RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4245
(328 letters)
>2wt7_B Transcription factor MAFB; transcription, transcription regulation,
nucleus, activator, repressor, DNA-binding,
phosphoprotein, differentiation; 2.30A {Mus musculus}
PDB: 2wty_A* 1k1v_A
Length = 90
Score = 98.5 bits (245), Expect = 4e-26
Identities = 42/86 (48%), Positives = 62/86 (72%)
Query: 227 DLLMCLSVRELNKKLHGYPRDQIAKLKAKRRTLKNRGYAQNCRSKRLHQRQELEVTNKHL 286
D L+ +SVRELN+ L G+ +D++ +LK KRRTLKNRGYAQ+CR KR+ Q+ LE L
Sbjct: 1 DQLVSMSVRELNRHLRGFTKDEVIRLKQKRRTLKNRGYAQSCRYKRVQQKHHLENEKTQL 60
Query: 287 QQQLQKMKSEIKQIVEERNHYKKQYE 312
QQ++++K E+ ++ ER+ YK + E
Sbjct: 61 IQQVEQLKQEVSRLARERDAYKVKSE 86
>3a5t_A Transcription factor MAFG; protein-DNA complex, BZIP factor,
acetylation, DNA-binding, isopeptide bond, nucleus;
2.80A {Mus musculus}
Length = 107
Score = 98.2 bits (244), Expect = 1e-25
Identities = 40/95 (42%), Positives = 64/95 (67%)
Query: 222 DLISDDLLMCLSVRELNKKLHGYPRDQIAKLKAKRRTLKNRGYAQNCRSKRLHQRQELEV 281
++D+ L+ +SVRELN+ L G +++I +LK +RRTLKNRGYA +CR KR+ Q++ELE
Sbjct: 6 TSLTDEELVTMSVRELNQHLRGLSKEEIIQLKQRRRTLKNRGYAASCRVKRVTQKEELEK 65
Query: 282 TNKHLQQQLQKMKSEIKQIVEERNHYKKQYEIVMR 316
LQQ+++K+ SE + E + + +YE +
Sbjct: 66 QKAELQQEVEKLASENASMKLELDALRSKYEALQN 100
>1skn_P DNA-binding domain of SKN-1; complex (transcription factor/DNA),
transcription/DNA complex; HET: DNA LDA; 2.50A
{Caenorhabditis elegans} SCOP: a.37.1.1
Length = 92
Score = 49.2 bits (117), Expect = 5e-08
Identities = 14/59 (23%), Positives = 27/59 (45%), Gaps = 2/59 (3%)
Query: 224 ISDDLLMCLSVRELNKKL--HGYPRDQIAKLKAKRRTLKNRGYAQNCRSKRLHQRQELE 280
+S + +S+ EL + L Q ++ RR KN+ A+ CR +R + ++
Sbjct: 31 VSAFQISEMSLSELQQVLKNESLSEYQRQLIRKIRRRGKNKVAARTCRQRRTDRHDKMS 89
>1t2k_D Cyclic-AMP-dependent transcription factor ATF-2; protein DNA
complex, transcription/DNA complex; 3.00A {Homo sapiens}
SCOP: h.1.3.1
Length = 61
Score = 47.0 bits (112), Expect = 1e-07
Identities = 15/58 (25%), Positives = 25/58 (43%)
Query: 253 KAKRRTLKNRGYAQNCRSKRLHQRQELEVTNKHLQQQLQKMKSEIKQIVEERNHYKKQ 310
K ++ +NR A R KR Q LE + L +++SE+ + E K+
Sbjct: 1 KRRKFLERNRAAASRSRQKRKVWVQSLEKKAEDLSSLNGQLQSEVTLLRNEVAQLKQL 58
>1jnm_A Proto-oncogene C-JUN; BZIP, protein-DNA complex, transcription/DNA
complex; 2.20A {Homo sapiens} SCOP: h.1.3.1 PDB: 1fos_F
2h7h_A 1t2k_C 1a02_J* 1s9k_E 1jun_A
Length = 62
Score = 46.2 bits (110), Expect = 3e-07
Identities = 16/58 (27%), Positives = 30/58 (51%)
Query: 253 KAKRRTLKNRGYAQNCRSKRLHQRQELEVTNKHLQQQLQKMKSEIKQIVEERNHYKKQ 310
KA+R+ ++NR A R ++L + LE K L+ Q ++ S + E+ K++
Sbjct: 1 KAERKRMRNRIAASKSRKRKLERIARLEEKVKTLKAQNSELASTANMLREQVAQLKQK 58
>2wt7_A Proto-oncogene protein C-FOS; transcription, transcription
regulation, nucleus, activator, repressor, DNA-binding,
phosphoprotein, differentiation; 2.30A {Mus musculus}
PDB: 1fos_E* 1a02_F* 1s9k_D
Length = 63
Score = 44.0 bits (104), Expect = 2e-06
Identities = 12/58 (20%), Positives = 28/58 (48%)
Query: 253 KAKRRTLKNRGYAQNCRSKRLHQRQELEVTNKHLQQQLQKMKSEIKQIVEERNHYKKQ 310
K + R +N+ A CR++R L+ L+ + +++EI +++E+ +
Sbjct: 2 KRRIRRERNKMAAAKCRNRRRELTDTLQAETDQLEDEKSALQTEIANLLKEKEKLEFI 59
>1dh3_A Transcription factor CREB; protein-DNA complex, transcription/DNA
complex; HET: DNA; 3.00A {Mus musculus} SCOP: h.1.3.1
Length = 55
Score = 41.6 bits (98), Expect = 8e-06
Identities = 15/54 (27%), Positives = 27/54 (50%)
Query: 253 KAKRRTLKNRGYAQNCRSKRLHQRQELEVTNKHLQQQLQKMKSEIKQIVEERNH 306
K + R +KNR A+ R K+ + LE L+ Q + + E+K + + +H
Sbjct: 1 KREVRLMKNREAARESRRKKKEYVKSLENRVAVLENQNKTLIEELKALKDLYSH 54
>1ci6_A Transcription factor ATF-4; BZIP; 2.60A {Homo sapiens} SCOP:
h.1.3.1
Length = 63
Score = 38.9 bits (91), Expect = 9e-05
Identities = 16/62 (25%), Positives = 30/62 (48%), Gaps = 10/62 (16%)
Query: 252 LKAKRRTLKNRGYAQNCRSKR------LHQR-QELEVTNKHLQQQLQKMKSEI---KQIV 301
+K ++ +N+ A R K+ L +ELE N+ L+++ + EI K ++
Sbjct: 1 MKKLKKMEQNKTAATRYRQKKRAEQEALTGECKELEKKNEALKERADSLAKEIQYLKDLI 60
Query: 302 EE 303
EE
Sbjct: 61 EE 62
>2kz5_A Transcription factor NF-E2 45 kDa subunit; structural genomics,
northeast structural genomics consortiu PSI-2, protein
structure initiative; NMR {Homo sapiens}
Length = 91
Score = 39.6 bits (92), Expect = 1e-04
Identities = 18/91 (19%), Positives = 34/91 (37%), Gaps = 8/91 (8%)
Query: 185 EHGGKYLHDEPSRPMSVSSSSVMSPSSRTTTCPYSESDLISDDLLMCLSVRELNKKL--H 242
H + + S + P+ +++ L V + N+ L +
Sbjct: 2 GHHHHHHSHMAKPTARGEAGSRDERRALAMKIPFPTDKIVN------LPVDDFNELLARY 55
Query: 243 GYPRDQIAKLKAKRRTLKNRGYAQNCRSKRL 273
Q+A ++ RR KN+ AQN R ++L
Sbjct: 56 PLTESQLALVRDIRRRGKNKVAAQNYRKRKL 86
>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 = 42.1 bits (98), Expect = 2e-04
Identities = 38/242 (15%), Positives = 74/242 (30%), Gaps = 72/242 (29%)
Query: 127 HQHYHHMDHPSHPHIQQLPPRAQTYHDM---FMPPHPNPFRQEEVPLDMRRHCAAD---- 179
H H+HHMD + Q Y D+ F + F ++V DM + +
Sbjct: 1 HHHHHHMDFETGE--HQY-----QYKDILSVFEDAFVDNFDCKDVQ-DMPKSILSKEEID 52
Query: 180 ----------------WSLVD--EHGGKYLHDEPSRP-----MSVSSSSVMSPSSRTTTC 216
W+L+ E + +E R MS + PS T
Sbjct: 53 HIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMY 112
Query: 217 PYSESDLISDDLLMCLSVRELNKKLHGYPR-DQIAKLKAKRRTLKNRGY----------- 264
L +D+ ++ K + R KL+ L+
Sbjct: 113 IEQRDRLYNDN--------QVFAKYN-VSRLQPYLKLRQALLELRPAKNVLIDGVLGSGK 163
Query: 265 ----AQNCRSKRLHQRQELEV---------TNKHLQQQLQKMKSEIKQIVEERNHYKKQY 311
C S ++ + + ++ + + + + LQK+ +I R+ +
Sbjct: 164 TWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNI 223
Query: 312 EI 313
++
Sbjct: 224 KL 225
Score = 36.8 bits (84), Expect = 0.011
Identities = 32/237 (13%), Positives = 70/237 (29%), Gaps = 58/237 (24%)
Query: 128 QHYHHMDHPSHPHI-----QQLPP---RAQTYHDMFM-PPHPN-PFR---------QEEV 168
++ H++ I L P R + + + + PP + P +
Sbjct: 345 DNWKHVNCDKLTTIIESSLNVLEPAEYR-KMFDRLSVFPPSAHIPTILLSLIWFDVIKSD 403
Query: 169 PLDMRRHCAADWSLVDEHGGK---YLHD-------EPSRPMSVSSSSVMSPSSRTTTCPY 218
+ + +SLV++ + + + ++ S V + T
Sbjct: 404 VMVVVNKLH-KYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSD 462
Query: 219 SESDLISDDLLMC-----LSVRELNKKLHGYPR---DQIAKLKAKRRTLKNRGYAQNCRS 270
D L E +++ + D L+ K +++ A N
Sbjct: 463 DLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLD-FRFLEQK---IRHDSTAWNASG 518
Query: 271 KRLHQRQELEVTNKHLQQQLQKMKSEIKQIVEERNHYKKQYEIVMRNKDRSEAEHLY 327
L + QQL+ K I + Y++ ++ + E E+L
Sbjct: 519 SIL-----------NTLQQLKFYK---PYICDNDPKYERLVNAILDFLPKIE-ENLI 560
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 39.0 bits (90), Expect = 8e-04
Identities = 16/61 (26%), Positives = 30/61 (49%), Gaps = 4/61 (6%)
Query: 269 RSKRLHQRQELEVTNKHLQQQLQKMKSEIKQIVEERNHYKKQYEIVMRNK--DRSEAEHL 326
R R QR+ L+ + + Q+ + + K+ +EE ++Q E V +NK +R +
Sbjct: 88 RKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEW--NQRQSEQVEKNKINNRIADKAF 145
Query: 327 Y 327
Y
Sbjct: 146 Y 146
Score = 35.1 bits (80), Expect = 0.014
Identities = 13/75 (17%), Positives = 30/75 (40%), Gaps = 19/75 (25%)
Query: 235 RELNKKLHGYPRDQIAKLKAKRRTLKNRGYAQNCRSKRLHQRQELEVTNKHLQQQLQKMK 294
RE +K ++ +L A + ++ R +++LE N+ +Q++K K
Sbjct: 91 REEQRK-------RLQELDAASKVMEQE--------WREKAKKDLEEWNQRQSEQVEKNK 135
Query: 295 SEI----KQIVEERN 305
K ++ +
Sbjct: 136 INNRIADKAFYQQPD 150
>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein,
abnormal nuclear; zinc-finger, beta barrel, VWA domain,
gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP:
a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1
Length = 926
Score = 39.0 bits (90), Expect = 0.002
Identities = 14/93 (15%), Positives = 23/93 (24%)
Query: 77 QSPPHHLLTPPGSSIHPQDYQNSMLHGGVLMYPGTPGTPPDTPPGSNSPPHQHYHHMDHP 136
L P + PQD + + G + P P +P + H
Sbjct: 16 YGQNATPLQQPAQFMPPQDPAAAGMSYGQMGMPPQGAVPSMGQQQFLTPAQEQLHQQIDQ 75
Query: 137 SHPHIQQLPPRAQTYHDMFMPPHPNPFRQEEVP 169
+ + + D P Q P
Sbjct: 76 ATTSMNDMHLHNVPLVDPNAYMQPQVPVQMGTP 108
Score = 37.5 bits (86), Expect = 0.006
Identities = 15/111 (13%), Positives = 19/111 (17%), Gaps = 2/111 (1%)
Query: 61 PSIQSIPVPNGGSVHIQSPPHHLLTPPGSSIHPQDYQ--NSMLHGGVLMYPGTPGTPPDT 118
LTP +H Q Q SM + P
Sbjct: 39 GMSYGQMGMPPQGAVPSMGQQQFLTPAQEQLHQQIDQATTSMNDMHLHNVPLVDPNAYMQ 98
Query: 119 PPGSNSPPHQHYHHMDHPSHPHIQQLPPRAQTYHDMFMPPHPNPFRQEEVP 169
P + P Q +P E P
Sbjct: 99 PQVPVQMGTPLQQQQQPMAAPAYGQPSAAMGQNMRPMNQLYPIDLLTELPP 149
Score = 35.2 bits (80), Expect = 0.027
Identities = 11/78 (14%), Positives = 18/78 (23%)
Query: 85 TPPGSSIHPQDYQNSMLHGGVLMYPGTPGTPPDTPPGSNSPPHQHYHHMDHPSHPHIQQL 144
G + P + G PP P + QQ+
Sbjct: 14 LQYGQNATPLQQPAQFMPPQDPAAAGMSYGQMGMPPQGAVPSMGQQQFLTPAQEQLHQQI 73
Query: 145 PPRAQTYHDMFMPPHPNP 162
+ +DM + P
Sbjct: 74 DQATTSMNDMHLHNVPLV 91
Score = 34.0 bits (77), Expect = 0.069
Identities = 17/110 (15%), Positives = 25/110 (22%), Gaps = 8/110 (7%)
Query: 58 QRLPSIQSIPVPNGGSVHIQSPPHHLLTPPGSSIHPQDYQNSMLHGGVLMYPGTPGTP-- 115
Q + P+ P G P + TP
Sbjct: 13 QLQYGQNATPLQQPAQFMPPQDPAAAGMSYGQMGMPPQGAVPSMGQ---QQFLTPAQEQL 69
Query: 116 ---PDTPPGSNSPPHQHYHHMDHPSHPHIQQLPPRAQTYHDMFMPPHPNP 162
D S + H H + P+ Q+P + T P P
Sbjct: 70 HQQIDQATTSMNDMHLHNVPLVDPNAYMQPQVPVQMGTPLQQQQQPMAAP 119
Score = 31.7 bits (71), Expect = 0.33
Identities = 11/78 (14%), Positives = 18/78 (23%), Gaps = 2/78 (2%)
Query: 87 PGSSIHPQDYQNSMLHGGVLMYPGTPGTPPDTPPGSNSPPHQHYHHMDHP--SHPHIQQL 144
P + + + M P P + PP M P +QL
Sbjct: 10 PQAQLQYGQNATPLQQPAQFMPPQDPAAAGMSYGQMGMPPQGAVPSMGQQQFLTPAQEQL 69
Query: 145 PPRAQTYHDMFMPPHPNP 162
+ H +
Sbjct: 70 HQQIDQATTSMNDMHLHN 87
Score = 27.5 bits (60), Expect = 7.2
Identities = 7/59 (11%), Positives = 9/59 (15%)
Query: 107 MYPGTPGTPPDTPPGSNSPPHQHYHHMDHPSHPHIQQLPPRAQTYHDMFMPPHPNPFRQ 165
P P PP + F+ P Q
Sbjct: 13 QLQYGQNATPLQQPAQFMPPQDPAAAGMSYGQMGMPPQGAVPSMGQQQFLTPAQEQLHQ 71
>1gd2_E Transcription factor PAP1; basic leucine zipper, protein-DNA
complex, transcription/DNA complex; HET: DNA; 2.00A
{Schizosaccharomyces pombe} SCOP: h.1.3.1
Length = 70
Score = 35.4 bits (81), Expect = 0.002
Identities = 10/58 (17%), Positives = 23/58 (39%)
Query: 246 RDQIAKLKAKRRTLKNRGYAQNCRSKRLHQRQELEVTNKHLQQQLQKMKSEIKQIVEE 303
R + + +R +NR + R ++ + LE L++ E Q+ ++
Sbjct: 1 RKNSDQEPSSKRKAQNRAAQRAFRKRKEDHLKALETQVVTLKELHSSTTLENDQLRQK 58
>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp
contractIle protein-transport protein complex; 24.00A
{Gallus gallus}
Length = 1080
Score = 37.4 bits (87), Expect = 0.007
Identities = 14/74 (18%), Positives = 31/74 (41%), Gaps = 3/74 (4%)
Query: 239 KKLHGYPRDQIAKLKAKRRTLKNRGYAQNCRSKRLHQRQELEVTNKHLQQQLQKMKSEIK 298
L + KL++ L+ ++ ++ L+ L+++L + ++E K
Sbjct: 952 NNLEITYSTETEKLRSDVERLRM---SEEEAKNATNRVLSLQEEIAKLRKELHQTQTEKK 1008
Query: 299 QIVEERNHYKKQYE 312
I E + YK + E
Sbjct: 1009 TIEEWADKYKHETE 1022
Score = 30.5 bits (69), Expect = 0.81
Identities = 15/99 (15%), Positives = 34/99 (34%), Gaps = 15/99 (15%)
Query: 231 CLSVRELNKKLHGYPRDQIAKLKAKRRTLKNRGYAQNCRSKRLHQRQELEVTNKHLQQQL 290
++L+ L ++I +L+ K L + LE+T ++L
Sbjct: 916 VERYKKLHIGL----ENKIMQLQRKIDEQNKE------YKSLLEKMNNLEITYSTETEKL 965
Query: 291 QKMKSEIKQIVEERNHYKKQY-----EIVMRNKDRSEAE 324
+ ++ EE + + EI K+ + +
Sbjct: 966 RSDVERLRMSEEEAKNATNRVLSLQEEIAKLRKELHQTQ 1004
Score = 29.7 bits (67), Expect = 1.6
Identities = 16/80 (20%), Positives = 32/80 (40%), Gaps = 8/80 (10%)
Query: 233 SVRELNKKLHGYPRDQIAKLKAKRRTLKNRGYAQNCRSKRLHQRQELEVTNKHLQQQLQK 292
++ E K +++LK + LK + R Q E+T + +K
Sbjct: 1009 TIEEWADKYKHETEQLVSELKEQNTLLK----TEKEELNRRIHDQAKEIT----ETMEKK 1060
Query: 293 MKSEIKQIVEERNHYKKQYE 312
+ E KQ+ + N + +Y+
Sbjct: 1061 LVEETKQLELDLNDERLRYQ 1080
>1hjb_A Ccaat/enhancer binding protein beta; transcription/DNA, protein-DNA
complex; HET: DNA; 3.0A {Homo sapiens} SCOP: h.1.3.1
Length = 87
Score = 33.8 bits (77), Expect = 0.012
Identities = 9/59 (15%), Positives = 26/59 (44%)
Query: 253 KAKRRTLKNRGYAQNCRSKRLHQRQELEVTNKHLQQQLQKMKSEIKQIVEERNHYKKQY 311
+ K R +N + R K + E + L + ++++ +++Q+ E + + +
Sbjct: 15 EYKIRRERNNIAVRKSRDKAKMRNLETQHKVLELTAENERLQKKVEQLSRELSTLRNLF 73
>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 = 35.0 bits (80), Expect = 0.034
Identities = 46/375 (12%), Positives = 98/375 (26%), Gaps = 128/375 (34%)
Query: 9 IAMVDSEDPQLADEYVQEFVLDHFEDVNVKREIINNNEQDATNHNISNH---QRLPSIQS 65
++ + + V L FE + N +I H +L
Sbjct: 68 VSSLVEPSKVGQFDQVLNLCLTEFE-----NCYLEGN-------DI--HALAAKLLQEND 113
Query: 66 IPVPNGGSVHIQS--PPHHLLTPPGSSIHPQDYQNSMLHGGVLMYP--GTPGTPPDTPPG 121
+ + I++ + P ++ G + G G G
Sbjct: 114 TTLVKTKEL-IKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFG--GQ------G 164
Query: 122 SNSPP-------HQHYHHMDHP----SHPHIQQLPPRAQTYHDMFMPPHPNPFRQEEVPL 170
+ +Q YH + S + +L +F L
Sbjct: 165 NTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVF--TQ---------GL 213
Query: 171 DMRRHCAADWSLVDEHGGKYLHDEPSRPMSVSSSSVMSPSSRTTTCPYSESDLISDDLL- 229
++ +W L + + P + P S LI ++
Sbjct: 214 NIL-----EW----------LENPSNTP----------DKDYLLSIPIS-CPLIG--VIQ 245
Query: 230 ------MC----LSVRELNKKLHG---YPRDQI-AKLKAKRRTLKNRGYAQN-------- 267
+ EL L G + + + A A+ + ++ + +
Sbjct: 246 LAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWES--FFVSVRKAITVL 303
Query: 268 ----CRSKRLHQRQELEVTNKHLQQQLQK-------M-------KSEIKQIVEERNHY-- 307
R + L + L+ L+ M + +++ V + N +
Sbjct: 304 FFIGVRCYEAYPNTSLPPSI--LEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLP 361
Query: 308 -KKQYEIVMRNKDRS 321
KQ EI + N ++
Sbjct: 362 AGKQVEISLVNGAKN 376
Score = 33.1 bits (75), Expect = 0.14
Identities = 30/191 (15%), Positives = 55/191 (28%), Gaps = 55/191 (28%)
Query: 87 PGSSIHPQDYQNSMLHGGVLMYPGTPGTPPDTP----PGSNSPPHQHY-----HHMDHPS 137
P +S+ P ++S+ + G P +P Q Y H+
Sbjct: 315 PNTSLPPSILEDSLENNE--------GVP--SPMLSISNLTQEQVQDYVNKTNSHLPAGK 364
Query: 138 HPHI------QQL----PPRA-----QTYHDMFMPPHPN----PFRQEEVPLDMRR---- 174
I + L PP++ T P + PF + ++ R
Sbjct: 365 QVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVA 424
Query: 175 ---HCAADWSLVDEHGGKYLHDEPSRPMSVSSSSVMSPSSRTTT----CPYSESDLISDD 227
H L+ D +S ++ + P T S S IS+
Sbjct: 425 SPFHS----HLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGS--ISER 478
Query: 228 LLMCLSVRELN 238
++ C+ +
Sbjct: 479 IVDCIIRLPVK 489
Score = 30.4 bits (68), Expect = 0.90
Identities = 25/148 (16%), Positives = 44/148 (29%), Gaps = 67/148 (45%)
Query: 165 QEEVPLDMRRHCAADWSLVD---EHGGKYLHDEPSRPM-SVSSSSVMSPSSRTTTCPYSE 220
E P + + S+++ E+ PS PM S+S+
Sbjct: 311 YEAYP-----NTSLPPSILEDSLENN----EGVPS-PMLSISN----------------- 343
Query: 221 SDLISDDLLMCLSVRELNKKLHGYPRDQIAKLKAKRRTLKN--R-----GYAQNCRSKRL 273
++ + + V + N L + +I+ L N + G
Sbjct: 344 ---LTQEQVQDY-VNKTNSHLPAGKQVEIS--------LVNGAKNLVVSGPP-------- 383
Query: 274 HQRQELEVTNKHLQQQLQKMK--SEIKQ 299
Q L L L+K K S + Q
Sbjct: 384 ---QSLY----GLNLTLRKAKAPSGLDQ 404
Score = 29.6 bits (66), Expect = 1.6
Identities = 21/99 (21%), Positives = 34/99 (34%), Gaps = 36/99 (36%)
Query: 6 PNTIAMVDSEDPQLADEYVQEFVLDHFEDVNVKREIINNNEQDATNHNISNHQ------- 58
P +A S++ A +YV E V + V EI+N +N+ N Q
Sbjct: 1814 PGRVAASFSQE---ALQYVVERVGKRTGWL-V--EIVN--------YNVENQQYVAAGDL 1859
Query: 59 -------------RLPSIQSIPVPNGGSVHIQSPPHHLL 84
+L I I + S+ ++ HL
Sbjct: 1860 RALDTVTNVLNFIKLQKIDIIELQ--KSLSLEEVEGHLF 1896
>1gu4_A CAAT/enhancer binding protein beta; transcription/DNA, protein-DNA
complex, transcription factor, BZIP, C/EBP; 1.80A {Homo
sapiens} SCOP: h.1.3.1 PDB: 1gtw_A 1gu5_A 1h88_A 1h8a_A
1io4_A 2e43_A* 2e42_A* 1h89_A 1ci6_B 1nwq_A
Length = 78
Score = 30.6 bits (69), Expect = 0.10
Identities = 9/57 (15%), Positives = 25/57 (43%)
Query: 255 KRRTLKNRGYAQNCRSKRLHQRQELEVTNKHLQQQLQKMKSEIKQIVEERNHYKKQY 311
K R +N + R K + E + L + ++++ +++Q+ E + + +
Sbjct: 17 KIRRERNNIAVRKSRDKAKMRNLETQHKVLELTAENERLQKKVEQLSRELSTLRNLF 73
>3cvf_A Homer-3, homer protein homolog 3; coiled coil, alternative
splicing, cell junction, cytoplasm, membrane,
phosphoprotein, polymorphism; 2.90A {Homo sapiens}
Length = 79
Score = 30.7 bits (69), Expect = 0.11
Identities = 11/42 (26%), Positives = 22/42 (52%)
Query: 269 RSKRLHQRQELEVTNKHLQQQLQKMKSEIKQIVEERNHYKKQ 310
R + + Q+LE N L+ QL+ M+ +++ ER + +
Sbjct: 8 REETQQKVQDLETRNAELEHQLRAMERSLEEARAERERARAE 49
>2dgc_A Protein (GCN4); basic domain, leucine zipper, DNA binding,
eukaryotic regulatory protein, transcription/DNA
complex; HET: DNA; 2.20A {Saccharomyces cerevisiae}
SCOP: h.1.3.1 PDB: 1dgc_A* 1ld4_E 1ysa_C* 3p8m_D
Length = 63
Score = 30.2 bits (68), Expect = 0.12
Identities = 14/61 (22%), Positives = 31/61 (50%), Gaps = 5/61 (8%)
Query: 247 DQIAKLKAKRRTLKNRGYAQNCRSKRLHQRQELEVTNKHLQQQLQKMKSEI---KQIVEE 303
+ KR +N A+ R+++L + ++LE + L + +++E+ K++V E
Sbjct: 5 ESSDPAALKRA--RNTEAARRSRARKLQRMKQLEDKVEELLSKNYHLENEVARLKKLVGE 62
Query: 304 R 304
R
Sbjct: 63 R 63
>1cii_A Colicin IA; bacteriocin, ION channel formation, transmembrane
protein; 3.00A {Escherichia coli} SCOP: f.1.1.1 h.4.3.1
Length = 602
Score = 32.8 bits (73), Expect = 0.16
Identities = 10/91 (10%), Positives = 26/91 (28%)
Query: 234 VRELNKKLHGYPRDQIAKLKAKRRTLKNRGYAQNCRSKRLHQRQELEVTNKHLQQQLQKM 293
+RE + D + R + + + ++ E K Q +K
Sbjct: 119 LREYGFRTEIAGYDALRLHTESRMLFADADSLRISPREARSLIEQAEKRQKDAQNADKKA 178
Query: 294 KSEIKQIVEERNHYKKQYEIVMRNKDRSEAE 324
+ + + + + +N + A
Sbjct: 179 ADMLAEYERRKGILDTRLSELEKNGGAALAV 209
>2dq3_A Seryl-tRNA synthetase; coiled-coil, homodimer, structural genomics,
NPPSFA, nationa on protein structural and functional
analyses; HET: SSA; 3.00A {Aquifex aeolicus}
Length = 425
Score = 32.5 bits (75), Expect = 0.16
Identities = 13/78 (16%), Positives = 30/78 (38%), Gaps = 13/78 (16%)
Query: 246 RDQIAKLKAKRRTLKNRGYAQNCRSKRLHQRQELEVTNKHLQQQLQKMKSEIKQIVEERN 305
R++ +K + L R ++ EL+ + + ++L+ ++S ERN
Sbjct: 8 REKPDYVKER---LATRDKELVSLVDKV---LELDKRRREIIKRLEALRS-------ERN 54
Query: 306 HYKKQYEIVMRNKDRSEA 323
K+ + R +
Sbjct: 55 KLSKEIGKLKREGKDTTE 72
>3cve_A Homer protein homolog 1; coiled coil, alternative splicing, cell
junction, cytoplasm, membrane, postsynaptic cell
membrane, synapse; 1.75A {Rattus norvegicus}
Length = 72
Score = 29.9 bits (67), Expect = 0.20
Identities = 12/42 (28%), Positives = 25/42 (59%), Gaps = 1/42 (2%)
Query: 270 SKRLHQR-QELEVTNKHLQQQLQKMKSEIKQIVEERNHYKKQ 310
S H + QE+E+ NK L+ QL +M+ +++ E++ ++
Sbjct: 2 SHNSHMKLQEVEIRNKDLEGQLSEMEQRLEKSQSEQDAFRSN 43
>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1
PDB: 2tma_A 2w49_A 2w4u_A
Length = 284
Score = 31.9 bits (72), Expect = 0.26
Identities = 14/100 (14%), Positives = 36/100 (36%), Gaps = 9/100 (9%)
Query: 233 SVRELNKKLHGYPRDQIAKLKAKRRTLKNRGYAQNCRSKRLHQR--------QELEVTNK 284
+ ++K R ++ +++ + R + L + + LE +
Sbjct: 154 IAEDADRKYEEVAR-KLVIIESDLERAEERAELSEGKCAELEEEIKTVTNNLKSLEAQAE 212
Query: 285 HLQQQLQKMKSEIKQIVEERNHYKKQYEIVMRNKDRSEAE 324
Q+ K + EIK + ++ + + E R+ + E
Sbjct: 213 KYSQKEDKYEEEIKVLSDKLKEAETRAEFAERSVTKLEKS 252
>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin
subfragment 2, heavy meromyosin, essential light chain,
motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP:
i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A
Length = 1184
Score = 32.1 bits (73), Expect = 0.31
Identities = 16/97 (16%), Positives = 42/97 (43%), Gaps = 10/97 (10%)
Query: 235 RELNKKLHGYPRDQIAKLKAKRRTLKNRGYAQNCRSKRLHQRQELEVTNKHLQQQL---- 290
+ + +L KL+A+ A+ R + ++QELE ++ ++
Sbjct: 884 EQKHTQLCEEKNLLQEKLQAETELYA---EAEEMRVRLAAKKQELEEILHEMEARIEEEE 940
Query: 291 ---QKMKSEIKQIVEERNHYKKQYEIVMRNKDRSEAE 324
Q++++E K++ ++ ++Q E + + + E
Sbjct: 941 ERSQQLQAEKKKMQQQMLDLEEQLEEEEAARQKLQLE 977
Score = 31.7 bits (72), Expect = 0.35
Identities = 15/81 (18%), Positives = 31/81 (38%), Gaps = 1/81 (1%)
Query: 246 RDQIAKLKAKRRTLKNRGYAQNCRSKRLHQR-QELEVTNKHLQQQLQKMKSEIKQIVEER 304
++ K + R+ L+ S LH++ EL+ L+ QL K + E++ +
Sbjct: 1045 EVRLKKEEKSRQELEKIKRKLEGESSDLHEQIAELQAQIAELKAQLAKKEEELQAALARL 1104
Query: 305 NHYKKQYEIVMRNKDRSEAEH 325
Q ++ E+
Sbjct: 1105 EDETSQKNNALKKIRELESHI 1125
Score = 30.2 bits (68), Expect = 1.2
Identities = 16/105 (15%), Positives = 43/105 (40%), Gaps = 2/105 (1%)
Query: 221 SDLISDDLLMCLSVRELNKKLHGYPRDQIAKLKAKRRTLKNR-GYAQNCRSKRLHQRQEL 279
L + + + EL ++ + Q+AK + + + R + ++ L + +EL
Sbjct: 1063 RKLEGESSDLHEQIAELQAQIAEL-KAQLAKKEEELQAALARLEDETSQKNNALKKIREL 1121
Query: 280 EVTNKHLQQQLQKMKSEIKQIVEERNHYKKQYEIVMRNKDRSEAE 324
E LQ+ L+ K+ + +++ ++ E + + +
Sbjct: 1122 ESHISDLQEDLESEKAARNKAEKQKRDLSEELEALKTELEDTLDT 1166
Score = 29.0 bits (65), Expect = 2.5
Identities = 12/66 (18%), Positives = 27/66 (40%), Gaps = 1/66 (1%)
Query: 248 QIAKLKAKRRTLKNR-GYAQNCRSKRLHQRQELEVTNKHLQQQLQKMKSEIKQIVEERNH 306
+I +L++ L+ + R+K Q+++L + L+ +L+ E R
Sbjct: 1117 KIRELESHISDLQEDLESEKAARNKAEKQKRDLSEELEALKTELEDTLDTTATQQELRGS 1176
Query: 307 YKKQYE 312
K +
Sbjct: 1177 DYKDDD 1182
Score = 28.6 bits (64), Expect = 3.7
Identities = 17/115 (14%), Positives = 49/115 (42%), Gaps = 12/115 (10%)
Query: 219 SESDLISDDLLMCLSVRELNKKLHGYPRDQIAKLKAKRRTLKNRGYAQNCRSKRLHQR-Q 277
+E++L ++ M + + ++L + + +++A+ + R K++ Q+
Sbjct: 903 AETELYAEAEEMRVRLAAKKQEL----EEILHEMEARIEEEEERSQQLQAEKKKMQQQML 958
Query: 278 ELEVTNKHLQQQLQKMKSE-------IKQIVEERNHYKKQYEIVMRNKDRSEAEH 325
+LE + + QK++ E IK++ ++ + Q + + + E
Sbjct: 959 DLEEQLEEEEAARQKLQLEKVTADGKIKKMEDDILIMEDQNNKLTKERKLLEERV 1013
Score = 28.6 bits (64), Expect = 3.8
Identities = 17/106 (16%), Positives = 40/106 (37%), Gaps = 14/106 (13%)
Query: 234 VRELNKKLHGYPRDQIAKLKAKRRTLKNR--------GYAQNCRSKRLHQRQELEVTNKH 285
+ +L ++L KL+ ++ T + ++ +K +R+ LE
Sbjct: 957 MLDLEEQLEEE-EAARQKLQLEKVTADGKIKKMEDDILIMEDQNNKLTKERKLLEERVSD 1015
Query: 286 LQQQLQKMKSEIKQIVEERNHYKKQYEIVMRN-----KDRSEAEHL 326
L L + + + K + + +N ++ + K R E E +
Sbjct: 1016 LTTNLAEEEEKAKNLTKLKNKHESMISELEVRLKKEEKSRQELEKI 1061
>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon,
coiled post-transcriptional, gene regulation, chaperone;
HET: EPE; 2.20A {Helicobacter pylori}
Length = 256
Score = 30.5 bits (68), Expect = 0.64
Identities = 4/78 (5%), Positives = 21/78 (26%), Gaps = 13/78 (16%)
Query: 247 DQIAKLKAKRRTLKNRGYAQNCRSKRLHQRQELEVTNKHLQQQLQKMKSEIKQIVEERNH 306
+I L+ R + + + + + ++ E + + +
Sbjct: 18 KEIDSLEPLIREKRK-------------DLDKALNDKEAKNKAILNLEEEKLALKLQVSK 64
Query: 307 YKKQYEIVMRNKDRSEAE 324
++ + + +
Sbjct: 65 NEQTLQDTNAKIASIQKK 82
>3o0z_A RHO-associated protein kinase 1; coiled-coil, transferase; HET:
MSE; 2.33A {Homo sapiens}
Length = 168
Score = 30.1 bits (67), Expect = 0.65
Identities = 15/66 (22%), Positives = 28/66 (42%), Gaps = 1/66 (1%)
Query: 246 RDQIAKLKAKRRTLKNRGYAQNCRSKRLHQR-QELEVTNKHLQQQLQKMKSEIKQIVEER 304
+L+A + + L R L+ KHL+ L+K++ E K+ +
Sbjct: 68 DKDYYQLQAILEAERRDRGHDSEMIGDLQARITSLQEEVKHLKHNLEKVEGERKEAQDML 127
Query: 305 NHYKKQ 310
NH +K+
Sbjct: 128 NHSEKE 133
Score = 27.0 bits (59), Expect = 6.8
Identities = 11/79 (13%), Positives = 30/79 (37%), Gaps = 1/79 (1%)
Query: 248 QIAKLKAKRRTLKNRGYA-QNCRSKRLHQRQELEVTNKHLQQQLQKMKSEIKQIVEERNH 306
Q+ + RT + + ++ +LE N+ LQ++ + +++ Q ++
Sbjct: 14 QLEEANDLLRTESDTAVRLRKSHTEMSKSISQLESLNRELQERNRILENSKSQTDKDYYQ 73
Query: 307 YKKQYEIVMRNKDRSEAEH 325
+ E R++
Sbjct: 74 LQAILEAERRDRGHDSEMI 92
>3dzy_A Retinoic acid receptor RXR-alpha; DNA-binding, HOST-virus
interaction, metal-binding, nucleus, receptor,
transcription, transcription regulation, zinc-FIN
activator; HET: DNA REA BRL; 3.10A {Homo sapiens} PDB:
3dzu_A* 3e00_A*
Length = 467
Score = 30.5 bits (68), Expect = 0.77
Identities = 16/92 (17%), Positives = 26/92 (28%)
Query: 55 SNHQRLPSIQSIPVPNGGSVHIQSPPHHLLTPPGSSIHPQDYQNSMLHGGVLMYPGTPGT 114
S H L P + S P + + PP S I +SM + G+
Sbjct: 37 SLHPSLGPGIGSPGQLHSPISTLSSPINGMGPPFSVISSPMGPHSMSVPTTPTLGFSTGS 96
Query: 115 PPDTPPGSNSPPHQHYHHMDHPSHPHIQQLPP 146
P + P + + + P
Sbjct: 97 PQLSSPMNPVSSSEDIKPPLGLNGVLKVPAHP 128
Score = 28.1 bits (62), Expect = 4.4
Identities = 19/117 (16%), Positives = 32/117 (27%), Gaps = 5/117 (4%)
Query: 60 LPSIQSIPVPNGGSVHIQSPPHHLLTPPG-SSIHPQDYQNSMLHG-GVLMYPGTPGTPPD 117
+ V + + L +P G S+ S+ G G +P +
Sbjct: 1 MAHHHHHHVDDDDKMFSTQVNSSLTSPTGRGSMAAPSLHPSLGPGIGSPGQLHSPISTLS 60
Query: 118 TPPGSNSPPHQHYHHMDHPSHPHIQQLPPRAQTYHDMFMPPHPNPFRQEEVPLDMRR 174
+P PP P PH +P P +P D++
Sbjct: 61 SPINGMGPPFSVIS---SPMGPHSMSVPTTPTLGFSTGSPQLSSPMNPVSSSEDIKP 114
Score = 27.4 bits (60), Expect = 8.3
Identities = 18/112 (16%), Positives = 31/112 (27%), Gaps = 4/112 (3%)
Query: 54 ISNHQRLPSIQSIPVPNGGSVHIQSPPHHLLTPPGSSIHPQDYQNSMLHGGVLMYPGTPG 113
+++H + + + P + S+HP + G L P +
Sbjct: 1 MAHHHHHHVDDDDKMFSTQVNSSLTSPTGRGSMAAPSLHP-SLGPGIGSPGQLHSPISTL 59
Query: 114 TPPDT---PPGSNSPPHQHYHHMDHPSHPHIQQLPPRAQTYHDMFMPPHPNP 162
+ P PP S H M P+ P + Q M
Sbjct: 60 SSPINGMGPPFSVISSPMGPHSMSVPTTPTLGFSTGSPQLSSPMNPVSSSED 111
>1x8y_A Lamin A/C; structural protein, intermediate filament protein; 2.20A
{Homo sapiens} SCOP: h.1.20.1 PDB: 3v5b_A 3v4w_A 3v4q_A
Length = 86
Score = 28.4 bits (64), Expect = 0.80
Identities = 9/77 (11%), Positives = 29/77 (37%), Gaps = 9/77 (11%)
Query: 248 QIAKLKAKRRTLKNRGYAQNCRSKRLHQRQELEVTNKHLQQQLQKMKSEIKQIVEERNHY 307
Q+++L+ + + + + L E ++ L + + E+ ++
Sbjct: 4 QLSQLQCQLAAKEAK-------LRDLEDSLARER--DTSRRLLAEKEREMAEMRARMQQQ 54
Query: 308 KKQYEIVMRNKDRSEAE 324
+Y+ ++ K + E
Sbjct: 55 LDEYQELLDIKLALDME 71
>1ef1_C Moesin; membrane, FERM domain, tail domain, membrane protein; 1.90A
{Homo sapiens} SCOP: a.137.5.1
Length = 90
Score = 28.5 bits (63), Expect = 0.98
Identities = 6/26 (23%), Positives = 13/26 (50%)
Query: 275 QRQELEVTNKHLQQQLQKMKSEIKQI 300
+R N+ +Q+ L+ + SE+
Sbjct: 20 ERTTEAEKNERVQKHLKALTSELANA 45
>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding,
nucleotide-binding, phosphorylation, acetylation,
alternative splicing, coiled coil; HET: GDP GTP; 4.00A
{Homo sapiens}
Length = 427
Score = 29.7 bits (66), Expect = 1.3
Identities = 9/71 (12%), Positives = 29/71 (40%), Gaps = 6/71 (8%)
Query: 246 RDQIAKLKAKRRTLKNR------GYAQNCRSKRLHQRQELEVTNKHLQQQLQKMKSEIKQ 299
+ + +L+ K ++ + ++ + K Q + +K++ + K
Sbjct: 329 NEFLGELQKKEEEMRQMFVQRVKEKEAELKEAEKELHEKFDRLKKLHQDEKKKLEDKKKS 388
Query: 300 IVEERNHYKKQ 310
+ +E N +K++
Sbjct: 389 LDDEVNAFKQR 399
>3tnu_A Keratin, type I cytoskeletal 14; coiled-coil, structural support,
cytosolic protein; 3.00A {Homo sapiens}
Length = 131
Score = 28.6 bits (65), Expect = 1.3
Identities = 10/50 (20%), Positives = 26/50 (52%), Gaps = 2/50 (4%)
Query: 275 QRQELEVTNKHLQQQLQKMKSEIKQIVEERNHYKKQYEIVMRNKDRSEAE 324
R +++ +Q+ + ++ ++ Q+ E ++Y+I++ K R E E
Sbjct: 73 GRYCMQL--AQIQEMIGSVEEQLAQLRCEMEQQNQEYKILLDVKTRLEQE 120
>1ik9_A DNA repair protein XRCC4; DNA END joining, double-strand break
repair, V(D)J recombination, protein-protein complex,
coiled coil; HET: DNA; 2.30A {Homo sapiens} SCOP:
b.59.1.1 h.1.11.1 PDB: 3ii6_A* 1fu1_A* 3rwr_A*
Length = 213
Score = 29.0 bits (64), Expect = 1.5
Identities = 8/48 (16%), Positives = 23/48 (47%), Gaps = 7/48 (14%)
Query: 277 QELEVTNKHLQQQLQKMKSEIKQIVEERNHYKKQYEIVMRNKDRSEAE 324
E + N+HLQ++ +++ + + + ++E + K+ E +
Sbjct: 135 AENQAKNEHLQKENERLLRDWNDV-------QGRFEKAVSAKEALETD 175
>3c24_A Putative oxidoreductase; YP_511008.1, structural genomics, center
for structural genomics, JCSG, protein structure INI
PSI-2; HET: MSE; 1.62A {Jannaschia SP}
Length = 286
Score = 29.3 bits (65), Expect = 1.6
Identities = 10/35 (28%), Positives = 15/35 (42%)
Query: 135 HPSHPHIQQLPPRAQTYHDMFMPPHPNPFRQEEVP 169
+ P+ +P RA + + P HP F E P
Sbjct: 101 DAAAPYAGVMPERADITYFIGHPCHPPLFNDETDP 135
>3tnu_B Keratin, type II cytoskeletal 5; coiled-coil, structural support,
cytosolic protein; 3.00A {Homo sapiens}
Length = 129
Score = 28.3 bits (64), Expect = 1.6
Identities = 10/50 (20%), Positives = 26/50 (52%), Gaps = 2/50 (4%)
Query: 275 QRQELEVTNKHLQQQLQKMKSEIKQIVEERNHYKKQYEIVMRNKDRSEAE 324
QR EL + K + +L +++ +++ ++ ++Y+ +M K + E
Sbjct: 71 QRGELAL--KDARNKLAELEEALQKAKQDMARLLREYQELMNTKLALDVE 118
>3hh0_A Transcriptional regulator, MERR family; protein structure
initiative II(PSI II), NYSGXRC, 11183J, structural
genomics; 2.67A {Bacillus cereus atcc 14579}
Length = 146
Score = 28.5 bits (64), Expect = 1.7
Identities = 19/111 (17%), Positives = 37/111 (33%), Gaps = 15/111 (13%)
Query: 218 YSESDLISDDLLMCLSVRELNKKLHGYPRDQIAKLKAKRRTLKNRGYAQNCRSKRLH-QR 276
Y++ DL L S + L G+ +I + + R +++H QR
Sbjct: 43 YTKDDL--YVLQQIQSFKHL-----GFSLGEIQNI------ILQRDIETEVFLRQMHFQR 89
Query: 277 QELEVTNKHLQQQLQKMKSEIKQIVEERNHYKKQYEIVMRNKDRSEAEHLY 327
+ L + + + L M K+ +E + E E+
Sbjct: 90 EVLLAEQERIAKVLSHMDEMTKKFQKEERVNVALFS-SFLQTFIWEKENKE 139
>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 = 29.3 bits (65), Expect = 1.8
Identities = 20/139 (14%), Positives = 29/139 (20%), Gaps = 24/139 (17%)
Query: 61 PSIQSIPVPNGGSVHIQSPPHHLLTPPGSS----IHPQDYQNSMLHGGVLMYPGTPGTPP 116
P +T S +HP G PP
Sbjct: 5 HHHHHHSSGLVPRGSHMVIPSASVTSAASDFLAALHPPVTVPD--PAPPPPPAPAAGNPP 62
Query: 117 DTPPGSNSP------PHQHYHHMDHPSHPHIQQLPPRAQTYH---------DMFMPPHPN 161
DT G + P P+ + +Q P A ++ P P
Sbjct: 63 DTVTGDSVLQRILRGPTGPGTTSLAPAVRYGRQPGPEAPASAPPAAGRAVPGLYHHPVPE 122
Query: 162 PFRQEEVPLDMRRHCAADW 180
P + W
Sbjct: 123 PDPVRVEEV---SRRIKRW 138
>1r8e_A Multidrug-efflux transporter regulator; protein-DNA complex,
MERR-family transcription activator, MU binding protein;
HET: P4P; 2.40A {Bacillus subtilis} SCOP: a.6.1.3
d.60.1.1 PDB: 1exi_A* 1exj_A* 3iao_A 3q5p_A* 3d71_A*
3q3d_A* 3q1m_A* 3q2y_A* 3q5r_A* 3q5s_A* 3d70_A 3d6z_A*
3d6y_A* 1bow_A 2bow_A*
Length = 278
Score = 29.0 bits (65), Expect = 1.9
Identities = 14/99 (14%), Positives = 36/99 (36%), Gaps = 16/99 (16%)
Query: 218 YSESDLISDDLLMCLSVRELNKKLHGYPRDQIAKLKAKRRTLKNRGYAQNCRSKRLHQRQ 277
Y++S L L + S++ + G P +++ K + + + Q +
Sbjct: 45 YTDSQL--IHLDLIKSLKYI-----GTPLEEMKKAQDLE--------MEELFAFYTEQER 89
Query: 278 ELEVTNKHLQQQLQKMKSEIKQIVEERNHYKKQYEIVMR 316
++ L Q + K++ + + Y E+ +
Sbjct: 90 QIREKLDFLSALEQTISLVKKRM-KRQMEYPALGEVFVL 127
>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 = 28.4 bits (62), Expect = 2.0
Identities = 4/12 (33%), Positives = 10/12 (83%)
Query: 287 QQQLQKMKSEIK 298
+Q L+K+++ +K
Sbjct: 19 KQALKKLQASLK 30
>3pgw_B SM B; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici
SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens}
PDB: 3cw1_A
Length = 231
Score = 28.8 bits (64), Expect = 2.0
Identities = 9/69 (13%), Positives = 17/69 (24%)
Query: 58 QRLPSIQSIPVPNGGSVHIQSPPHHLLTPPGSSIHPQDYQNSMLHGGVLMYPGTPGTPPD 117
Q ++ + S+ + + + G G P
Sbjct: 145 QGRGTVAAAAAAATASIAGAPTQYPPGRGGPPPPMGRGAPPPGMMGPPPGMRPPMGPPMG 204
Query: 118 TPPGSNSPP 126
PPG +P
Sbjct: 205 IPPGRGTPM 213
Score = 28.8 bits (64), Expect = 2.2
Identities = 22/115 (19%), Positives = 32/115 (27%), Gaps = 13/115 (11%)
Query: 58 QRLPSIQSIPVPNGGSVHIQSPPHHLLTPPGSSIHPQDYQ----------NSMLHGGVLM 107
+ +P+ +P G + P + P + PQ S+
Sbjct: 112 RGIPAGVPMPQAPAG---LAGPVRGVGGPSQQVMTPQGRGTVAAAAAAATASIAGAPTQY 168
Query: 108 YPGTPGTPPDTPPGSNSPPHQHYHHMDHPSHPHIQQLPPRAQTYHDMFMPPHPNP 162
PG G PP G+ P P +PP T M P P
Sbjct: 169 PPGRGGPPPPMGRGAPPPGMMGPPPGMRPPMGPPMGIPPGRGTPMGMPPPGMRPP 223
>1uix_A RHO-associated kinase; coiled-coil, transferase; HET: MSE; 1.80A
{Bos taurus} SCOP: h.1.27.1
Length = 71
Score = 27.1 bits (59), Expect = 2.3
Identities = 10/36 (27%), Positives = 19/36 (52%)
Query: 275 QRQELEVTNKHLQQQLQKMKSEIKQIVEERNHYKKQ 310
+++EL K Q+QL ++K E + ++KQ
Sbjct: 12 EKEELNNKLKEAQEQLSRLKDEEISAAAIKAQFEKQ 47
>3bv6_A Metal-dependent hydrolase; metallo protein, beta-lactamase like
fold, MCSG, structural PSI-2, protein structure
initiative; 1.80A {Vibrio cholerae o1 biovar eltor}
Length = 379
Score = 28.8 bits (64), Expect = 2.3
Identities = 9/84 (10%), Positives = 19/84 (22%), Gaps = 15/84 (17%)
Query: 83 LLTPPGSSIHPQDYQNSMLHGGVLMYPGTPGTPPDTPPGSNSPP---------------H 127
L + +N +++ M ++ P H
Sbjct: 82 LSIDFWCGTGKKTQKNRLMNTQHQMMRMGGVEALQPNLRTSIFPLDPFAIKEIDAVLASH 141
Query: 128 QHYHHMDHPSHPHIQQLPPRAQTY 151
H H+D + Q +
Sbjct: 142 DHADHIDVNVAAAVLQNCGEHVKF 165
>3lvh_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 9.00A {Bos
taurus}
Length = 205
Score = 28.3 bits (62), Expect = 2.7
Identities = 16/61 (26%), Positives = 30/61 (49%), Gaps = 4/61 (6%)
Query: 269 RSKRLHQRQELEVTNKHLQQQLQKMKSEIKQIVEERNHYKKQYEIVMRNK--DRSEAEHL 326
R R QR+ L+ + + Q+ + + K+ +EE ++Q E V +NK +R +
Sbjct: 103 RKWREEQRKRLQELDAASKVMEQEWREKAKKDLEE--WNQRQSEQVEKNKINNRIADKAF 160
Query: 327 Y 327
Y
Sbjct: 161 Y 161
>2i1j_A Moesin; FERM, coiled-coil, C-ermad, ERM, radixin, ezrin, MER actin
binding, masking, regulation, SELF-inhibition, cell A
membrane protein; 2.10A {Spodoptera frugiperda} PDB:
2i1k_A 1e5w_A
Length = 575
Score = 28.7 bits (63), Expect = 2.9
Identities = 16/146 (10%), Positives = 47/146 (32%), Gaps = 7/146 (4%)
Query: 171 DMRRHCAADWSLVDEHGGKYLHDEPSRPMSVSSSSVMSPSSRTTTCPYSESDLISDDLLM 230
+R + + H L+ +P ++ + + + ++ + + ++
Sbjct: 273 RVRVNKRILALCMGNHE---LYMRRRKPDTIDVQQMKAQAREEKLAKQAQREKLQLEIAA 329
Query: 231 CLSVRELNKKLHGYPRDQIAKLKAKRRTLKNRGYAQNCRSKRLHQRQE----LEVTNKHL 286
+ ++ R +++ + L ++L Q Q LE L
Sbjct: 330 RERAEKKQQEYQDRLRQMQEEMERSQANLLEAQDMILRLEEQLRQLQAAKEELEQRQNEL 389
Query: 287 QQQLQKMKSEIKQIVEERNHYKKQYE 312
Q +Q+++ ER + +
Sbjct: 390 QAMMQRLEETKNMEAAERQKLEDEIR 415
>3mov_A Lamin-B1; LMNB1, B-type lamins, intermediate filament (IF),
nucleus, coiled coil, structural genomics consortium,
SGC, structural protein; 2.40A {Homo sapiens} PDB:
3tyy_A
Length = 95
Score = 26.8 bits (60), Expect = 3.9
Identities = 8/50 (16%), Positives = 19/50 (38%), Gaps = 2/50 (4%)
Query: 275 QRQELEVTNKHLQQQLQKMKSEIKQIVEERNHYKKQYEIVMRNKDRSEAE 324
E + ++ L + E+ +I ++ YE ++ K + E
Sbjct: 33 DLLAKEK--DNSRRMLTDKEREMAEIRDQMQQQLNDYEQLLDVKLALDME 80
>3mq7_A Bone marrow stromal antigen 2; HIV, antiviral protein; 2.28A {Homo
sapiens} PDB: 3mqc_A 3mqb_A 3mkx_A 3nwh_A 2xg7_A* 2x7a_A
Length = 121
Score = 27.2 bits (59), Expect = 3.9
Identities = 12/76 (15%), Positives = 29/76 (38%)
Query: 235 RELNKKLHGYPRDQIAKLKAKRRTLKNRGYAQNCRSKRLHQRQELEVTNKHLQQQLQKMK 294
+EL + G+ + A + +++ + +ELE L +LQ
Sbjct: 32 QELTEAQKGFQDVEAQAATANHTVMALMASLDAEKAQGQKKVEELEGEITTLNHKLQDAS 91
Query: 295 SEIKQIVEERNHYKKQ 310
+E++++ E +
Sbjct: 92 AEVERLRRENQVLSVR 107
>3ne5_B Cation efflux system protein CUSB; transmembrane helix, metal
transport; 2.90A {Escherichia coli} PDB: 3ooc_A 3opo_A
3ow7_A 3h9i_A 3h94_A 3h9t_B
Length = 413
Score = 28.2 bits (63), Expect = 4.4
Identities = 13/63 (20%), Positives = 25/63 (39%), Gaps = 5/63 (7%)
Query: 99 SMLHGGVLMYPGTPGTPPDTPPGSNSPPHQH---YHHMDHPSHPHIQQLPPRAQTYHDMF 155
SM+ GG++ G PP + + + + P +P+ + P + DM
Sbjct: 10 SMIAGGIISAAGFTWVAKAEPPAEKTSTAERKILFWY--DPMYPNTRFDKPGKSPFMDMD 67
Query: 156 MPP 158
+ P
Sbjct: 68 LVP 70
>1fxk_C Protein (prefoldin); archaeal protein, chaperone; 2.30A
{Methanothermobacter thermautotrophicusorganism_taxid}
SCOP: a.2.5.1
Length = 133
Score = 27.2 bits (60), Expect = 4.4
Identities = 5/50 (10%), Positives = 21/50 (42%)
Query: 277 QELEVTNKHLQQQLQKMKSEIKQIVEERNHYKKQYEIVMRNKDRSEAEHL 326
E+ Q Q++ ++ +++ + + + + + + + +E L
Sbjct: 4 AEIVAQLNIYQSQVELIQQQMEAVRATISELEILEKTLSDIQGKDGSETL 53
>2z73_A Rhodopsin; visual pigment, GQ-type, G-protein coupled receptor,
chromophore, glycoprotein, lipoprotein, membrane,
palmitate phosphorylation; HET: BOG RET PLM TWT PC1;
2.50A {Todarodes pacificus} PDB: 3aym_A* 3ayn_A* 2ziy_A*
Length = 448
Score = 28.0 bits (62), Expect = 4.5
Identities = 15/78 (19%), Positives = 18/78 (23%)
Query: 85 TPPGSSIHPQDYQNSMLHGGVLMYPGTPGTPPDTPPGSNSPPHQHYHHMDHPSHPHIQQL 144
S P M +M P G PP + P Q
Sbjct: 356 AGESSDAAPSADAAQMKEMMAMMQKMQQQQAAYPPQGYAPPPQGYPPQGYPPQGYPPQGY 415
Query: 145 PPRAQTYHDMFMPPHPNP 162
PP+ PP P
Sbjct: 416 PPQGYPPPPQGAPPQGAP 433
>3bbo_D Ribosomal protein L1; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 352
Score = 28.0 bits (62), Expect = 5.0
Identities = 11/70 (15%), Positives = 16/70 (22%), Gaps = 5/70 (7%)
Query: 78 SPPHHLLTPPGSSIHPQDYQNSMLHGGVLMYPGTPGTPPDTPPGSNSPPHQHYHHMDHPS 137
+PP L SS Q + H P + N +D S
Sbjct: 5 APPSLSLCYASSSFQYQQDPSFQTH----FKPLLLNSSL-CRLTLNQRERSCLKWVDFTS 59
Query: 138 HPHIQQLPPR 147
+
Sbjct: 60 QKQSPKSVSF 69
>4e61_A Protein BIM1; EB1-like motif, coiled-coil, spindle orientation,
mitosis, K phosphorylation, mitotic spindle,
microtubules, cell cycle; 2.45A {Saccharomyces
cerevisiae}
Length = 106
Score = 26.8 bits (58), Expect = 5.0
Identities = 7/42 (16%), Positives = 17/42 (40%), Gaps = 3/42 (7%)
Query: 269 RSKRLHQRQELEVTN---KHLQQQLQKMKSEIKQIVEERNHY 307
+ + EL + L +++++ K + + ER Y
Sbjct: 3 LGSLVAIQAELTKSQETIGSLNEEIEQYKGTVSTLEIEREFY 44
>2wyl_A L-ascorbate-6-phosphate lactonase ULAG; hydrolase; 2.59A
{Escherichia coli} PDB: 2wym_A*
Length = 360
Score = 28.0 bits (62), Expect = 5.1
Identities = 5/25 (20%), Positives = 8/25 (32%)
Query: 127 HQHYHHMDHPSHPHIQQLPPRAQTY 151
H H H+D + Q +
Sbjct: 117 HDHNDHIDVNVAAAVMQNCADDVPF 141
>3l4q_C Phosphatidylinositol 3-kinase regulatory subunit beta; PI3K,
phosphoinositide-3-kinase, influenza virus, NS1; 2.30A
{Bos taurus} PDB: 2v1y_B
Length = 170
Score = 27.4 bits (60), Expect = 5.4
Identities = 10/81 (12%), Positives = 29/81 (35%)
Query: 240 KLHGYPRDQIAKLKAKRRTLKNRGYAQNCRSKRLHQRQELEVTNKHLQQQLQKMKSEIKQ 299
+ + + + K + + E+ + L+Q+L+ S+ ++
Sbjct: 69 QTQEKSSKEYLERFRREGNEKEMQRILLNSERLKSRIAEIHESRTKLEQELRAQASDNRE 128
Query: 300 IVEERNHYKKQYEIVMRNKDR 320
I + N K + + +D+
Sbjct: 129 IDKRMNSLKPDLMQLRKIRDQ 149
>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling
protein; 2.85A {Arabidopsis thaliana}
Length = 338
Score = 27.7 bits (61), Expect = 6.1
Identities = 9/48 (18%), Positives = 23/48 (47%), Gaps = 3/48 (6%)
Query: 277 QELEVTNKHLQQQLQKMKSEIKQIVEERNHYKKQYEIVMRNKDRSEAE 324
Q+ +K ++++L+ + + K K+ Y+ + + KD A+
Sbjct: 291 QKYAPDDKAIRRELRALAEQEK---ALYQKQKEMYKGIFKGKDEGGAK 335
>2dq0_A Seryl-tRNA synthetase; coiled-coil, homodimer, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; HET: SSA; 2.60A {Pyrococcus
horikoshii} PDB: 2dq1_A* 2dq2_A 2zr2_A* 2zr3_A
Length = 455
Score = 27.6 bits (62), Expect = 6.1
Identities = 11/81 (13%), Positives = 29/81 (35%), Gaps = 14/81 (17%)
Query: 246 RDQIAKLKAKRRTLKNRGYAQNCRSKRLHQRQELEVTNKHLQQQLQKMKSEIKQIVEERN 305
R+ +K L RG + K + + +L+ + +++ +++ ERN
Sbjct: 8 RENPELVKND---LIKRGELEK--VKWVDEILKLDTEWRTKLKEINRLRH-------ERN 55
Query: 306 HYKKQYEIVMRNKDRSEAEHL 326
+ + + + L
Sbjct: 56 KIAVEIGKRRKKGE--PVDEL 74
>2zqm_A Prefoldin beta subunit 1; chaperone; HET: CIT; 1.90A {Thermococcus
SP} PDB: 2zdi_A
Length = 117
Score = 26.4 bits (58), Expect = 6.5
Identities = 11/48 (22%), Positives = 21/48 (43%)
Query: 275 QRQELEVTNKHLQQQLQKMKSEIKQIVEERNHYKKQYEIVMRNKDRSE 322
Q Q + + QQQLQ + + +++ E KK + + D +
Sbjct: 7 QVQAMLGQLESYQQQLQLVVQQKQKVQLELTEAKKALDEIESLPDDAV 54
>1r8d_A Transcription activator MTAN; protein-DNA complex,
transcription/DNA complex; 2.70A {Bacillus subtilis}
SCOP: a.6.1.3 PDB: 1jbg_A
Length = 109
Score = 26.4 bits (59), Expect = 6.6
Identities = 14/83 (16%), Positives = 36/83 (43%), Gaps = 15/83 (18%)
Query: 218 YSESDLISDDLLMCLSVRELNKKLHGYPRDQIAKLKAKRRTLKNRGYAQNCRSKRLHQRQ 277
YS++DL + L L +E+ G+ D+I ++ L + + + + Q++
Sbjct: 41 YSDADL--ERLQQILFFKEI-----GFRLDEIKEM------LDHPNFDRKAALQS--QKE 85
Query: 278 ELEVTNKHLQQQLQKMKSEIKQI 300
L + + + +Q + + +
Sbjct: 86 ILMKKKQRMDEMIQTIDRTLLSV 108
>2fxu_A Alpha-actin-1, actin, alpha skeletal muscle; actin complexed to
bistramide A, structural protein; HET: HIC ATP BID;
1.35A {Oryctolagus cuniculus} SCOP: c.55.1.1 c.55.1.1
PDB: 1h1v_A* 1kxp_A* 1lot_B* 1m8q_7* 1ma9_B* 1mvw_1*
1nwk_A* 1o18_1* 1o19_1* 1o1a_1* 1o1b_0* 1o1c_0* 1o1d_0*
1o1e_1* 1o1f_0* 1o1g_1* 1j6z_A* 1qz6_A* 1rdw_X* 1rfq_A*
...
Length = 375
Score = 27.4 bits (61), Expect = 6.9
Identities = 13/49 (26%), Positives = 18/49 (36%), Gaps = 9/49 (18%)
Query: 91 IHPQDYQNSMLHGGVLMYPGTPG---------TPPDTPPGSNSPPHQHY 130
I Y N+++ GG MYPG P +PP + Y
Sbjct: 289 IRKDLYANNVMSGGTTMYPGIADRMQKEITALAPSTMKIKIIAPPERKY 337
>2efr_A General control protein GCN4 and tropomyosin 1 Al; destabilizing
cluster, hydrophobic core, contractIle protein; 1.80A
{Saccharomyces cerevisiae} PDB: 2efs_A 2d3e_A
Length = 155
Score = 26.5 bits (58), Expect = 8.6
Identities = 11/55 (20%), Positives = 23/55 (41%), Gaps = 1/55 (1%)
Query: 271 KRLHQR-QELEVTNKHLQQQLQKMKSEIKQIVEERNHYKKQYEIVMRNKDRSEAE 324
K + + LE + Q+ K + EIK + ++ + + E R+ + E
Sbjct: 52 KTVTNNLKSLEAQAEKYSQKEDKYEEEIKVLSDKLKEAETRAEFAERSVTKLEKS 106
>1k3i_A Galactose oxidase precursor; blade beta propeller, prosequence
form, precursor of copper enzyme., oxidoreductase; 1.40A
{Fusarium SP} SCOP: b.1.18.2 b.18.1.1 b.69.1.1 PDB:
1gof_A 1gog_A 1goh_A 2eie_A 2jkx_A 2vz1_A 2vz3_A 2eic_A
2eib_A 1t2x_A 2eid_A 2wq8_A
Length = 656
Score = 27.2 bits (59), Expect = 8.7
Identities = 9/40 (22%), Positives = 15/40 (37%), Gaps = 1/40 (2%)
Query: 49 ATNHNISNHQRLPSIQSIPVPNGGSVHIQSPPHHLLTPPG 88
H ++ QR + ++ G S Q P + PG
Sbjct: 595 TATHTVNTDQRRIPL-TLTNNGGNSYSFQVPSDSGVALPG 633
>3i2w_A Syndapin, LD46328P; EFC, FBAR, SH3 domain, endocytosis; 2.67A
{Drosophila melanogaster}
Length = 290
Score = 27.1 bits (59), Expect = 9.1
Identities = 6/59 (10%), Positives = 20/59 (33%)
Query: 266 QNCRSKRLHQRQELEVTNKHLQQQLQKMKSEIKQIVEERNHYKKQYEIVMRNKDRSEAE 324
+ + + H K L+ +K + +++ + K Y + + + +
Sbjct: 99 KTWQKENYHHTLMQIKERKDLEDLFKKAQKPWAKLLAKVEKAKADYHSACKTERSATNQ 157
>1nkp_A C-MYC, MYC proto-oncogene protein; transcription, DNA, BHLHZ,
heterodimer, transcription/DNA complex; 1.80A {Homo
sapiens} SCOP: a.38.1.1
Length = 88
Score = 25.4 bits (56), Expect = 9.2
Identities = 8/29 (27%), Positives = 14/29 (48%)
Query: 284 KHLQQQLQKMKSEIKQIVEERNHYKKQYE 312
+Q + QK+ SE + + R K + E
Sbjct: 55 LSVQAEEQKLISEEDLLRKRREQLKHKLE 83
>2ggv_B NS3, non-structural protein 3; beta barrel, serine protease, viral
protease, flavivirus, hydrolase; 1.80A {West nile virus}
PDB: 2ijo_B
Length = 185
Score = 26.4 bits (58), Expect = 9.3
Identities = 18/86 (20%), Positives = 27/86 (31%), Gaps = 10/86 (11%)
Query: 53 NISNHQRLPSIQSIPVPNGGSVHIQSPPHHLLTPPGSSIHPQD------YQNSMLHGGVL 106
N+ N Q P + P G+V + P GS I ++ Y N ++
Sbjct: 104 NVKNVQTKPGVFKTPEGEIGAVTLDFPT----GTSGSPIVDKNGDVIGLYGNGVIMPNGS 159
Query: 107 MYPGTPGTPPDTPPGSNSPPHQHYHH 132
P H H+HH
Sbjct: 160 YISAIVQGERMDEPIPAGKGHHHHHH 185
>1vjo_A Alanine--glyoxylate aminotransferase; 17130350, ALR1004, STR
genomics, JCSG, PSI, protein structure initiative,
joint CE structural genomics; HET: PLP; 1.70A {Nostoc
SP} SCOP: c.67.1.3
Length = 393
Score = 26.8 bits (60), Expect = 9.6
Identities = 12/41 (29%), Positives = 16/41 (39%), Gaps = 1/41 (2%)
Query: 55 SNHQRLPSIQSIPVPNGGSVHIQSPPHHLLTPPG-SSIHPQ 94
+H + I SI + P LL PG S+ HP
Sbjct: 8 HHHHHMAQIISINDNQRLQLEPLEVPSRLLLGPGPSNAHPS 48
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 0.131 0.398
Gapped
Lambda K H
0.267 0.0437 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,236,424
Number of extensions: 318960
Number of successful extensions: 1598
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1521
Number of HSP's successfully gapped: 162
Length of query: 328
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 234
Effective length of database: 4,077,219
Effective search space: 954069246
Effective search space used: 954069246
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: 57 (26.5 bits)