RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy18155
(185 letters)
>1u6g_C TIP120 protein, CAND1; cullin repeat, heat repeat, ring finger,
ligase; 3.10A {Homo sapiens} SCOP: a.118.1.2 PDB: 4a0c_A
Length = 1230
Score = 115 bits (288), Expect = 2e-30
Identities = 79/209 (37%), Positives = 105/209 (50%), Gaps = 24/209 (11%)
Query: 1 TRNVVAECLGKLTLIDPSNLLPRLQESLKSNS------------ALMRTTPQSIDPLLRQ 48
++ + LG +++ + LP + + + S + + + P +
Sbjct: 872 VKSAASYALGSISVGNLPEYLPFVLQEITSQPKRQYLLLHSLKEIISSASVVGLKPYVEN 931
Query: 49 TIGDFLSALKDSDLNVRRVALVAFNSAAHNKPSLVIDLLDSVLPQLYAET---------- 98
L + ++ R V P ++ L L +
Sbjct: 932 IWALLLKHCECAEEGTRNVVAECLGKLTLIDPETLLPRLKGYLISGSSYARSSVVTAVKF 991
Query: 99 --AVKPQSIDPLLRQTIGDFLSALKDSDLNVRRVALVAFNSAAHNKPSLVIDLLDSVLPQ 156
+ PQ IDPLL+ IGDFL L+D DLNVRRVALV FNSAAHNKPSL+ DLLD+VLP
Sbjct: 992 TISDHPQPIDPLLKNCIGDFLKTLEDPDLNVRRVALVTFNSAAHNKPSLIRDLLDTVLPH 1051
Query: 157 LYAETAVKKTLIREVEMGPFKHTVDDGLD 185
LY ET V+K LIREVEMGPFKHTVDDGLD
Sbjct: 1052 LYNETKVRKELIREVEMGPFKHTVDDGLD 1080
Score = 40.1 bits (92), Expect = 2e-04
Identities = 31/202 (15%), Positives = 57/202 (28%), Gaps = 32/202 (15%)
Query: 1 TRNVVAECLGKLTLIDPSNLLPRLQESLKSN-----------------SALMRTTPQSID 43
R LG L + + + L E L S +A+ R I
Sbjct: 191 VRKRTIIALGHLVMSCGNIVFVDLIEHLLSELSKNDSMSTTRTYIQCIAAISRQAGHRIG 250
Query: 44 PLLRQTIGDFLSALKDSDLNVRRVALVAFNSAAHNKPSLVIDLLDSVLPQLYAETAVKPQ 103
L + I + D +R + AF S P V + +++ P
Sbjct: 251 EYLEKIIPLVVKFCNVDDDELREYCIQAFESFVRRCPKEVYPHVSTIINICLKYLTYDPN 310
Query: 104 SIDPLLRQTIG---------------DFLSALKDSDLNVRRVALVAFNSAAHNKPSLVID 148
+ D S D VRR A ++ + ++ +
Sbjct: 311 YNYDDEDEDENAMDADGGDDDDQGSDDEYSDDDDMSWKVRRAAAKCLDAVVSTRHEMLPE 370
Query: 149 LLDSVLPQLYAETAVKKTLIRE 170
+V P L + ++ ++
Sbjct: 371 FYKTVSPALISRFKEREENVKA 392
Score = 32.0 bits (71), Expect = 0.11
Identities = 17/94 (18%), Positives = 40/94 (42%), Gaps = 1/94 (1%)
Query: 4 VVAECLGKLTLIDPSNLLPRLQESLKSNSALMRTTPQSIDP-LLRQTIGDFLSALKDSDL 62
V+ E + L N +L + L++ S+ ++ + + + +SD+
Sbjct: 647 VLGEGVPILASFLRKNQRALKLGTLSALDILIKNYSDSLTAAMIDAVLDELPPLISESDM 706
Query: 63 NVRRVALVAFNSAAHNKPSLVIDLLDSVLPQLYA 96
+V ++A+ + A PS + + S+L +L
Sbjct: 707 HVSQMAISFLTTLAKVYPSSLSKISGSILNELIG 740
Score = 29.3 bits (64), Expect = 0.76
Identities = 23/141 (16%), Positives = 49/141 (34%), Gaps = 21/141 (14%)
Query: 19 NLLPRLQESLKSNSALMRTTPQSIDPLLRQTIGDFLSALKDSDLNVRRVALVAFNSAAHN 78
N + RL + P+L + + S L+ + ++ L A + N
Sbjct: 621 NEITRLTTVKALTLIAGSPLKIDLRPVLGEGVPILASFLRKNQRALKLGTLSALDILIKN 680
Query: 79 KPSLVIDLLDSVLPQLYAETAVKPQSIDPLLRQTIGDFLSALKDSDLNVRRVALVAFNSA 138
++ ID +L + + +SD++V ++A+ +
Sbjct: 681 YSD-----------------SLTAAMIDAVLDE----LPPLISESDMHVSQMAISFLTTL 719
Query: 139 AHNKPSLVIDLLDSVLPQLYA 159
A PS + + S+L +L
Sbjct: 720 AKVYPSSLSKISGSILNELIG 740
>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 = 42.0 bits (98), Expect = 5e-05
Identities = 29/167 (17%), Positives = 60/167 (35%), Gaps = 34/167 (20%)
Query: 27 SLKSNSALMRTT---PQSIDPLLRQTIGDFLSAL-KDSDLNVRRVALVAFNSAAHNKPSL 82
+L S + P + + Q F L + ++ AA ++P+
Sbjct: 10 TLSHGS--LEHVLLVPTASFFIASQLQEQFNKILPEPTE-----------GFAADDEPTT 56
Query: 83 VIDLLDSVLPQLYAETAVKPQSI---DPLLRQTIGDFLSA-LKDSDLNVRRVALVAFNSA 138
+L+ L Y + V+P + D +L + +F + L+ +D++ L+ N
Sbjct: 57 PAELVGKFL--GYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDT 114
Query: 139 AHNKPSLVIDLLDSVLPQLY--AETAVKKTLIREVEMGPFKHTVDDG 183
K +I + Y A K+ ++ F+ V +G
Sbjct: 115 TLVKTKELI--------KNYITARIMAKRPFDKKSNSALFRA-VGEG 152
Score = 33.5 bits (76), Expect = 0.041
Identities = 41/215 (19%), Positives = 66/215 (30%), Gaps = 79/215 (36%)
Query: 5 VAECLGKLT-LIDPSNLLPRLQ---------ES--LKSNS--ALMRTTPQSIDPLLRQT- 49
V + LG ++ L++PS + Q E+ L+ N AL Q D L +T
Sbjct: 61 VGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTK 120
Query: 50 --IGDFLSALKDSDLNVRRV---ALVAFNSAAHNK------------------------- 79
I ++++A + + AL F +
Sbjct: 121 ELIKNYITARIMAKRPFDKKSNSAL--FRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQ 178
Query: 80 --PSLVIDLLDSVLPQLYAETAVKPQSIDPLLRQTIGDFLSALKDSDLNVRRVALVAFNS 137
LV DL+ L +E + + Q + + L L++
Sbjct: 179 TYHVLVGDLIKFSAETL-SELIRTTLDAEKVFTQGL-NILEWLENPS------------- 223
Query: 138 AAHNKPSLVIDLLDSV---LP-----QL--YAETA 162
N P D L S+ P QL Y TA
Sbjct: 224 ---NTPD--KDYLLSIPISCPLIGVIQLAHYVVTA 253
>2db0_A 253AA long hypothetical protein; heat repeats, helical structure,
structural genomics; 2.20A {Pyrococcus horikoshii}
Length = 253
Score = 41.2 bits (96), Expect = 7e-05
Identities = 25/159 (15%), Positives = 53/159 (33%), Gaps = 29/159 (18%)
Query: 1 TRNVVAECLGKLTLIDP---SNLLPRLQESLKSNSA------------LMRTTPQSIDPL 45
+A+ G++ P +++P L + + + + P + +
Sbjct: 86 LTQEIAKAFGQMAKEKPELVKSMIPVLFANYRIGDEKTKINVSYALEEIAKANPMLMASI 145
Query: 46 LRQTIGDFLSALKDSDLNVRRVALVAFNSAAHNKPSLVIDLLDSVLPQLY---------- 95
+R DF+S L + + AL + N V L ++ L+
Sbjct: 146 VR----DFMSMLSSKNREDKLTALNFIEAMGENSFKYVNPFLPRIINLLHDGDEIVRASA 201
Query: 96 AETAVKPQSIDPLLRQTIGDFLSALKDSDLNVRRVALVA 134
E V +++ LR+ + L L D+ V +
Sbjct: 202 VEALVHLATLNDKLRKVVIKRLEELNDTSSLVNKTVKEG 240
Score = 38.1 bits (88), Expect = 7e-04
Identities = 18/122 (14%), Positives = 36/122 (29%), Gaps = 12/122 (9%)
Query: 48 QTIGDFLSALKDSDLNVRRVALVAFNSAAHNKPSLVIDLLDSVLPQLY-----------A 96
+ + L D V + A+ A + L +L + L A
Sbjct: 32 SVLKKLIELLDDDLWTVVKNAISIIMVIAKTREDLYEPMLKKLFSLLKKSEAIPLTQEIA 91
Query: 97 ETAVKPQSIDP-LLRQTIGDFLSALKDSDLNVRRVALVAFNSAAHNKPSLVIDLLDSVLP 155
+ + P L++ I + + D + A A P L+ ++ +
Sbjct: 92 KAFGQMAKEKPELVKSMIPVLFANYRIGDEKTKINVSYALEEIAKANPMLMASIVRDFMS 151
Query: 156 QL 157
L
Sbjct: 152 ML 153
Score = 36.2 bits (83), Expect = 0.003
Identities = 25/138 (18%), Positives = 48/138 (34%), Gaps = 16/138 (11%)
Query: 32 SALMRTTPQSIDPLLRQTIGDFLSALKDSD-LNVRRVALVAFNSAAHNKPSLVIDLLDSV 90
+ +T +P+L++ S LK S+ + + + AF A KP LV ++ +
Sbjct: 57 MVIAKTREDLYEPMLKK----LFSLLKKSEAIPLTQEIAKAFGQMAKEKPELVKSMIPVL 112
Query: 91 LPQLYAETAVKPQSI-----------DPLLRQTIGDFLSALKDSDLNVRRVALVAFNSAA 139
++ L+ + DF+S L + + AL +
Sbjct: 113 FANYRIGDEKTKINVSYALEEIAKANPMLMASIVRDFMSMLSSKNREDKLTALNFIEAMG 172
Query: 140 HNKPSLVIDLLDSVLPQL 157
N V L ++ L
Sbjct: 173 ENSFKYVNPFLPRIINLL 190
Score = 28.5 bits (63), Expect = 1.3
Identities = 11/102 (10%), Positives = 28/102 (27%), Gaps = 25/102 (24%)
Query: 56 ALKDSDLNVRRVALVAFNSAAHNKPSLVIDLLDSVLPQLYAETAVKPQSIDPLLRQTIGD 115
++++ + ++R + L ++ + L+
Sbjct: 2 SMEEEEFDIREALANGEH-----------------LEKILIMAKYDESVLKKLIE----- 39
Query: 116 FLSALKDSDLNVRRVALVAFNSAAHNKPSLVIDLLDSVLPQL 157
L D V + A+ A + L +L + L
Sbjct: 40 ---LLDDDLWTVVKNAISIIMVIAKTREDLYEPMLKKLFSLL 78
>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 = 40.6 bits (94), Expect = 2e-04
Identities = 37/209 (17%), Positives = 74/209 (35%), Gaps = 53/209 (25%)
Query: 1 TRNVVAECLGKLTLIDPSNLLPRLQESLKSN-------SALMRTTPQSIDPL-------L 46
++++ + L P +L PR E L +N + +R + D L
Sbjct: 303 VKSLLLKYLD----CRPQDL-PR--EVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKL 355
Query: 47 RQTIGDFLSALKDSDLNVRRVALVAFNSAAHNKPSLVIDLL---------DSVLPQLYAE 97
I L+ L+ ++ L F +A + P++++ L+ V+ +L+
Sbjct: 356 TTIIESSLNVLEPAEYRKMFDRLSVFPPSA-HIPTILLSLIWFDVIKSDVMVVVNKLHKY 414
Query: 98 TAVKPQSIDPLLRQTIGDFLSALK---DSDLNVRRVALVAFN-SAAHNKPSLVIDLLDSV 153
+ V+ Q + + I LK +++ + R + +N + L+ LD
Sbjct: 415 SLVEKQPKESTIS--IPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQ- 471
Query: 154 LPQLY-----------AETAVKKTLIREV 171
Y E + TL R V
Sbjct: 472 ----YFYSHIGHHLKNIEHPERMTLFRMV 496
Score = 32.5 bits (73), Expect = 0.071
Identities = 28/174 (16%), Positives = 50/174 (28%), Gaps = 47/174 (27%)
Query: 14 LIDPSNLLPRLQESLKSNSALMRTTPQSIDPLLRQTIGDF------LSALKDSDLNVRRV 67
+ N+ RLQ LK AL+ P +L + L +
Sbjct: 125 VFAKYNV-SRLQPYLKLRQALLELRPAKN--VLIDGVLGSGKTWVALDVCLSYKV----- 176
Query: 68 ALVAFNSAAH-------NKPSLVIDLLDSVLPQLYAETAVKPQSIDPLLRQTIGDFLSAL 120
+ N P V+++L +L Q+ + ++ I + L
Sbjct: 177 -QCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSN-IKLRIHSIQAEL 234
Query: 121 KDSDLNVRRVALVAFNSAAHNKPSLVIDLLDSVLPQLYAETAVK------KTLI 168
RR+ S + L++ L +V A K L+
Sbjct: 235 -------RRL----LKSKPYEN-CLLV--LLNV----QNAKAWNAFNLSCKILL 270
>3l9t_A Putative uncharacterized protein SMU.31; hypothetical protein,
unknown function; HET: EPE; 2.21A {Streptococcus mutans}
Length = 240
Score = 38.0 bits (87), Expect = 7e-04
Identities = 17/120 (14%), Positives = 30/120 (25%), Gaps = 24/120 (20%)
Query: 33 ALMRTTPQSIDPLLRQTIGDFLSALKDSDLNVRRVALVAFNSAAHNKPSLVIDLLDSVLP 92
++ + LK S+L+ RR A + +P +
Sbjct: 124 LAKAFDEFCKKIEYKKALPIIDEWLKSSNLHTRRAATEGLRIWTN-RPYFKEN------- 175
Query: 93 QLYAETAVKPQSIDPLLRQTIGDFLSALKDSDLNVRRVALVAFNSAAHNKPSLVIDLLDS 152
P + +D VR+ A + P LV L +
Sbjct: 176 ---------PNEAIRRIAD-------LKEDVSEYVRKSVGNALRDISKKFPDLVKIELKN 219
>1oyz_A Hypothetical protein YIBA; structural genomics, PSI, protein
structure initiative, northeast structural genomics
consortium, NESG; 2.10A {Escherichia coli} SCOP:
a.118.1.16
Length = 280
Score = 33.2 bits (76), Expect = 0.030
Identities = 22/174 (12%), Positives = 47/174 (27%), Gaps = 36/174 (20%)
Query: 1 TRNVVAECLGKLTLIDPSNLLPRLQESLKSNSALMRT----------TPQSIDPLLRQTI 50
R A L + + E + + R + + + +
Sbjct: 39 KRISSARVLQL---RGGQDAVRLAIEFCSDKNYIRRDIGAFILGQIKICKKCEDNVFNIL 95
Query: 51 GDFLSALKDSDLNVRRVALVAFNSAAHNKPSLVIDLLDSVLPQLYAE------TAV---- 100
+ AL D VR A+ + P +++ + +
Sbjct: 96 NN--MALNDKSACVRATAIESTAQRCKKNPIYSPKIVEQSQITAFDKSTNVRRATAFAIS 153
Query: 101 ---KPQSIDPLLRQTIGDFLSALKDSDLNVRRVALVAFNSAAHNKPSLVIDLLD 151
+I L+ LKD + +VR A A N ++ + ++
Sbjct: 154 VINDKATIPLLIN--------LLKDPNGDVRNWAAFAININKYDNSDIRDCFVE 199
Score = 33.2 bits (76), Expect = 0.032
Identities = 23/155 (14%), Positives = 47/155 (30%), Gaps = 40/155 (25%)
Query: 2 RNVVAECLGKLTLIDPSN---LLPRLQESLKSNSALMRTT----------PQSIDPLLRQ 48
R E + +P ++ + Q + S +R +I L+
Sbjct: 108 RATAIESTAQRCKKNPIYSPKIVEQSQITAFDKSTNVRRATAFAISVINDKATIPLLIN- 166
Query: 49 TIGDFLSALKDSDLNVRRVALVAFNSAAHNKPSLV---IDLLDSVLPQLYAETAV----- 100
LKD + +VR A A N ++ + +++L ++ E +
Sbjct: 167 -------LLKDPNGDVRNWAAFAININKYDNSDIRDCFVEMLQDKNEEVRIEAIIGLSYR 219
Query: 101 -KPQSIDPLLRQTIGDFLSALKDSDLNVRRVALVA 134
+ + L LK + V + A
Sbjct: 220 KDKRVLSVLCD--------ELKKNT--VYDDIIEA 244
Score = 30.9 bits (70), Expect = 0.19
Identities = 14/128 (10%), Positives = 29/128 (22%), Gaps = 22/128 (17%)
Query: 42 IDPLLRQTIGDFLSALKDSDLNVRRVALVAFNSAAHNK-PSLVIDLLDS----------- 89
+ + + L D + R + L I+
Sbjct: 17 YNQCKKLNDDELFRLLDDHNSLKRISSARVLQLRGGQDAVRLAIEFCSDKNYIRRDIGAF 76
Query: 90 VLPQLYAETAVKPQSIDPLLRQTIGDFLSALKDSDLNVRRVALVA---FNSAAHNKPSLV 146
+L Q+ + + L AL D VR A+ + +
Sbjct: 77 ILGQIKICKKCEDNVFNILNNM-------ALNDKSACVRATAIESTAQRCKKNPIYSPKI 129
Query: 147 IDLLDSVL 154
++
Sbjct: 130 VEQSQITA 137
>4fdd_A Transportin-1; heat repeats, karyopherin, nuclear import, protein
transport importin, transportin, transport protein;
2.30A {Homo sapiens} PDB: 2ot8_A 2h4m_A 2z5k_A 2z5j_A
2qmr_A 2z5m_A 2z5n_A 2z5o_A 1qbk_B*
Length = 852
Score = 33.6 bits (76), Expect = 0.030
Identities = 32/176 (18%), Positives = 55/176 (31%), Gaps = 34/176 (19%)
Query: 16 DPSNLLPRLQESLKSNSALMR------------TTPQSIDPLLRQTI-GDFLSALKDSDL 62
D +N L + LKS R Q+ + I + L+ + DS
Sbjct: 45 DFNNYLIFVLTKLKSEDEPTRSLSGLILKNNVKAHFQNFPNGVTDFIKSECLNNIGDSSP 104
Query: 63 NVRR-----VALVAFNSAAHNKPSLVIDLLDSVLPQLYAE----------------TAVK 101
+R + +A N P L+ L + + Y +
Sbjct: 105 LIRATVGILITTIASKGELQNWPDLLPKLCSLLDSEDYNTCEGAFGALQKICEDSAEILD 164
Query: 102 PQSIDPLLRQTIGDFLSALKDSDLNVRRVALVAFNSAAHNKPSLVIDLLDSVLPQL 157
+D L I FL K S +R A+ N ++ ++ +DS + L
Sbjct: 165 SDVLDRPLNIMIPKFLQFFKHSSPKIRSHAVACVNQFIISRTQALMLHIDSFIENL 220
Score = 30.1 bits (67), Expect = 0.41
Identities = 34/173 (19%), Positives = 53/173 (30%), Gaps = 37/173 (21%)
Query: 1 TRNVVAECLGKLTLIDPSNLLPRLQESLKSN----------------SALMRTTPQSIDP 44
R A L L + LLP + LK A+ Q + P
Sbjct: 337 LRKCSAAALDVLANVYRDELLPHILPLLKELLFHHEWVVKESGILVLGAIAEGCMQGMIP 396
Query: 45 LLRQTIGDFLSALKDSDLNVRRVALVAFNSAAHNKPSLVIDLLDSVLPQLYAETAVKPQS 104
L + I + L D VR + + AH V Q
Sbjct: 397 YLPELIPHLIQCLSDKKALVRSITCWTLSRYAHW---------------------VVSQP 435
Query: 105 IDPLLRQTIGDFLSALKDSDLNVRRVALVAFNSAAHNKPSLVIDLLDSVLPQL 157
D L+ + + L + DS+ V+ A AF + + ++ L +L L
Sbjct: 436 PDTYLKPLMTELLKRILDSNKRVQEAACSAFATLEEEACTELVPYLAYILDTL 488
>1ibr_B P95, importin beta-1 subunit, nuclear factor; small GTPase, nuclear
transport receptor, cell cycle, translation; HET: GNP;
2.30A {Homo sapiens} SCOP: a.118.1.1 PDB: 1m5n_S 1gcj_A
1f59_A 1o6o_A 1o6p_A
Length = 462
Score = 33.3 bits (75), Expect = 0.038
Identities = 30/163 (18%), Positives = 54/163 (33%), Gaps = 19/163 (11%)
Query: 14 LIDPSNLLPRLQESLKSNSALMRTTPQSIDPLLRQTIGDFLSALKDSDLNVRRVALVAFN 73
I+ S + + ++ + Q + P+L QT+ D D N + A V
Sbjct: 294 AIEASEAAEQGRPPEHTSKFYAKGALQYLVPILTQTLTKQDENDDDDDWNPCKAAGVCLM 353
Query: 74 SAAHNKPSLVIDLLDSVLPQL-------YAETAV----------KPQSIDPLLRQTIGDF 116
A ++ + + + Y + AV +P + PL+ Q +
Sbjct: 354 LLATCCEDDIVPHVLPFIKEHIKNPDWRYRDAAVMAFGCILEGPEPSQLKPLVIQAMPTL 413
Query: 117 LSALKDSDLNVRRVALVAFNSAAHNKPSLVI--DLLDSVLPQL 157
+ +KD + VR A P I L +L L
Sbjct: 414 IELMKDPSVVVRDTAAWTVGRICELLPEAAINDVYLAPLLQCL 456
Score = 28.6 bits (63), Expect = 1.1
Identities = 21/107 (19%), Positives = 37/107 (34%), Gaps = 18/107 (16%)
Query: 3 NVVAECLGKLTLIDPSNLLPRLQESLKSNSALMR-------------TTPQSIDPLLRQT 49
++A C + ++LP ++E +K+ R P + PL+ Q
Sbjct: 353 MLLATCCEDDIV---PHVLPFIKEHIKNPDWRYRDAAVMAFGCILEGPEPSQLKPLVIQA 409
Query: 50 IGDFLSALKDSDLNVRRVALVAFNSAAHNKPSLVI--DLLDSVLPQL 94
+ + +KD + VR A P I L +L L
Sbjct: 410 MPTLIELMKDPSVVVRDTAAWTVGRICELLPEAAINDVYLAPLLQCL 456
>2bpt_A Importin beta-1 subunit; nuclear transport, nucleocytoplasmic
transport, nuclear trafficking, importin- beta, complex;
1.99A {Saccharomyces cerevisiae} SCOP: a.118.1.1 PDB:
2bku_B 3ea5_B* 3nd2_A
Length = 861
Score = 32.9 bits (74), Expect = 0.058
Identities = 22/200 (11%), Positives = 49/200 (24%), Gaps = 43/200 (21%)
Query: 2 RNVVAECLGKLTLIDPS----NLLPRLQESLKSNSALMR-------------TTPQSIDP 44
CL + +L +++++ +++ R
Sbjct: 348 SMSAGACLQLFAQNCGNHILEPVLEFVEQNITADNWRNREAAVMAFGSIMDGPDKVQRTY 407
Query: 45 LLRQTIGDFLSALKDSDLNVRRVALVAFNSAAHNKPSLVI--DLLDSVLPQL-------- 94
+ Q + L+ + D L V+ A + + L V+
Sbjct: 408 YVHQALPSILNLMNDQSLQVKETTAWCIGRIADSVAESIDPQQHLPGVVQACLIGLQDHP 467
Query: 95 ----YAETAVK----------PQSIDPLLRQTIGDFLSALK--DSDLNVRRVALVAFNSA 138
+ P I + + A D++ N R A A +
Sbjct: 468 KVATNCSWTIINLVEQLAEATPSPIYNFYPALVDGLIGAANRIDNEFNARASAFSALTTM 527
Query: 139 AHNKPSLVIDLLDSVLPQLY 158
V + S+ +
Sbjct: 528 VEYATDTVAETSASISTFVM 547
>1te4_A Conserved protein MTH187; methanobacterium thermoautotrophicum,
structural proteomics, heat-like repeat; NMR
{Methanothermobacterthermautotrophicus} SCOP: a.118.1.16
Length = 131
Score = 31.1 bits (71), Expect = 0.084
Identities = 15/102 (14%), Positives = 33/102 (32%), Gaps = 22/102 (21%)
Query: 39 PQSIDPLLRQTIGDFLSALKDSDLNVRRVALVAFNSAAHNKPSLVIDLLDSVLPQLYAET 98
+ P + D + VRR A + +++ L + ++
Sbjct: 11 SSGLVPRGS--------HMADENKWVRRDVSTALSRMGDEAFEPLLESLSNEDWRIRGAA 62
Query: 99 AV------KPQSIDPLLRQTIGDFLSALKDSDLNVRRVALVA 134
A ++++PL++ L+D VR A +
Sbjct: 63 AWIIGNFQDERAVEPLIK--------LLEDDSGFVRSGAARS 96
Score = 25.3 bits (56), Expect = 9.5
Identities = 11/80 (13%), Positives = 24/80 (30%), Gaps = 21/80 (26%)
Query: 2 RNVVAECLGKLTLIDPSNLLPRLQESLKSNSALMRT----------TPQSIDPLLRQTIG 51
R A +G D + L + L+ +S +R+ + + +
Sbjct: 59 RGAAAWIIGNFQ--DER-AVEPLIKLLEDDSGFVRSGAARSLEQIGGERVRAAMEK---- 111
Query: 52 DFLSALKDSDLNVRRVALVA 71
+ R+VA+
Sbjct: 112 ----LAETGTGFARKVAVNY 127
>3ltm_A Alpha-REP4; protein engineering, heat-like repeat, protein binding;
HET: 1PE 12P; 2.15A {Synthetic}
Length = 211
Score = 31.6 bits (72), Expect = 0.098
Identities = 37/150 (24%), Positives = 58/150 (38%), Gaps = 36/150 (24%)
Query: 2 RNVVAECLGKLTLIDPSNLLPRLQESLKSNSALMRTT----------PQSIDPLLRQTIG 51
R A LGK I + L ++LK A +R ++++PL++
Sbjct: 36 RRAAAYALGK---IGDERAVEPLIKALKDEDAWVRRAAADALGQIGDERAVEPLIK---- 88
Query: 52 DFLSALKDSDLNVRRVALVAFNSAAHNK-PSLVIDLLDSVLPQLYAETAV------KPQS 104
ALKD D VR+ A VA + +I L + A ++
Sbjct: 89 ----ALKDEDGWVRQSAAVALGQIGDERAVEPLIKALKDEDWFVRIAAAFALGEIGDERA 144
Query: 105 IDPLLRQTIGDFLSALKDSDLNVRRVALVA 134
++PL++ ALKD D VR+ A A
Sbjct: 145 VEPLIK--------ALKDEDGWVRQSAADA 166
Score = 31.6 bits (72), Expect = 0.11
Identities = 26/110 (23%), Positives = 42/110 (38%), Gaps = 25/110 (22%)
Query: 33 ALMRTTPQSIDPLLRQTIGDFLSALKDSDLNVRRVALVAFNSAAHNK--PSLVIDLLDSV 90
A +R P+ ++ ++ L+D VRR A A + L I L
Sbjct: 12 APLRADPEKVEMYIK--------NLQDDSYYVRRAAAYALGKIGDERAVEPL-IKALKDE 62
Query: 91 LPQLYAETAV------KPQSIDPLLRQTIGDFLSALKDSDLNVRRVALVA 134
+ A ++++PL++ ALKD D VR+ A VA
Sbjct: 63 DAWVRRAAADALGQIGDERAVEPLIK--------ALKDEDGWVRQSAAVA 104
Score = 30.0 bits (68), Expect = 0.33
Identities = 25/143 (17%), Positives = 44/143 (30%), Gaps = 53/143 (37%)
Query: 2 RNVVAECLGKLTLIDPSNLLPRLQESLKSNSALMRT----------TPQSIDPLLRQTIG 51
R A LG+ I + L ++LK +R ++++PL++
Sbjct: 98 RQSAAVALGQ---IGDERAVEPLIKALKDEDWFVRIAAAFALGEIGDERAVEPLIK---- 150
Query: 52 DFLSALKDSDLNVRRVALVAFNSAAHNKPSLVIDLLDSVLPQLYAETAVKPQSIDPLLRQ 111
ALKD D VR+ A A L ++ E + +
Sbjct: 151 ----ALKDEDGWVRQSAADA-------------------LGEIGGERVR------AAMEK 181
Query: 112 TIGDFLSALKDSDLNVRRVALVA 134
+ R+VA+
Sbjct: 182 -------LAETGTGFARKVAVNY 197
>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 = 31.1 bits (69), Expect = 0.11
Identities = 10/39 (25%), Positives = 16/39 (41%), Gaps = 14/39 (35%)
Query: 47 RQTIGDFLSALKDSDLNVRRVALVAFNSAAHNKPSLVID 85
+Q + ++LK L A +SA P+L I
Sbjct: 19 KQALKKLQASLK----------LYADDSA----PALAIK 43
Score = 31.1 bits (69), Expect = 0.11
Identities = 10/39 (25%), Positives = 16/39 (41%), Gaps = 14/39 (35%)
Query: 110 RQTIGDFLSALKDSDLNVRRVALVAFNSAAHNKPSLVID 148
+Q + ++LK L A +SA P+L I
Sbjct: 19 KQALKKLQASLK----------LYADDSA----PALAIK 43
Score = 27.6 bits (60), Expect = 1.8
Identities = 11/32 (34%), Positives = 14/32 (43%), Gaps = 9/32 (28%)
Query: 21 LPRLQESLKSNSALMRTTPQSIDPLL--RQTI 50
L +LQ SLK L S P L + T+
Sbjct: 22 LKKLQASLK----LY--ADDSA-PALAIKATM 46
>1ltl_A DNA replication initiator (CDC21/CDC54); HET: DNA; 3.00A
{Methanothermobacterthermautotrophicus} SCOP: b.40.4.11
Length = 279
Score = 30.8 bits (70), Expect = 0.19
Identities = 15/53 (28%), Positives = 23/53 (43%), Gaps = 2/53 (3%)
Query: 78 NKPSLVIDL--LDSVLPQLYAETAVKPQSIDPLLRQTIGDFLSALKDSDLNVR 128
N S+ +D L+ P L KP + +Q I + K+ DLN+R
Sbjct: 40 NVRSIEVDYLDLEMFDPDLADLLIEKPDDVIRAAQQAIRNIDRLRKNVDLNIR 92
>2vgl_B AP-2 complex subunit beta-1; cytoplasmic vesicle, alternative
splicing, endocytosis, lipid-binding, golgi apparatus,
adaptor, membrane, transport; HET: IHP; 2.59A {Homo
sapiens} SCOP: i.23.1.1 PDB: 2jkt_B 2jkr_B* 2xa7_B
1w63_B
Length = 591
Score = 30.9 bits (70), Expect = 0.24
Identities = 28/151 (18%), Positives = 48/151 (31%), Gaps = 1/151 (0%)
Query: 4 VVAECLGKLTLIDPSNLLPRLQESLKSNSALMRTTPQSIDPLLRQTIGDFLSALKDSDLN 63
VVA + L+ I S+ L + N + T + I D LS D
Sbjct: 176 VVANAVAALSEISESHPNSNLLDLNPQNINKLLTALNECTEWGQIFILDCLSNYNPKDDR 235
Query: 64 VRRVALVAFNSAAHNKPSLVIDLLDSVLPQLYAETAVKPQSIDPLLRQTIGDFLSALKDS 123
+ + S V+ VL + + LL++ + L L
Sbjct: 236 EAQSICERVTPRLSHANSAVVLSAVKVLMKFLELLPKDSDYYNMLLKK-LAPPLVTLLSG 294
Query: 124 DLNVRRVALVAFNSAAHNKPSLVIDLLDSVL 154
+ V+ VAL N +P ++ +
Sbjct: 295 EPEVQYVALRNINLIVQKRPEILKQEIKVFF 325
Score = 28.2 bits (63), Expect = 1.6
Identities = 22/115 (19%), Positives = 35/115 (30%), Gaps = 25/115 (21%)
Query: 45 LLRQTIGDFLSALKDSDLNVRRVALVAFNSAAHNKPSLVIDLLDSVLPQLYAETAVKPQS 104
+ LKD D VR+ A V +V D L L
Sbjct: 118 ITEYLCEPLRKCLKDEDPYVRKTAAVCVAKLHDINAQMVED--QGFLDSLR--------- 166
Query: 105 IDPLLRQTIGDFLSALKDSDLNVRRVALVAFNSAAHNKP-SLVIDLLDSVLPQLY 158
+ DS+ V A+ A + + + P S ++DL + +L
Sbjct: 167 -------------DLIADSNPMVVANAVAALSEISESHPNSNLLDLNPQNINKLL 208
>3ltj_A Alpharep-4; protein engineering, heat-like repeat, protein binding;
1.80A {Synthetic}
Length = 201
Score = 30.0 bits (68), Expect = 0.32
Identities = 37/150 (24%), Positives = 57/150 (38%), Gaps = 36/150 (24%)
Query: 2 RNVVAECLGKLTLIDPSNLLPRLQESLKSNSALMRTT----------PQSIDPLLRQTIG 51
R A LGK I + L ++LK A +R ++++PL++
Sbjct: 31 RRAAAYALGK---IGDERAVEPLIKALKDEDAWVRRAAADALGQIGDERAVEPLIK---- 83
Query: 52 DFLSALKDSDLNVRRVALVAF-NSAAHNKPSLVIDLLDSVLPQLYAETAV------KPQS 104
ALKD D VR+ A VA +I L + A ++
Sbjct: 84 ----ALKDEDGWVRQSAAVALGQIGDERAVEPLIKALKDEDWFVRIAAAFALGEIGDERA 139
Query: 105 IDPLLRQTIGDFLSALKDSDLNVRRVALVA 134
++PL++ ALKD D VR+ A A
Sbjct: 140 VEPLIK--------ALKDEDGWVRQSAADA 161
Score = 30.0 bits (68), Expect = 0.36
Identities = 23/143 (16%), Positives = 41/143 (28%), Gaps = 53/143 (37%)
Query: 2 RNVVAECLGKLTLIDPSNLLPRLQESLKSNSALMRT----------TPQSIDPLLRQTIG 51
R A LG+ I + L ++LK +R ++++PL++
Sbjct: 93 RQSAAVALGQ---IGDERAVEPLIKALKDEDWFVRIAAAFALGEIGDERAVEPLIK---- 145
Query: 52 DFLSALKDSDLNVRRVALVAFNSAAHNKPSLVIDLLDSVLPQLYAETAVKPQSIDPLLRQ 111
ALKD D VR+ A A + + +
Sbjct: 146 ----ALKDEDGWVRQSAADALGEIGG------------------------ERVRAAMEK- 176
Query: 112 TIGDFLSALKDSDLNVRRVALVA 134
+ R+VA+
Sbjct: 177 -------LAETGTGFARKVAVNY 192
Score = 28.4 bits (64), Expect = 1.00
Identities = 23/106 (21%), Positives = 39/106 (36%), Gaps = 29/106 (27%)
Query: 39 PQSIDPLLRQTIGDFLSALKDSDLNVRRVALVAFNSAAHNKPSLVIDLLDSVL----PQL 94
P+ ++ ++ L+D VRR A A ++ L L +
Sbjct: 13 PEKVEMYIK--------NLQDDSYYVRRAAAYAL---GKIGDERAVEPLIKALKDEDAWV 61
Query: 95 YAETAV------KPQSIDPLLRQTIGDFLSALKDSDLNVRRVALVA 134
A ++++PL++ ALKD D VR+ A VA
Sbjct: 62 RRAAADALGQIGDERAVEPLIK--------ALKDEDGWVRQSAAVA 99
>4fx5_A VON willebrand factor type A; structural genomics, PSI-biology,
midwest center for structu genomics, MCSG, blood
clotting; HET: MSE; 1.73A {Catenulispora acidiphila}
Length = 464
Score = 30.0 bits (67), Expect = 0.48
Identities = 7/43 (16%), Positives = 12/43 (27%), Gaps = 5/43 (11%)
Query: 35 MRTTPQSIDPLLRQTIGDFLSALKDSDLNVRRVALVAFNSAAH 77
M + ++ + L D A+VA A
Sbjct: 90 MDYPRTKMM-AAKEATKVAIDTLTDGA----FFAVVAGTEGAR 127
Score = 27.3 bits (60), Expect = 3.7
Identities = 6/34 (17%), Positives = 10/34 (29%), Gaps = 4/34 (11%)
Query: 107 PLLRQTIGDFLSALKDSDLNVRRVALVAFNSAAH 140
++ + L D A+VA A
Sbjct: 98 MAAKEATKVAIDTLTDGA----FFAVVAGTEGAR 127
>2qk2_A LP04448P; mini spindles, MSPS, XMAP215, DIS1, STU2, heat repeat,
micro plus END, +TIP, protein binding; 2.10A {Drosophila
melanogaster}
Length = 242
Score = 29.2 bits (65), Expect = 0.64
Identities = 23/159 (14%), Positives = 46/159 (28%), Gaps = 28/159 (17%)
Query: 5 VAECLGKLTLIDPSNLLPRLQESLKSNS-------------ALMRTTPQSIDPLLRQTIG 51
+ KL + L+ L++ + +S L + + +
Sbjct: 42 LLTDHPKLENGEYGALVSALKKVITKDSNVVLVAMAGKCLALLAKGLAKRFSNYASACVP 101
Query: 52 DFLSALKDSDLNVRRVALVAFNSAAHN-KPSLVIDLLDSVL----PQLYAETAV------ 100
L K+ NV A ++ + + + L P + +ETA+
Sbjct: 102 SLLEKFKEKKPNVVTALREAIDAIYASTSLEAQQESIVESLSNKNPSVKSETALFIARAL 161
Query: 101 ----KPQSIDPLLRQTIGDFLSALKDSDLNVRRVALVAF 135
LL+ + L + D VR + A
Sbjct: 162 TRTQPTALNKKLLKLLTTSLVKTLNEPDPTVRDSSAEAL 200
>1b3u_A Protein (protein phosphatase PP2A); scaffold protein,
phosphorylation, heat repeat; 2.30A {Homo sapiens} SCOP:
a.118.1.2 PDB: 2ie4_A* 2ie3_A* 2npp_A* 3k7v_A* 3k7w_A*
3fga_A* 2pf4_A 2iae_A 2nym_A* 2nyl_A* 3dw8_A* 2pkg_A
3c5w_A
Length = 588
Score = 29.2 bits (65), Expect = 0.94
Identities = 22/155 (14%), Positives = 44/155 (28%), Gaps = 25/155 (16%)
Query: 4 VVAECLGKLTLIDPSNLLPRLQESLKSNSALMRTTPQSIDPLLRQTIGD---------FL 54
+A LG LLP L +++ ++ + + G
Sbjct: 36 TIALALGVERTRS--ELLPFLTDTIYDEDEVLLALAEQLGTFTTLVGGPEYVHCLLPPLE 93
Query: 55 SALKDSDLNVRRVALVAFNS-AAHNKPSLVIDLLDSVLPQLYAET-------------AV 100
S + VR A+ + + + + PS + ++ +L
Sbjct: 94 SLATVEETVVRDKAVESLRAISHEHSPSDLEAHFVPLVKRLAGGDWFTSRTSACGLFSVC 153
Query: 101 KPQSIDPLLRQTIGDFLSALKDSDLNVRRVALVAF 135
P+ + + F + D VRR A
Sbjct: 154 YPRVSSAVKAELRQYFRNLCSDDTPMVRRAAASKL 188
Score = 28.8 bits (64), Expect = 1.2
Identities = 21/153 (13%), Positives = 39/153 (25%), Gaps = 39/153 (25%)
Query: 2 RNVVAECLGKLTLIDPSN-----LLPRLQESLKSNSALMRTT----------PQSIDPLL 46
R L KL ++P++ + L R T D
Sbjct: 458 REAATSNLKKLVEKFGKEWAHATIIPKVLAMSGDPNYLHRMTTLFCINVLSEVCGQDITT 517
Query: 47 RQTIGDFLSALKDSDLNVRRVALVAFNSAAHNKPSLVIDLLDSVLPQLYAETAVKPQSID 106
+ + L D NVR + + + +
Sbjct: 518 KHMLPTVLRMAGDPVANVRFNVAKSLQKIGP-----------------ILDNSTLQSEVK 560
Query: 107 PLLRQTIGDFLSALKDSDLNVRRVALVAFNSAA 139
P+L + +D D++V+ A A +
Sbjct: 561 PILEK-------LTQDQDVDVKYFAQEALTVLS 586
>1s2x_A CAG-Z; CAG pathogenicity island, type IV secretion system, unknown
function; 1.90A {Helicobacter pylori} SCOP: a.47.3.1
Length = 206
Score = 27.8 bits (61), Expect = 1.7
Identities = 31/144 (21%), Positives = 69/144 (47%), Gaps = 29/144 (20%)
Query: 25 QESLKSNSALMRTTPQSIDPLLRQTIG---------DFLSALKDSDLNVRRVALVAFNSA 75
Q+ L SNS+LMR + D ++ DFL +++ +N+++ ++F++
Sbjct: 18 QKILDSNSSLMRNANEVRDKFIQNYATSLKDSNDPQDFLRRVQELRINMQK-NFISFDAY 76
Query: 76 AHNKPSLVIDLLDSV-LPQLYAETAVKPQSIDPLLRQTIGDFLSALKDSDLNVRRVALVA 134
+ +LV+ + + +AE+ +K + T+G+F++ + D+
Sbjct: 77 YNYLNNLVLASYNRCKQEKTFAESTIKNE-------LTLGEFVAEISDN----------- 118
Query: 135 FNSAAHNKPSLVIDLLDSVLPQLY 158
FN+ ++ + + DL+ S LP+ Y
Sbjct: 119 FNNFTCDEVARISDLVASYLPREY 142
>3r9m_A BRO1 domain-containing protein BROX; protein binding; 1.95A {Homo
sapiens} PDB: 3um3_A 3zxp_A 3um2_A 3um1_A 3uly_A 3um0_A
Length = 376
Score = 27.8 bits (61), Expect = 2.0
Identities = 13/79 (16%), Positives = 27/79 (34%), Gaps = 3/79 (3%)
Query: 36 RTTPQSIDPLLRQTIGDFLSALKDSDLNVRRVALVAFNSAAHNKPSLVIDLLDSVLPQLY 95
T P S + + ++ +DL R L+ + P ++ + DS L
Sbjct: 14 ATAPVSFN--YYGVVTGPSASKICNDLRSSRARLLELFTDLSCNPEMMKNAADSYFSLLQ 71
Query: 96 A-ETAVKPQSIDPLLRQTI 113
++ + + LR
Sbjct: 72 GFINSLDESTQESKLRYIQ 90
>2of3_A ZYG-9; multifunctional macromolecule, kinetochore, microtubule,
XMAP215, STU2, DIS1, microtubule associated protein,
structural protein; 1.90A {Caenorhabditis elegans}
Length = 266
Score = 27.4 bits (60), Expect = 2.8
Identities = 17/106 (16%), Positives = 36/106 (33%), Gaps = 16/106 (15%)
Query: 2 RNVVAECLGKLTLI-DPSNLLPRLQESLKSNSALMRTTPQSIDPL-------------LR 47
R V + + L+ + P + P L ++LKS +A R + + +
Sbjct: 149 RTSVRDIVNVLSDVVGPLKMTPMLLDALKSKNA--RQRSECLLVIEYYITNAGISPLKSL 206
Query: 48 QTIGDFLSALKDSDLNVRRVALVAFNSAAHNKPSLVIDLLDSVLPQ 93
+ D D+NVR A+ + + + + +
Sbjct: 207 SVEKTVAPFVGDKDVNVRNAAINVLVACFKFEGDQMWKAAGRMADK 252
>3kta_A Chromosome segregation protein SMC; structural maintenance of
chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A,
transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB:
1xex_A* 1xew_X*
Length = 182
Score = 27.1 bits (61), Expect = 2.9
Identities = 5/44 (11%), Positives = 16/44 (36%), Gaps = 6/44 (13%)
Query: 133 VAFNSAAHNKP------SLVIDLLDSVLPQLYAETAVKKTLIRE 170
+ F + + P ++ + D P E +++ + +
Sbjct: 66 LIFAGSKNEPPAKYAEVAIYFNNEDRGFPIDEDEVVIRRRVYPD 109
>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC
repeat; 2.70A {Saccharomyces cerevisiae}
Length = 963
Score = 27.1 bits (59), Expect = 4.2
Identities = 19/89 (21%), Positives = 35/89 (39%), Gaps = 8/89 (8%)
Query: 53 FLSALKDSDLNVRRVALVAFNSAAHNKPSLVIDLL-------DSVLPQLYAETAVKPQSI 105
A+ DS+ +VRR A++A + V ++ ++ + A A+
Sbjct: 583 LHVAVSDSNDDVRRAAVIALGFVLLRDYTTVPRIVQLLSKSHNAHVRCGTAF-ALGIACA 641
Query: 106 DPLLRQTIGDFLSALKDSDLNVRRVALVA 134
L+ I KD VR+ A++A
Sbjct: 642 GKGLQSAIDVLDPLTKDPVDFVRQAAMIA 670
>3rj1_B Mediator of RNA polymerase II transcription subun; RNA polymeras
II, POL II, head module, head, regulator, helical
bundle; 4.30A {Saccharomyces cerevisiae}
Length = 583
Score = 27.2 bits (59), Expect = 4.4
Identities = 13/54 (24%), Positives = 25/54 (46%), Gaps = 2/54 (3%)
Query: 61 DLNVRRVALVAFNSAAHNKPSLVIDLLDSVLPQLYAETAVKPQSIDPLLRQTIG 114
RR ++ + A N+ SL ++ + S+L E+ S+ P LR+ +
Sbjct: 102 QFVKRRRDMLEHINLAMNESSLALEFV-SLLLSSVKESTGMS-SMSPFLRKVVK 153
>2vl6_A SSO MCM N-TER, minichromosome maintenance protein MCM; helicase,
hydrolase, zinc-finger, ATP-binding, DNA-BIND ssDNA
binding; 2.8A {Sulfolobus solfataricus}
Length = 268
Score = 26.5 bits (59), Expect = 5.3
Identities = 18/97 (18%), Positives = 34/97 (35%), Gaps = 3/97 (3%)
Query: 46 LRQTIGDFLSALKDSDLNVRRVALVAFNSAAHNKPSLVIDL--LDSVLPQLYAETAVKPQ 103
R +FL+ K ++ + + + A+ K SL+I+ + S L E +
Sbjct: 10 YRDVFIEFLTTFKGNNNQNKYIERINEL-VAYRKKSLIIEFSDVLSFNENLAYEIINNTK 68
Query: 104 SIDPLLRQTIGDFLSALKDSDLNVRRVALVAFNSAAH 140
I P+L + D + L + V
Sbjct: 69 IILPILEGALYDHILQLDPTYQRDIEKVHVRIVGIPR 105
>1qgr_A Protein (importin beta subunit); transport receptor, nuclear
import, heat motif, NLS-binding; 2.30A {Homo sapiens}
SCOP: a.118.1.1 PDB: 1qgk_A 2p8q_A 2q5d_A 3lww_A 1ukl_A
2qna_A
Length = 876
Score = 26.8 bits (58), Expect = 5.3
Identities = 28/170 (16%), Positives = 47/170 (27%), Gaps = 37/170 (21%)
Query: 3 NVVAECLGKLTLIDPSNLLPRLQESLKSNSALMR-------------TTPQSIDPLLRQT 49
++A C + ++LP ++E +K+ R P + PL+ Q
Sbjct: 353 MLLATCCEDDIV---PHVLPFIKEHIKNPDWRYRDAAVMAFGCILEGPEPSQLKPLVIQA 409
Query: 50 IGDFLSALKDSDLNVRRVALVAFNSAAHNKPSLVIDLLDSVLPQLYAETAVKPQSIDPLL 109
+ + +KD + VR A E + D L
Sbjct: 410 MPTLIELMKDPSVVVRDTAAWTVGR--------------------ICELLPEAAINDVYL 449
Query: 110 RQTIGDFLSALKDSDLNVRRVALVAFNSAAHNKPSLVIDLLDSVLPQLYA 159
+ + L V AF+S A D P Y
Sbjct: 450 APLLQCLIEGLSAEP-RVASNVCWAFSSLAEAAYEAADVADDQEEPATYC 498
>3tjz_B Coatomer subunit gamma; protein trafficking, golgi membrane,
protein transport-prote binding complex; HET: GNP; 2.90A
{Bos taurus}
Length = 355
Score = 26.6 bits (58), Expect = 5.4
Identities = 11/81 (13%), Positives = 21/81 (25%), Gaps = 8/81 (9%)
Query: 20 LLPRLQESLKSNSALMR--------TTPQSIDPLLRQTIGDFLSALKDSDLNVRRVALVA 71
L ++ L++ ++ P L + +R A+
Sbjct: 251 LFDFIESCLRNKHEMVVYEAASAIVNLPGCSAKELAPAVSVLQLFCSSPKAALRYAAVRT 310
Query: 72 FNSAAHNKPSLVIDLLDSVLP 92
N A PS V +
Sbjct: 311 LNKVAMKHPSAVTACNLDLEN 331
>1w63_A Adapter-related protein complex 1 gamma 1 subunit; endocytosis,
clathrin adaptor, transport, coated PITS; 4.0A {Mus
musculus} SCOP: i.23.1.1
Length = 618
Score = 26.4 bits (58), Expect = 6.5
Identities = 26/141 (18%), Positives = 49/141 (34%), Gaps = 2/141 (1%)
Query: 18 SNLLPRLQESLKSNSALMRTTPQSIDPLLRQTIGDFLSALKDSDLNVRRVALVAFNSAAH 77
L+ L+ + S + DP L+ I L L +D + A
Sbjct: 222 PQLVRILKNLIMSGYSPEHDVSGISDPFLQVRILRLLRILGRNDDDSSEAMNDILAQVAT 281
Query: 78 NKPSLVIDLLDSVLPQLYAETAVKPQSIDPLLRQTIGDFLSALKDSDLNVRRVALVAFNS 137
N + + +++L + T + +S L I L ++D N+R VAL +
Sbjct: 282 NTETSKN-VGNAILYET-VLTIMDIKSESGLRVLAINILGRFLLNNDKNIRYVALTSLLK 339
Query: 138 AAHNKPSLVIDLLDSVLPQLY 158
+ V +++ L
Sbjct: 340 TVQTDHNAVQRHRSTIVDCLK 360
>2k5j_A Uncharacterized protein YIIF; structure, NESG, structural genomics,
PSI-2, protein structure initiative; NMR {Shigella
flexneri 5 str}
Length = 80
Score = 24.9 bits (54), Expect = 7.5
Identities = 9/35 (25%), Positives = 17/35 (48%)
Query: 83 VIDLLDSVLPQLYAETAVKPQSIDPLLRQTIGDFL 117
++DL + V+ QL + LLR+ + +L
Sbjct: 13 LLDLSNEVIKQLDDLEVQRNLPRADLLREAVDQYL 47
>3izc_R 60S ribosomal protein RPL18 (L18E); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel
ribosomal proteins; NMR {Saccharomyces cerevisiae} PDB:
3izs_R 3o58_R 3o5h_R 3u5e_Q 3u5i_Q
Length = 186
Score = 25.4 bits (55), Expect = 9.8
Identities = 13/48 (27%), Positives = 21/48 (43%), Gaps = 3/48 (6%)
Query: 35 MRTTPQSIDPLLRQTIGD--FLSALKDSDLNVRRVALVAFNSAAHNKP 80
RT P+S + L+ + FL+ D+ N + V F S + P
Sbjct: 15 HRTAPKSDNVYLKLLVKLYTFLARRTDAPFN-KVVLKALFLSKINRPP 61
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
0.318 0.134 0.366
Gapped
Lambda K H
0.267 0.0561 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,613,424
Number of extensions: 145816
Number of successful extensions: 440
Number of sequences better than 10.0: 1
Number of HSP's gapped: 356
Number of HSP's successfully gapped: 80
Length of query: 185
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 97
Effective length of database: 4,244,745
Effective search space: 411740265
Effective search space used: 411740265
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 (21.7 bits)
S2: 54 (25.0 bits)