTERDYVKSLEYVILNYIPELTRED-IPQALRGQRNVIFGNIEKIYEFHSQHFL 361
++ E++ TE +V+ L + + + P + IF +++++ E HS FL
Sbjct: 31 VISELLVTEAAHVRMLRVLHDLFFQPMAECLFFPLE---ELQNIFPSLDELIEVHS-LFL 86
Query: 362 GELEQC--ANLPL--SVGQCFLNHENKFYL------YALYNKNKPKSDALMTEYGSS--- 408
L + + L +G L + + + + + +
Sbjct: 87 DRLMKRRQESGYLIEEIGDVLLARFDGAEGSWFQKISSRFCSRQSFALEQLKAKQRKDPR 146
Query: 409 ---FFKAKQ-LELADRMDLASYLLKPVQRMGKYALLLQQLMKASRQ--DVKDIKEAESMV 462
F + + R+ L + +QR+ KY LLLQ + + + + + + ++ A
Sbjct: 147 FCAFVQEAESRPRCRRLQLKDMIPTEMQRLTKYPLLLQSIGQNTEEPTEREKVELAAECC 206
Query: 463 RFQLRHGN------------------------DLLAMDSLRECDVNLKEQGRLLRQNEFI 498
R L H N + L E + +L+ +
Sbjct: 207 REILHHVNQAVRDMEDLLRLKDYQRRLDLSHLRQSSDPMLSEFKNLDITKKKLVHEGPLT 266
Query: 499 VSQGKGKKCLRHVFLFEELILFSKAR----------RFPDRKNLDLYIYKHSMKMSDIGI 548
K K HV L ++L+L + + R + + ++++ +
Sbjct: 267 WRVTKDKAVEVHVLLLDDLLLLLQRQDERLLLKSHSRTLTPTPDGKTMLRPVLRLTSA-M 325
Query: 549 TAQIGDSSTKFEIWFRKRKPNETFTLQSMSEDIKQAWTDELSN 591
T ++ F + F + + + L + + ++ W ++
Sbjct: 326 TREVATDHKAFYVLFTWDQEAQIYELVAQTVSERKNWCALITE 368
>3odw_A RHO guanine nucleotide exchange factor 1; regulation of RHOA
GTPase, rhogef, DH, PH, signaling PR; 3.20A {Homo
sapiens} PDB: 3odx_A
Length = 536
Score = 121 bits (305), Expect = 4e-29
Identities = 78/517 (15%), Positives = 169/517 (32%), Gaps = 78/517 (15%)
Query: 135 RCEETLEQIRSYLGADSTHQWNTSTPLPSRRKSLAPSPSPHHTPSHACPCWDPGDNSTLP 194
+T + + S L A ++ P K+ + P T P + +
Sbjct: 21 EPAKTKKGLSSILDAARWNRGEPQVPDFRHLKAEVDAEKPGATDRKG-GVGMPSRDRNIG 79
Query: 195 SPSIPEECYCRTGNHSNHPL-----QRSCTWQYPTENYDEEEDKVSSVDNTTEGSDTGKS 249
+P T S HPL R P E D S+++ T +
Sbjct: 80 APG------QDTPGVSLHPLSLDSPDREPGADAPLELGDSSPQGPMSLESLAPPESTDEG 133
Query: 250 GEECCEEPS-ENSLSKPMPPVSVNSHLHYSQLSLDLDSASCGVQTL-KTQKNLLFIMREM 307
E EP E + + + +L + +L K+Q ++ E+
Sbjct: 134 AETESPEPGDEGEPGRSGLELEPEEPPGWRELV-----PPDTLHSLPKSQVKRQEVISEL 188
Query: 308 IQTERDYVKSLEYVILNYIPELTRED-IPQALRGQRNVIFGNIEKIYEFHSQHFLGELEQ 366
+ TE +V+ L + + + P + IF +++++ E HS FL L +
Sbjct: 189 LVTEAAHVRMLRVLHDLFFQPMAECLFFPLE---ELQNIFPSLDELIEVHS-LFLDRLMK 244
Query: 367 C--ANLPL--SVGQCFLNHENKFY------LYALYNKNKPKSDALMTE-------YGSSF 409
+ L +G L + + + + + + + + +
Sbjct: 245 RRQESGYLIEEIGDVLLARFDGAEGSWFQKISSRFCSRQSFALEQLKAKQRKDPRFCAFV 304
Query: 410 FKAKQLELADRMDLASYLLKPVQRMGKYALLLQQLMKASRQ--DVKDIKEAESMVRFQLR 467
+A+ R+ L + +QR+ KY LLLQ + + + + + + ++ A R L
Sbjct: 305 QEAESRPRCRRLQLKDMIPTEMQRLTKYPLLLQSIGQNTEEPTEREKVELAAECCREILH 364
Query: 468 HGND------------------------LLAMDSLRECDVNLKEQGRLLRQNEFIVSQGK 503
H N + L E + +L+ + K
Sbjct: 365 HVNQAVRDMEDLLRLKDYQRRLDLSHLRQSSDPMLSEFKNLDITKKKLVHEGPLTWRVTK 424
Query: 504 GKKCLRHVFLFEELILFSKAR----------RFPDRKNLDLYIYKHSMKMSDIGITAQIG 553
K HV L ++L+L + + R + + ++++ +T ++
Sbjct: 425 DKAVEVHVLLLDDLLLLLQRQDERLLLKSHSRTLTPTPDGKTMLRPVLRLTSA-MTREVA 483
Query: 554 DSSTKFEIWFRKRKPNETFTLQSMSEDIKQAWTDELS 590
F + F + + + L + + ++ W ++
Sbjct: 484 TDHKAFYVLFTWDQEAQIYELVAQTVSERKNWCALIT 520
>3ksy_A SOS-1, SON of sevenless homolog 1; RAS, RAS activator, disease
mutation, guanine-nucleotide releasing factor, signaling
protein; 3.18A {Homo sapiens} PDB: 1xd4_A 1xdv_A 1q9c_A
Length = 1049
Score = 107 bits (267), Expect = 5e-24
Identities = 65/344 (18%), Positives = 107/344 (31%), Gaps = 57/344 (16%)
Query: 303 IMREMIQTERDYVKSLEYVILNYIPELTREDIPQALRGQRNVIFGNIEKIYEFHSQHFLG 362
+++ + R Y++ L +I + + IF I I+E LG
Sbjct: 204 LVKAFMAEIRQYIRELNLIIKVFREPF-VSNSKLFSANDVENIFSRIVDIHELS-VKLLG 261
Query: 363 ELEQCANL------PLSVGQCFLN--HENKFYLYALYNKNKPKSDALMT---------EY 405
+E + VG CF + E F Y Y ++ +
Sbjct: 262 HIEDTVEMTDEGSPHPLVGSCFEDLAEELAFDPYESYARDILRPGFHDRFLSQLSKPGAA 321
Query: 406 GSSFFKAKQLELADRMDLASYLLKPVQRMGKYALLLQQLMKASRQ--DVKDIKEAESMVR 463
+ + A + L LL PV Y LL+QL + S D + +K+A + +
Sbjct: 322 LYLQSIGEGFKEAVQYVLPRLLLAPVYHCLHYFELLKQLEEKSEDQEDKECLKQAITALL 381
Query: 464 FQLRHGNDL----LAMDSLRECDVNLKEQGRLLRQ------------------------- 494
+ LA L E Q +Q
Sbjct: 382 NVQSGMEKICSKSLAKRRLSESACRFYSQQMKGKQLAIKKMNEIQKNIDGWEGKDIGQCC 441
Query: 495 NEFIVS---QGKGKKCLRHVFLFEELILFSK---ARRFPDRKNLDLYIYKHSMKMSDIGI 548
NEFI+ G K RH+FLF+ L++ K + + Y K M + I
Sbjct: 442 NEFIMEGTLTRVGAKHERHIFLFDGLMICCKSNHGQPRLPGASNAEYRLKEKFFMRKVQI 501
Query: 549 TAQIGDSSTKFEIWFRKRKPNETFTLQSMSEDIKQAWTDELSNL 592
+ + K + N +E+ K W L +L
Sbjct: 502 NDKDDTNEYKHAFEIILKDENSVIFSAKSAEE-KNNWMAALISL 544
>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 = 65.6 bits (159), Expect = 4e-11
Identities = 81/613 (13%), Positives = 168/613 (27%), Gaps = 206/613 (33%)
Query: 29 KDLARNLRQHLRGFSERLEDTRERLEDTSRCYYL-------------------LDRAYEW 69
KD+ + L E ++ + S L L Y++
Sbjct: 36 KDVQDMPKSILS--KEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKF 93
Query: 70 ALEAMK------------YIS---------RVKPEDQTSIEPTVKQLRQYLMAHPPLASE 108
+ +K YI +V + S +LRQ L+ L
Sbjct: 94 LMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLE---LRPA 150
Query: 109 HFTE---MI-----QLAKKLNNDKLIEQC--------KVAQCRCEET----LEQIRSYLG 148
++ +A + ++ + C ET L+++ +
Sbjct: 151 KNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQID 210
Query: 149 ADSTHQWNTSTPLPSR--------RKSLAPSPSPHHTPSHACPC-------WDPG----- 188
+ T + + S+ + R R+ L P + C +
Sbjct: 211 PNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYEN--------CLLVLLNVQNAKAWNAF 262
Query: 189 DNSTLPSPSIPEECYCR----TGNHSNHPLQRSCTWQYPTENYDEEEDKVSSVDNTTEGS 244
+ S C+ T T+ S+D+ +
Sbjct: 263 NLS------------CKILLTTRFKQV------------TDFLSAATTTHISLDHHSMTL 298
Query: 245 DTGKS--------GEECCEEPSENSLSKPMPPVSVNSHLHYSQLSLDLDSASC--GVQTL 294
+ + P E + P L + + S G+ T
Sbjct: 299 TPDEVKSLLLKYLDCRPQDLPREVLTTNP--------------RRLSIIAESIRDGLATW 344
Query: 295 KTQKNLLFI-MREMIQTERDYVKSLEY-------VILN---YIPE--LTR---------- 331
K++ + +I++ + ++ EY + +IP L+
Sbjct: 345 DNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDV 404
Query: 332 EDIPQALRGQRNVIFGNIEKIYEFHSQHFLGELEQCANLPLSVGQCFLNHENKFYLYALY 391
+ L V E S + + N ++ + ++H N +
Sbjct: 405 MVVVNKLHKYSLVEKQPKESTISIPSIYLE-LKVKLENEY-ALHRSIVDHYNIPKTFDSD 462
Query: 392 NKNKPKSDALMTEYGSSFFK-----AKQLELADRMDLAS--YL-LKPVQ---RMGKYAL- 439
+ P D +Y F+ K +E +RM L +L + ++ R A
Sbjct: 463 DLIPPYLD----QY---FYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWN 515
Query: 440 -------LLQQLMKASRQDVKDIKEAESMVR----FQLRHGNDLLAMDSLRECDVNLKEQ 488
LQQL + + E +V F + +L+ + D+ +
Sbjct: 516 ASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLI---CSKYTDL---LR 569
Query: 489 GRLLRQNEFIVSQ 501
L+ ++E I +
Sbjct: 570 IALMAEDEAIFEE 582
Score = 49.9 bits (118), Expect = 3e-06
Identities = 66/470 (14%), Positives = 131/470 (27%), Gaps = 145/470 (30%)
Query: 253 CCEEPSE-----NSLSKPMPPVSVNSHLHYSQLSLDLDSASCGVQTL---KTQKNLLFIM 304
C P L + P + H S + L + S ++ L K +N L ++
Sbjct: 191 NCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVL 250
Query: 305 RE---------------MIQTERDYVKSL-EYVILNYIPELTREDIPQAL-RGQRNVIFG 347
++ T R K + +++ ++ + L + +
Sbjct: 251 LNVQNAKAWNAFNLSCKILLTTRF--KQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLL 308
Query: 348 NIEKIYEFHSQHFLG----EL--EQCANLPLSVGQC------FLNHENKFYLYALYNKNK 395
+L +L E P + L + + N +K
Sbjct: 309 K-----------YLDCRPQDLPREVLTTNPRRLSIIAESIRDGLAT-WDNWKH--VNCDK 354
Query: 396 PKSDALMTEYGSSFFKAKQLELADR----MDLASYLLK-----PVQRMGKYALLLQQL-M 445
L T SS LE A+ L+ + P LL +
Sbjct: 355 -----LTTIIESSL---NVLEPAEYRKMFDRLS--VFPPSAHIPTI-------LLSLIWF 397
Query: 446 KASRQDVKDIKEAESMVRFQL--RHGNDL------LAMDSLRECDVNLKEQGRLLRQNEF 497
+ DV + + ++ L + + + ++ + + + L R
Sbjct: 398 DVIKSDVMVV--VNKLHKYSLVEKQPKESTISIPSIYLELKVKLE----NEYALHRS--- 448
Query: 498 IVSQGKGKKCLRHVFLFEELILFSKARRFPDRKNLDLYIYKHSMKMSDIG---ITAQIGD 554
IV K F P LD Y Y H IG + +
Sbjct: 449 IVDHYNIPKT------------FDSDDLIPP--YLDQYFYSH------IGHHLKNIEHPE 488
Query: 555 SSTKFEIW-----FRKRKPNETFTLQSMSEDIKQAWTDELSNL-LWKQALRNRAMRLQEM 608
T F + F ++K T + S I + L L +K + + + + +
Sbjct: 489 RMTLFRMVFLDFRFLEQKIRHDSTAWNASGSI----LNTLQQLKFYKPYICDNDPKYERL 544
Query: 609 SSMGIGNKPCLDIRPSADQISDRSISITQLNKTTPKFRNSIAVMPGSGGL 658
+ + P + + I + + + IA+M +
Sbjct: 545 VNAILDFLP----KIEENLICSKYTDLLR-----------IALMAEDEAI 579
Score = 49.1 bits (116), Expect = 5e-06
Identities = 52/394 (13%), Positives = 96/394 (24%), Gaps = 125/394 (31%)
Query: 306 EMIQTERDYVKSLEYVILNYIPELTREDIPQALRGQRNVIFGNIEKIYEFHSQHFLGELE 365
E + + Y L ++ +D+ + I E++
Sbjct: 10 ETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKS----ILSK-------------EEID 52
Query: 366 QCANLPLSVGQCFLNHENKFYLYALYNKNKPK---SDALMTEYGSSFFKAKQLELADRMD 422
+V F+ + + + L Y F ++ R
Sbjct: 53 HIIMSKDAVSGTLR----LFWTLLSKQEEMVQKFVEEVLRINYK---FLMSPIKTEQR-- 103
Query: 423 LASYLLKPVQRMGKYALLLQQLMKASRQDVKDIKEAESMVRFQLRHGNDLLAMDSLRECD 482
+P Y +L ++ K ++ R Q LR+
Sbjct: 104 ------QPSMMTRMYIEQRDRLYNDNQVFAKY-----NVSRLQP--------YLKLRQA- 143
Query: 483 VNLKEQGRLLRQNEFIVSQGK---GKKCLRHVFLFEELILFSKARRFPDRKNLDLYIYKH 539
L E LR + ++ G GK + + + + I+
Sbjct: 144 --LLE----LRPAKNVLIDGVLGSGKTWVALDVCLSYKVQ----CKMDFK------IF-- 185
Query: 540 SMKMSDIGITAQIGDSSTKFEIWF---RKRKPNETFT-LQSMSEDIKQAWTDELSNLLWK 595
W P LQ + I WT +
Sbjct: 186 ----------------------WLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHS--- 220
Query: 596 QALRNRAMRLQEMSSMGIGNKP---CLDIRPSADQISDRSISITQLN---K---TTPKFR 646
++ R +Q + +KP CL + + + N K TT R
Sbjct: 221 SNIKLRIHSIQAELRRLLKSKPYENCLLV---LLNVQNAKA-WNAFNLSCKILLTT---R 273
Query: 647 NSIAVMPGSGGLSDVGGPRTRPHSIISVSSSSGG 680
++D T H IS+ S
Sbjct: 274 FK--------QVTDFLSAATTTH--ISLDHHSMT 297
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 64.3 bits (156), Expect = 1e-10
Identities = 75/468 (16%), Positives = 144/468 (30%), Gaps = 141/468 (30%)
Query: 259 ENSLSKPMPPVSVNSHLHYSQL-------------SLDLDSASCGVQTLKTQKNLLFIMR 305
E+ L V S SQL D L K L ++
Sbjct: 17 EHVL-----LVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAEL-VGKFLGYVSS 70
Query: 306 EMIQTERDYVKSLEYVILNYIPELTREDIPQALRGQRNVIFGNIEKIYEFHSQHFLGELE 365
E V + V+ + E L G +I H+ +L
Sbjct: 71 L---VEPSKVGQFDQVLNLCLTEFEN----CYLEGN------DI------HA--LAAKLL 109
Query: 366 QCANLPLSVGQCFLNHENKFYLYALYNKNKPKSDALMTEYGSSFFKAKQLELADRM---- 421
Q + L + + K Y+ A +P + S+ F+A A +
Sbjct: 110 QENDTTLVKTKELI----KNYITARIMAKRPFD----KKSNSALFRAVGEGNAQLVAIFG 161
Query: 422 ---DLASYL--LKPVQRMGKYALLLQQLMKASRQDVKDIKEAESMVRFQLRHGNDLLA-- 474
+ Y L+ + + Y +L+ L+K S + + ++ G ++L
Sbjct: 162 GQGNTDDYFEELRDLYQT--YHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWL 219
Query: 475 --------MDSLRECDVNLKEQGRLLRQNEFI-VSQGKGKKCLRHVFLFEELILFSKARR 525
D L ++ I V Q L H + +L+ F+
Sbjct: 220 ENPSNTPDKDYLLSIPISCP----------LIGVIQ------LAHYVVTAKLLGFTPGEL 263
Query: 526 FPDRKNLDLYIYKHSMKMSDIGITAQ-IGDSSTKFEIWFRKRKPNETFTLQSMSEDIKQA 584
K + + +TA I ++ + W E+F +++A
Sbjct: 264 RSYLKGA-------TGHSQGL-VTAVAIAETDS----W-------ESFF-----VSVRKA 299
Query: 585 WTDELSNLLW-----KQALRNRAMR---LQEMSSMGIGNKPC--LDIR-PSADQISDRSI 633
++ L + +A N ++ L++ G P L I + +Q+ D
Sbjct: 300 ----ITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEG-VPSPMLSISNLTQEQVQDY-- 352
Query: 634 SITQLNKTTPKFRN-SIAVMPGSGGLSD---VGGPRTRPHSIISVSSS 677
+ + N P + I+++ G + V GP P S+ ++ +
Sbjct: 353 -VNKTNSHLPAGKQVEISLVNG----AKNLVVSGP---PQSLYGLNLT 392
Score = 59.3 bits (143), Expect = 4e-09
Identities = 61/383 (15%), Positives = 113/383 (29%), Gaps = 123/383 (32%)
Query: 407 SSFFKAKQLELADRMDLASYLLKPVQRMGKYALLLQQLMKASRQDVKDIKEAESMVRFQL 466
+SFF A QL + L +P + D + AE + +F L
Sbjct: 25 ASFFIASQL----QEQFNKILPEPTEGFA--------------ADDEPTTPAELVGKF-L 65
Query: 467 RHGNDLLAMDSLRECDVNLK------EQGRLLRQNEFIVSQGKGKKCLRHVFLFEELILF 520
+ + L+ + + D L E L N+ I H + +L
Sbjct: 66 GYVSSLVEPSKVGQFDQVLNLCLTEFEN-CYLEGND-I-----------HALAAK--LLQ 110
Query: 521 SKARRFPDRKNLDLYIYKHSMKMSDIGITAQIGDSSTKFEIWFR--KRKPNETFTL---Q 575
K L + Y + M+ + +S+ FR + + Q
Sbjct: 111 ENDTTLVKTKEL-IKNYITARIMAKRPFDKK-SNSA-----LFRAVGEGNAQLVAIFGGQ 163
Query: 576 SMSEDIKQAWTDELSNL------LWKQALRNRAMRLQEMSSMGIGNKPC----LDI---- 621
++D + +EL +L L ++ A L E+ + + L+I
Sbjct: 164 GNTDD----YFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWL 219
Query: 622 -----RPSAD-----QISDRSISITQL----------NKTTPKFRNSIAVMPGSGGLSDV 661
P D IS I + QL T + R+ + G +
Sbjct: 220 ENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLK------GATGH 273
Query: 662 GGPRTRPHSIISVSSSSGGSSSGSMNGG-----------GPR--QTSQCSSAESGIVTDW 708
+++ + + S S G R + +S I+ D
Sbjct: 274 SQ------GLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILED- 326
Query: 709 HTTRSNSSVTSDSTSPSHQVSVK 731
S+ ++ PS +S+
Sbjct: 327 -------SLENNEGVPSPMLSIS 342
Score = 41.2 bits (96), Expect = 0.001
Identities = 102/582 (17%), Positives = 179/582 (30%), Gaps = 214/582 (36%)
Query: 1 RNLDKAGD--LLEECGGSSAPGVTT-GGSG-------------------LKDLARNLRQH 38
R DK + L G +A V GG G + DL + +
Sbjct: 135 RPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAET 194
Query: 39 LRGFSERLEDTRERLEDTSRCYYLLDRAYEWALEAMKYISRVKPEDQTSIEPTVKQLRQY 98
L D ++ + L ++++ P + P Y
Sbjct: 195 LSELIRTTLDA--------------EKVFTQGLNILEWLE--NPSNT----PDK----DY 230
Query: 99 LMAHP---PLASEHFTEMIQLAKKLNNDKLIEQCKVAQCRCEE-TLEQIRSYLGADSTHQ 154
L++ P PL +IQLA V + T ++RSYL + H
Sbjct: 231 LLSIPISCPL-----IGVIQLA-----------HYVVTAKLLGFTPGELRSYLKGATGH- 273
Query: 155 WNTSTPLPSRRKSLAPSPSPHHTPSHACPCWDP-GDNSTLPSPSIPEECYCRTGNHSNHP 213
S L + ++A + + W+ + +I G
Sbjct: 274 ---SQGLVT---AVAIAET---------DSWESFFVSVRK---AI--TVLFFIGVRC--- 310
Query: 214 LQRSCTWQYPTENYDEEEDKVSSVDNTTEGSDTGKSGEECCEEPSENSLSKPMPPVSVNS 273
+ YP + + S++N EG PS PM +S+ S
Sbjct: 311 -YEA----YPNTSLPPSILE-DSLEN-NEG------------VPS------PM--LSI-S 342
Query: 274 HLHYSQLSLDLDSASCGVQTLKTQKNLLFIMREMIQTERDYV-----KSLEYVILNYIPE 328
+L Q+ ++ + L K + I ++ ++ V +SL + L
Sbjct: 343 NLTQEQVQDYVNKTN---SHLPAGKQ-VEI--SLVNGAKNLVVSGPPQSLYGLNL----T 392
Query: 329 LTREDIPQALRGQRNVIFGNIEKIYEFHSQHFLGELEQCANLPLSVGQCFLNHENKFYLY 388
L + P L Q + F K+ +F ++ F LP++ F H + L
Sbjct: 393 LRKAKAPSGL-DQSRIPFSE-RKL-KFSNR-F---------LPVASP--F--HSH--LL- 432
Query: 389 ALYNKNKPKSDALMTEYGSS--FFKAKQLELADRMDLASYLLKPVQRMGKYALL----LQ 442
P SD + + + F AK +++ PV Y L+
Sbjct: 433 ------VPASDLINKDLVKNNVSFNAKDIQI------------PV-----YDTFDGSDLR 469
Query: 443 QLMKASRQDVKD-IKEA----ESMVRFQLRHGNDLLAMDSLRECDVNLKEQGRLLRQNEF 497
L + + + D I E+ +F+ H +L + G L +N+
Sbjct: 470 VLSGSISERIVDCIIRLPVKWETTTQFKATH---ILDFGPGGASGL-----GVLTHRNK- 520
Query: 498 IVSQGKGKKCLRHVFLFEELILFSKARRFPDRKNLDLYIYKH 539
G G +R +I+ PD D Y +K
Sbjct: 521 ---DGTG---VR-------VIVAGTLDINPD----DDYGFKQ 545
Score = 34.6 bits (79), Expect = 0.13
Identities = 97/558 (17%), Positives = 167/558 (29%), Gaps = 189/558 (33%)
Query: 32 ARNLRQHLRGFSERLEDTRERL----EDTSRCYYLLDRAYEWALEAMKYISR-VKPEDQT 86
A L++ F++ L + E E T+ E + + Y+S V+P
Sbjct: 30 ASQLQEQ---FNKILPEPTEGFAADDEPTT--------PAELVGKFLGYVSSLVEPSKVG 78
Query: 87 SIEPTVKQL-----RQYLMA---HPPLASEHFTEMIQLAKKLNNDKLIEQCKVAQCRCEE 138
+ + YL H LA KL + K
Sbjct: 79 QFDQVLNLCLTEFENCYLEGNDIH------------ALAAKLLQENDTTLVKTK------ 120
Query: 139 TLEQIRSYLGADSTHQWNTSTPLPSRRKS-LAPSPSPHHTPSHAC--------PCWDPGD 189
E I++Y+ A P + S L + + A ++
Sbjct: 121 --ELIKNYITARIM----AKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFE--- 171
Query: 190 NSTLPSPSIPE--ECYCRTGNHSNHPLQRSCTWQYPTENYDEEEDKVSSVDNT-TEGSDT 246
E + Y +T + L + E E + T+G +
Sbjct: 172 ----------ELRDLY-QTYHVLVGDLIKFS-----AETLSELIRTTLDAEKVFTQGLNI 215
Query: 247 GKSGEECCEEPSENSL-SKP--MPPVSVNSHLHYS----QLSL---DLDSASCGVQTLKT 296
+ E P ++ L S P P + V HY L +L S G
Sbjct: 216 LEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKG--ATGH 273
Query: 297 QKNLL---FIMREMIQTERDY----VKSLEYVILNYIPELTREDIPQALRGQRNVIFGNI 349
+ L+ I + + K++ +L +I +R + N
Sbjct: 274 SQGLVTAVAI--AETDSWESFFVSVRKAIT--VLFFI----------GVRCYE--AYPNT 317
Query: 350 E---KIYEFHSQHFLGE------LEQCANLPLSVGQCFLNHENKF-------YLYALYN- 392
I E ++ E L +NL Q ++N N + +L N
Sbjct: 318 SLPPSILEDSLEN--NEGVPSPML-SISNLTQEQVQDYVNKTNSHLPAGKQVEI-SLVNG 373
Query: 393 -KN-----KPKSDALMTEYG--SSFFKAK--------QLELADRMD------LA------ 424
KN P+S L YG + KAK ++ ++R L
Sbjct: 374 AKNLVVSGPPQS--L---YGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFH 428
Query: 425 SYLLKPVQRMGKYALLLQQLMKASRQ-DVKDIKEAESMVRFQLRHGNDLLAMDSLRECDV 483
S+LL P L+ + L+K + + KDI+ V + G+D LR
Sbjct: 429 SHLLVPAS-----DLINKDLVKNNVSFNAKDIQIP---V-YDTFDGSD------LRVLSG 473
Query: 484 NLKEQGRLLRQNEFIVSQ 501
++ E R++ I+
Sbjct: 474 SISE--RIVDC---IIRL 486
Score = 31.2 bits (70), Expect = 1.5
Identities = 26/131 (19%), Positives = 39/131 (29%), Gaps = 40/131 (30%)
Query: 87 SIE-----PT-----VKQLRQYLMAHPPLASEHFTE------MIQL-AKKLN-NDKLIEQ 128
S+E PT QL++ P +E F +L K L L+E
Sbjct: 15 SLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEP 74
Query: 129 CKVAQCRCEETLEQI-----RSYLGADSTH------QWNTSTPLPSRRK---------SL 168
KV Q ++ L YL + H T L ++ +
Sbjct: 75 SKVGQ--FDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIM 132
Query: 169 APSPSPHHTPS 179
A P + S
Sbjct: 133 AKRPFDKKSNS 143
>1v61_A RAC/CDC42 guanine nucleotide exchange factor (GEF) 6; pleckstrin
homology domain, structural genomics; NMR {Mus musculus}
SCOP: b.55.1.1
Length = 132
Score = 42.6 bits (100), Expect = 6e-05
Identities = 18/115 (15%), Positives = 46/115 (40%), Gaps = 11/115 (9%)
Query: 484 NLKEQGRLLRQNEFIV-SQGKGKKCLRHVFLFEELILFSKARRFPDRKNLDLYIYKHSMK 542
++K G ++ ++ ++ +K R+ LF +++ A + ++Y+ +
Sbjct: 21 DIKTLGNVIFMSQVVMQHGACEEKEERYFLLFSSVLIMLSA-----SPRMSGFMYQGKIP 75
Query: 543 MSDIGITA--QIGDSSTKFEIWFRKRKPNETFTLQSMSEDIKQAWTDELSNLLWK 595
++ + + +I S FEI E + + Q W ++L+ L
Sbjct: 76 IAGMVVNRLDEIEGSDCMFEI---TGSTVERIVVHCNNNQDFQEWMEQLNRLTKS 127
>2lg1_A A-kinase anchor protein 13; metal binding protein; NMR {Homo
sapiens}
Length = 185
Score = 43.2 bits (101), Expect = 8e-05
Identities = 18/142 (12%), Positives = 51/142 (35%), Gaps = 8/142 (5%)
Query: 455 IKEAESMVRF-QLRHGNDLLAMDSLRECDVNLKE---QGRLLRQNEFIVSQGKGKKCLRH 510
+ E VR ++ D ++ ++ + KE + +L+R + G+
Sbjct: 31 VASYEKKVRLNEIYTKTDSKSIMRMKSGQMFAKEDLKRKKLVRDGSVFLKNAAGRLKEVQ 90
Query: 511 VFLFEELILFSKARRFPDRKNLDLYIYKHS-MKMSDIGITAQIGDSSTKFEIWFRKRKPN 569
L ++++F + + K + + + + + + F I P
Sbjct: 91 AVLLTDILVF--LQEKDQKYIFASLDQKSTVISLKKLIVREVAHEEKGLFLISMGMTDP- 147
Query: 570 ETFTLQSMSEDIKQAWTDELSN 591
E + + S++ + +W + +
Sbjct: 148 EMVEVHASSKEERNSWIQIIQD 169
>1zc3_B Exocyst complex protein EXO84; exocytosis, small GTPase,
GTP-binding protein,, signaling protein; HET: GNP; 2.00A
{Rattus norvegicus} SCOP: b.55.1.1 PDB: 1zc4_B*
Length = 113
Score = 37.5 bits (87), Expect = 0.002
Identities = 18/104 (17%), Positives = 36/104 (34%), Gaps = 8/104 (7%)
Query: 490 RLLRQNEFIVSQGKGKK--CLRHVFLFEELILFSKARRFPDRKNLDLYIYKHSMKMSDIG 547
L+ + + + H FL + +L A P R+ + Y Y + +
Sbjct: 7 YLVYNGDLVEYEADHMAQLQRVHGFLMNDCLLV--ATWLPQRRGM--YRYNALYPLDRLA 62
Query: 548 ITAQIGDSSTKFEIWFRKRKPNETFTLQSMSEDIKQAWTDELSN 591
+ + K F+ E+ Q+ + IK+ W + L
Sbjct: 63 VVNVKDNPPMKDM--FKLLMFPESRIFQAENAKIKREWLEVLEE 104
>2cod_A Centaurin-delta 1; ARF GAP and RHO GAP with ankyrin repeat and PH
domains (ARAP) 2, PH domain, structural genomics,
NPPSFA; NMR {Homo sapiens} SCOP: b.55.1.1
Length = 115
Score = 32.4 bits (74), Expect = 0.14
Identities = 18/79 (22%), Positives = 31/79 (39%), Gaps = 10/79 (12%)
Query: 530 KNLDLYIYKHSMKMSDIG------ITAQIGDSSTKFEIWFRKRKPNETFTLQSMSEDIKQ 583
L + Y + +M G I+ KFE+ +R TF + E+ +
Sbjct: 33 DGLSISYYNNEKEMYSKGIIPLSAISTVRVQGDNKFEVVTTQR----TFVFRVEKEEERN 88
Query: 584 AWTDELSNLLWKQALRNRA 602
W L N L Q+L +++
Sbjct: 89 DWISILLNALKSQSLTSQS 107
>3fku_X Neutralizing antibody F10; influenza, hemagglutinin, SCFV, F
membrane, envelope protein, fusion protein, membrane,
trans virion; HET: NAG BMA; 3.20A {Homo sapiens}
Length = 280
Score = 31.9 bits (73), Expect = 0.57
Identities = 16/58 (27%), Positives = 24/58 (41%), Gaps = 4/58 (6%)
Query: 646 RNSIAVMPGSGGLSDVGGPRTRPHSIISVSSSSGGSSSGSMNGGGPRQTSQCSSAESG 703
R+ + G + D G T +++VSS GGS G GGG + + S
Sbjct: 98 RSPSYICSGGTCVFDHWGQGT----LVTVSSGGGGSGGGGSGGGGIQPGLTQPPSVSK 151
>3qwm_A Iqsec1, IQ motif and SEC7 domain-containing protein 1; structural
genomics, structural genomics consortium, SGC; 2.39A
{Homo sapiens}
Length = 140
Score = 30.8 bits (69), Expect = 0.73
Identities = 16/86 (18%), Positives = 34/86 (39%), Gaps = 7/86 (8%)
Query: 509 RHVFLFEELILFSKARRFPDRKNLDLYIYKHSMKMSDIGITAQIGDSSTKFEIWFRKRKP 568
R +FLF +L++ +K F +KN Y ++ S + + + + I P
Sbjct: 36 REIFLFNDLLVVTKI--FQKKKNSVTYSFRQSFSLYGMQVLL-FENQYYPNGIRLTSSVP 92
Query: 569 NE----TFTLQSMSEDIKQAWTDELS 590
+ + ++ +TD+L
Sbjct: 93 GADIKVLINFNAPNPQDRKKFTDDLR 118
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 30.7 bits (68), Expect = 0.88
Identities = 9/40 (22%), Positives = 15/40 (37%), Gaps = 10/40 (25%)
Query: 311 ERDYVKSLEYVILNYIPELTREDIPQALRGQRNVIFGNIE 350
E+ +K L+ + Y + P AL I +E
Sbjct: 18 EKQALKKLQASLKLYAD----DSAP-AL-----AIKATME 47
>3tdu_C Cullin-1, CUL-1; E2:E3, ligase-protein binding complex; 1.50A {Homo
sapiens} PDB: 3tdz_C
Length = 77
Score = 28.6 bits (64), Expect = 1.3
Identities = 13/46 (28%), Positives = 20/46 (43%)
Query: 487 EQGRLLRQNEFIVSQGKGKKCLRHVFLFEELILFSKARRFPDRKNL 532
E+ R L IV K +K L+H L E++ +R P +
Sbjct: 5 EEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVI 50
>3v1v_A 2-MIB synthase, 2-methylisoborneol synthase; class I terpenoid
cyclase fold, DDXXXXD motif, NDXXSXXXE MOT
methylisoborneol biosynthesis; HET: GST; 1.80A
{Streptomyces coelicolor} PDB: 3v1x_A*
Length = 433
Score = 30.5 bits (68), Expect = 2.0
Identities = 12/53 (22%), Positives = 19/53 (35%)
Query: 147 LGADSTHQWNTSTPLPSRRKSLAPSPSPHHTPSHACPCWDPGDNSTLPSPSIP 199
+G+ H ++S +P + PS S S P P+P P
Sbjct: 1 MGSSHHHHHHSSGLVPRGSHMVIPSASVTSAASDFLAALHPPVTVPDPAPPPP 53
>3ghg_A Fibrinogen alpha chain; triple-stranded coiled coil, beta sheets,
alpha helices, AMY amyloidosis, blood coagulation,
disease mutation, glycoprot phosphoprotein; HET: NAG NDG
BMA MAN GAL SIA; 2.90A {Homo sapiens} PDB: 3h32_A*
2a45_G*
Length = 562
Score = 30.6 bits (68), Expect = 2.2
Identities = 22/78 (28%), Positives = 26/78 (33%), Gaps = 5/78 (6%)
Query: 653 PGSGGLSDVGGPRTRPHSIISVSSSSGGSSSGSMNGG----GPRQTSQCSSAESGIVTDW 708
PGS G + G T + SSG S+GS N G G S G W
Sbjct: 283 PGSTGNRNPGSSGTGGTATWK-PGSSGPGSTGSWNSGSSGTGSTGNQNPGSPRPGSTGTW 341
Query: 709 HTTRSNSSVTSDSTSPSH 726
+ S TS S
Sbjct: 342 NPGSSERGSAGHWTSESS 359
Score = 30.2 bits (67), Expect = 2.7
Identities = 11/80 (13%), Positives = 18/80 (22%), Gaps = 5/80 (6%)
Query: 647 NSIAVMPGSGGLSDVGGPRTRPHSIISVSSSSGGSSSGSMNGGGPRQTSQCSSAESGIVT 706
GS G RP++ + + +S
Sbjct: 365 GQWHSESGSFRPDSPGSGNARPNNPDWGTFEEVSGNVSPGTRREYHTEKLVTSKGDK--- 421
Query: 707 DWHTTRSNSSVTSDSTSPSH 726
VTS ST+ +
Sbjct: 422 --ELRTGKEKVTSGSTTTTR 439
>3up1_A Interleukin-7 receptor subunit alpha; cytokine receptor,
fibronectin type 3 fold, membrane and SOL glycosylation,
immune system; HET: NAG FUC NGA; 2.15A {Homo sapiens}
PDB: 3di3_B* 3di2_B*
Length = 223
Score = 29.8 bits (66), Expect = 2.9
Identities = 12/81 (14%), Positives = 23/81 (28%), Gaps = 1/81 (1%)
Query: 182 CPCWDPGDNSTLPSPSIPEECYCRTGNHSNHPLQRSCTWQYPTENYDEEEDKVSSVDNTT 241
GD CY + + + +C ++ P N E ++
Sbjct: 6 SGYAQNGDLEDAELDDYSFSCYSQLEVNGSQHSL-TCAFEDPDVNTTNLEFEICGALVEV 64
Query: 242 EGSDTGKSGEECCEEPSENSL 262
+ + K E E + L
Sbjct: 65 KCLNFRKLQEIYFIETKKFLL 85
>3uzq_A Anti-dengue MAB 4E11; dengue antibody neutralization, immune
system; HET: MES; 1.60A {Mus musculus} PDB: 3uze_A*
3uyp_A* 3uzv_B 1dzb_A
Length = 253
Score = 29.2 bits (66), Expect = 3.8
Identities = 10/28 (35%), Positives = 12/28 (42%)
Query: 674 VSSSSGGSSSGSMNGGGPRQTSQCSSAE 701
VS+ GGS G GGG + A
Sbjct: 115 VSAGGGGSGGGGSGGGGSELVMTQTPAS 142
>3r79_A Uncharacterized protein; PSI-biology, structural genomics, NEW YORK
structural genomi research consortium, TIM barrel; HET:
PLP; 1.90A {Agrobacterium tumefaciens}
Length = 244
Score = 29.0 bits (66), Expect = 4.1
Identities = 10/30 (33%), Positives = 14/30 (46%), Gaps = 3/30 (10%)
Query: 99 LMAHPPL---ASEHFTEMIQLAKKLNNDKL 125
LM PP HF + +LA + +KL
Sbjct: 164 LMCIPPAEENPGPHFALLAKLAGQCGLEKL 193
>2gki_A Nuclease; anti-DNA antibody, catalytic antibody, immune system;
2.88A {Mus musculus}
Length = 291
Score = 29.2 bits (66), Expect = 4.8
Identities = 13/31 (41%), Positives = 16/31 (51%), Gaps = 2/31 (6%)
Query: 674 VSSSSGGSSSGSMNGGGPRQT--SQCSSAES 702
VSS GG S G +GGG SQ S+ +
Sbjct: 140 VSSRGGGGSGGGGSGGGGSDLVMSQSPSSLA 170
>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport
protein; 2.50A {Saccharomyces cerevisiae}
Length = 177
Score = 28.5 bits (63), Expect = 5.6
Identities = 16/115 (13%), Positives = 43/115 (37%), Gaps = 17/115 (14%)
Query: 317 SLEYVILNYIPELTREDIPQALRGQRNVIFGNIEKIYEFHSQHFLGELEQCANLPLSVGQ 376
S Y++ + +L++ R + + + ++ +++ G
Sbjct: 67 SFLYLVTGDVNKLSKMQNIAQTREDFGSML---------LNTFYNNSTKERSSIFAEGGS 117
Query: 377 CFLNHENKFYLYALYNKNKPKSDALMTEYGSSFFKAKQLELADRMDLASYLLKPV 431
L Y A N ++ + A + + + + L D+MD ++++ +PV
Sbjct: 118 LPLA-----YAVAKANGDEAAASAFLEQAEVDE---QDVTLPDQMDASNFVQRPV 164
>1eaz_A Tandem PH domain containing protein-1; lipid-binding protein, lipid
degradation, phosphatidylinositol (3, 4)-bisphosphate,
signalling; HET: CIT; 1.40A {Homo sapiens} SCOP:
b.55.1.1
Length = 125
Score = 27.8 bits (62), Expect = 5.8
Identities = 11/48 (22%), Positives = 20/48 (41%), Gaps = 4/48 (8%)
Query: 559 FEIWFRKRKPNETFTLQSMSEDIKQAWTDELSNLLWKQALRNRAMRLQ 606
FEI + TF +Q+ S + +W +S + Q R+ +
Sbjct: 80 FEI----VTTSRTFYVQADSPEEMHSWIKAVSGAIVAQRGPGRSASSE 123
>3juy_B 3B3 single chain variant HIV-1 antibody; envelope protein GP120,
broadly neutralizing antibody, 3B3 single chain variable
fragment, immune system; 2.50A {Homo sapiens}
Length = 256
Score = 28.9 bits (65), Expect = 6.0
Identities = 16/49 (32%), Positives = 21/49 (42%), Gaps = 3/49 (6%)
Query: 674 VSSSSGGSSSGSMNGGGPR-QTSQCSSAESGIVTD--WHTTRSNSSVTS 719
VSS GGS G GGG +Q S + + RS+ S+ S
Sbjct: 131 VSSGGGGSGGGGSGGGGSEIVLTQAPGTLSLSPGERATFSCRSSHSIRS 179
>2b9c_A Striated-muscle alpha tropomyosin; alpha-helix, coiled coil,
alanine, axial stagger, radius, SIDE-chain packing,
crystal packing; 2.30A {Rattus norvegicus} SCOP: h.1.5.1
Length = 147
Score = 28.1 bits (62), Expect = 6.1
Identities = 21/116 (18%), Positives = 55/116 (47%), Gaps = 9/116 (7%)
Query: 35 LRQHLRGFSERLEDTRERLEDTSRCYYLLDRAYEWALEAMKYISRVKPEDQTSIEPTVKQ 94
+ + ++ E L+ +ERL + ++A + + MK I +D+ +E Q
Sbjct: 1 MNRRIQLVEEELDRAQERLATALQKLEEAEKAADESERGMKVIESRAQKDEEKMEIQEIQ 60
Query: 95 LRQYLMAHPPLASEHFTEMIQLAKKLNN-----DKLIEQCKVAQCRCEETLEQIRS 145
L++ +A + + ++A+KL ++ E+ ++++ +C E E++++
Sbjct: 61 LKEAKH----IAEDADRKYEEVARKLVIIESDLERAEERAELSEGKCAELEEELKT 112
>3edu_A Beta-I spectrin, spectrin beta chain, erythrocyte; ankyrin,
ankyrin-binding domain, actin capping, AC binding,
cytoskeleton, disease mutation; 2.10A {Homo sapiens}
PDB: 3f57_A
Length = 218
Score = 28.4 bits (63), Expect = 6.4
Identities = 20/142 (14%), Positives = 46/142 (32%), Gaps = 5/142 (3%)
Query: 1 RNLDKAGDLLEECGGSSAPGVTTGGSGLKDLARNLRQHLRGFSERLEDTRERLEDTSRCY 60
N++ + L + G S A + GL ++ +L + + + L + + R +
Sbjct: 59 DNVNAFIERLIDAGHSEAATIAEWKDGLNEMWADLLELIDTRMQLLAASYDLH----RYF 114
Query: 61 YLLDRAYEWALEAMKYISRVKPEDQTSIEPTVKQLRQYLMAHPPLASEHFTEMIQLAKKL 120
Y E + + D ++ E + L + +A +L
Sbjct: 115 YTGAEILGLIDEKHRELPEDVGLDASTAESFHRVHTA-FERELHLLGVQVQQFQDVATRL 173
Query: 121 NNDKLIEQCKVAQCRCEETLEQ 142
E+ + Q + +E
Sbjct: 174 QTAYAGEKAEAIQNKEQEVSAA 195
>2q13_A DCC-interacting protein 13 alpha; APPL1, BAR domain, PH domain,
BAR-PH domain, protein transpo; 2.05A {Homo sapiens}
PDB: 2z0o_A 2elb_A
Length = 385
Score = 28.8 bits (63), Expect = 6.7
Identities = 39/348 (11%), Positives = 98/348 (28%), Gaps = 45/348 (12%)
Query: 292 QTLKTQKNLLFIMREMIQTERDYVKSLEYVILNYIPELTREDIPQALRGQRNVIFGNIEK 351
Q + + E+ K L+ P +++ + Q + + +
Sbjct: 39 QLYQAMHRIYDAQNELSAATHLTSKLLKEYEKQRFPLGGDDEVMSSTLQQFSKVIDELSS 98
Query: 352 IYEFHSQH----FLGELEQCANLPLS--------VGQCFLNHENKFYLYALYNKNKPKSD 399
+ S + + Q L +H+ Y+ +K + ++D
Sbjct: 99 CHAVLSTQLADAMMFPITQFKERDLKEILTLKEVFQIASNDHDAAINRYSRLSKKR-END 157
Query: 400 ALMTEYGSSFFKAKQLELADRMDLASYLLKPVQRMGKYALLLQQLMKASRQDVKDIKEAE 459
+ E + +++ + M L + K LL+ L+ + + K
Sbjct: 158 KVKYEVTEDVYTSRKKQHQTMMHYFCALNTLQYK--KKIALLEPLLGYMQAQISFFKMGS 215
Query: 460 SMVRFQLRHGNDLLAMDSLRECDVNLKEQGRLLR---------QNEFIVSQGKGKKCLRH 510
+ QL + + + + ++ K +
Sbjct: 216 ENLNEQLEEFLANIGTSVQNVRREMDSDIETMQQTIEDLEVASDPLYVPDPDPTKFPVNR 275
Query: 511 VFLFEELILFSKA----------RRFPDRKNLDLYIYKHS-----MKMSDIGITAQIGDS 555
+ L ++ R+F + +L + M + D
Sbjct: 276 NLTRKAGYLNARNKTGLVSSTWDRQFYFTQGGNLMSQARGDVAGGLAMDIDNCSVMAVDC 335
Query: 556 STK---FEIWFRKRKPNETFTLQSMSEDIKQAWTDELSNLLWKQALRN 600
+ F+I ++ LQ+ S+ + W ++N+ KQ +
Sbjct: 336 EDRRYCFQI--TSFDGKKSSILQAESKKDHEEWICTINNIS-KQIYLS 380
>2awi_A PRGX; repressor, pheromone, DNA binding, regulatory domain,
transcription; 2.25A {Enterococcus faecalis} SCOP:
a.35.1.11 a.118.8.4 PDB: 2axv_A 2axu_A 2aw6_A 2axz_A
2grl_A 2grm_A
Length = 317
Score = 28.8 bits (64), Expect = 7.0
Identities = 17/165 (10%), Positives = 49/165 (29%), Gaps = 20/165 (12%)
Query: 298 KNLLFIMREMIQTERDYVKSLEYVILNYIPELTREDIPQALRGQRNVIFGNIEKIYEFHS 357
+ + I++ M + K + I + +N + +I +
Sbjct: 166 EEVSSIIKPMYPIVDSFGKDYDLTIQTVL---------------KNALTISIMNRNLKEA 210
Query: 358 QHFLGELEQCANLPLSVGQCFLNHENKFY--LYALYNKNKPKSDALMTEYGSSFFKAKQL 415
Q+++ + E + + + E + +Y S + F +
Sbjct: 211 QYYINQFEHLKTIKNISINGYYDLEINYLKQIYQFLTDKNIDSYLNAVNIINIFKIIGKE 270
Query: 416 ELADRM--DLASYLLK-PVQRMGKYALLLQQLMKASRQDVKDIKE 457
++ + +L K + + + + + +IKE
Sbjct: 271 DIHRSLVEELTKISAKEKFTPPKEVTMYYENYVAIENNPIPEIKE 315
>2dhk_A TBC1 domain family member 2; PH domain, paris-1, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens}
Length = 119
Score = 27.4 bits (61), Expect = 7.5
Identities = 13/78 (16%), Positives = 26/78 (33%), Gaps = 12/78 (15%)
Query: 528 DRKNLDLYIYKHSMKMSDIGI----TAQIGDSSTK----FEIWFRKRKPNETFTLQSMSE 579
D + LY + + + + +A + FEI R TL++ ++
Sbjct: 34 DERKCQLYYSRTAQDANPLDSIDLSSAVFDCKADAEEGIFEIKTPSR----VITLKAATK 89
Query: 580 DIKQAWTDELSNLLWKQA 597
W +L W+
Sbjct: 90 QAMLYWLQQLQMKRWEFH 107
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.315 0.130 0.383
Gapped
Lambda K H
0.267 0.0481 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 10,781,515
Number of extensions: 643473
Number of successful extensions: 1775
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1653
Number of HSP's successfully gapped: 65
Length of query: 732
Length of database: 6,701,793
Length adjustment: 101
Effective length of query: 631
Effective length of database: 3,881,772
Effective search space: 2449398132
Effective search space used: 2449398132
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 61 (27.9 bits)