BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 046966
(299 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1XWN|A Chain A, Solution Structure Of Cyclophilin Like 1(Ppil1) And
Insights Into Its Interaction With Skip
Length = 174
Score = 114 bits (285), Expect = 7e-26, Method: Compositional matrix adjust.
Identities = 58/153 (37%), Positives = 85/153 (55%), Gaps = 2/153 (1%)
Query: 2 SVLIETSLGDIVIDLFVDKCPRTTNNFLQHCKNKYYNGCLFHNIHKDFIAQXXXXXXXXX 61
+V +ETS+G IV++L+ P+T NF + + YYNG FH I KDF+ Q
Sbjct: 13 NVYLETSMGIIVLELYWKHAPKTCKNFAELARRGYYNGTKFHRIIKDFMIQGGDPTGTGR 72
Query: 62 XXRSVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIFG 121
S+Y + F DE+ DLK G + MA+AG D N SQF++TL +LD KHTIFG
Sbjct: 73 GGASIYGKQ-FEDELHPDLKFTGAGILAMANAGPDTNGSQFFVTLAPT-QWLDGKHTIFG 130
Query: 122 EVAEGLETLTRINQAVVDEENRPPQQIIIKQTY 154
V +G+ + R+ + ++RP + I + Y
Sbjct: 131 RVCQGIGMVNRVGMVETNSQDRPVDDVKIIKAY 163
>pdb|2X7K|A Chain A, The Crystal Structure Of Ppil1 In Complex With
Cyclosporine A Suggests A Binding Mode For Skip
Length = 166
Score = 114 bits (284), Expect = 8e-26, Method: Compositional matrix adjust.
Identities = 58/153 (37%), Positives = 85/153 (55%), Gaps = 2/153 (1%)
Query: 2 SVLIETSLGDIVIDLFVDKCPRTTNNFLQHCKNKYYNGCLFHNIHKDFIAQXXXXXXXXX 61
+V +ETS+G IV++L+ P+T NF + + YYNG FH I KDF+ Q
Sbjct: 13 NVYLETSMGIIVLELYWKHAPKTCKNFAELARRGYYNGTKFHRIIKDFMIQGGDPTGTGR 72
Query: 62 XXRSVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIFG 121
S+Y + F DE+ DLK G + MA+AG D N SQF++TL +LD KHTIFG
Sbjct: 73 GGASIYGKQ-FEDELHPDLKFTGAGILAMANAGPDTNGSQFFVTLAPT-QWLDGKHTIFG 130
Query: 122 EVAEGLETLTRINQAVVDEENRPPQQIIIKQTY 154
V +G+ + R+ + ++RP + I + Y
Sbjct: 131 RVCQGIGMVNRVGMVETNSQDRPVDDVKIIKAY 163
>pdb|2K7N|A Chain A, Solution Structure Of The Ppil1 Bound To A Fragment Of
Skip
Length = 203
Score = 114 bits (284), Expect = 8e-26, Method: Compositional matrix adjust.
Identities = 58/153 (37%), Positives = 85/153 (55%), Gaps = 2/153 (1%)
Query: 2 SVLIETSLGDIVIDLFVDKCPRTTNNFLQHCKNKYYNGCLFHNIHKDFIAQXXXXXXXXX 61
+V +ETS+G IV++L+ P+T NF + + YYNG FH I KDF+ Q
Sbjct: 13 NVYLETSMGIIVLELYWKHAPKTCKNFAELARRGYYNGTKFHRIIKDFMIQGGDPTGTGR 72
Query: 62 XXRSVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIFG 121
S+Y + F DE+ DLK G + MA+AG D N SQF++TL +LD KHTIFG
Sbjct: 73 GGASIYGKQ-FEDELHPDLKFTGAGILAMANAGPDTNGSQFFVTLAPT-QWLDGKHTIFG 130
Query: 122 EVAEGLETLTRINQAVVDEENRPPQQIIIKQTY 154
V +G+ + R+ + ++RP + I + Y
Sbjct: 131 RVCQGIGMVNRVGMVETNSQDRPVDDVKIIKAY 163
>pdb|2A2N|A Chain A, Crystal Structure Of The Peptidylprolyl Isomerase Domain
Of Human Ppwd1
pdb|2A2N|B Chain B, Crystal Structure Of The Peptidylprolyl Isomerase Domain
Of Human Ppwd1
pdb|2A2N|C Chain C, Crystal Structure Of The Peptidylprolyl Isomerase Domain
Of Human Ppwd1
Length = 176
Score = 113 bits (283), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 58/144 (40%), Positives = 82/144 (56%), Gaps = 2/144 (1%)
Query: 2 SVLIETSLGDIVIDLFVDKCPRTTNNFLQHCKNKYYNGCLFHNIHKDFIAQXXXXXXXXX 61
S +I TS+GDI LF +CP+T NF H +N YYNG FH I K F+ Q
Sbjct: 23 SAIIHTSMGDIHTKLFPVECPKTVENFCVHSRNGYYNGHTFHRIIKGFMIQTGDPTGTGM 82
Query: 62 XXRSVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIFG 121
S++ F DE + L+HD+ T+ MA+AG + N SQF+IT+ +LD KHT+FG
Sbjct: 83 GGESIWGGE-FEDEFHSTLRHDRPYTLSMANAGSNTNGSQFFITVVPTP-WLDNKHTVFG 140
Query: 122 EVAEGLETLTRINQAVVDEENRPP 145
V +G+E + RI+ V+ + P
Sbjct: 141 RVTKGMEVVQRISNVKVNPKTDKP 164
>pdb|2OJU|A Chain A, X-Ray Structure Of Complex Of Human Cyclophilin J With
Cyclosporin A
pdb|2OJU|B Chain B, X-Ray Structure Of Complex Of Human Cyclophilin J With
Cyclosporin A
Length = 167
Score = 110 bits (276), Expect = 7e-25, Method: Compositional matrix adjust.
Identities = 63/160 (39%), Positives = 90/160 (56%), Gaps = 3/160 (1%)
Query: 1 MSVLIETSLGDIVIDLFVDKCPRTTNNFLQHCKNKYYNGCLFHNIHKDFIAQXXXXXXXX 60
MSV + T +GDI I++F ++ P+T NFL C + YYNGC+FH K F+ Q
Sbjct: 7 MSVTLHTDVGDIKIEVFCERTPKTCENFLALCASNYYNGCIFHRNIKGFMVQTGDPTGTG 66
Query: 61 XXXRSVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIF 120
S++ + F DE LKH+ G V MA+ G + N SQF+IT H LD K+T+F
Sbjct: 67 RGGNSIWGKK-FEDEYSEYLKHNVRGVVSMANNGPNTNGSQFFITYGKQPH-LDMKYTVF 124
Query: 121 GEVAEGLETLTRINQAVVDEEN-RPPQQIIIKQTYVLYPP 159
G+V +GLETL + + V+E+ RP + IK + P
Sbjct: 125 GKVIDGLETLDELEKLPVNEKTYRPLNDVHIKDITIHANP 164
>pdb|1XYH|A Chain A, Crystal Structure Of Recombinant Human Cyclophilin J
pdb|2OK3|A Chain A, X-Ray Structure Of Human Cyclophilin J At 2.0 Angstrom
Length = 161
Score = 110 bits (276), Expect = 8e-25, Method: Compositional matrix adjust.
Identities = 63/160 (39%), Positives = 90/160 (56%), Gaps = 3/160 (1%)
Query: 1 MSVLIETSLGDIVIDLFVDKCPRTTNNFLQHCKNKYYNGCLFHNIHKDFIAQXXXXXXXX 60
MSV + T +GDI I++F ++ P+T NFL C + YYNGC+FH K F+ Q
Sbjct: 1 MSVTLHTDVGDIKIEVFCERTPKTCENFLALCASNYYNGCIFHRNIKGFMVQTGDPTGTG 60
Query: 61 XXXRSVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIF 120
S++ + F DE LKH+ G V MA+ G + N SQF+IT H LD K+T+F
Sbjct: 61 RGGNSIWGKK-FEDEYSEYLKHNVRGVVSMANNGPNTNGSQFFITYGKQPH-LDMKYTVF 118
Query: 121 GEVAEGLETLTRINQAVVDEEN-RPPQQIIIKQTYVLYPP 159
G+V +GLETL + + V+E+ RP + IK + P
Sbjct: 119 GKVIDGLETLDELEKLPVNEKTYRPLNDVHIKDITIHANP 158
>pdb|1ZKC|A Chain A, Crystal Structure Of The Cyclophiln_ring Domain Of Human
Peptidylprolyl Isomerase (Cyclophilin)-Like 2 Isoform B
pdb|1ZKC|B Chain B, Crystal Structure Of The Cyclophiln_ring Domain Of Human
Peptidylprolyl Isomerase (Cyclophilin)-Like 2 Isoform B
Length = 197
Score = 105 bits (261), Expect = 4e-23, Method: Compositional matrix adjust.
Identities = 66/176 (37%), Positives = 97/176 (55%), Gaps = 5/176 (2%)
Query: 3 VLIETSLGDIVIDLFVDKCPRTTNNFLQHCKNKYYNGCLFHNIHKDFIAQXXXXXXXXXX 62
V + T+ GD+ ++L D P+T NF++ CK YY+G +FH ++F+ Q
Sbjct: 22 VRLHTNKGDLNLELHCDLTPKTCENFIRLCKKHYYDGTIFHRSIRNFVIQGGDPTGTGTG 81
Query: 63 XRSVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIFGE 122
S Y + F DE R +L H G + MA++G + N SQF+IT R + YLD+KHTIFG
Sbjct: 82 GES-YWGKPFKDEFRPNLSHTGRGILSMANSGPNSNRSQFFITFR-SCAYLDKKHTIFGR 139
Query: 123 VAEGLETLTRINQAVVD-EENRPPQQIIIKQTYVLYPP-ELADDSIPEGEPKDELE 176
V G + LT + D + +RP ++I I T V P E AD I + E K +L+
Sbjct: 140 VVGGFDVLTAMENVESDPKTDRPKEEIRIDATTVFVDPYEEADAQIAQ-ERKTQLK 194
>pdb|2FU0|A Chain A, Plasmodium Falciparum Cyclophilin Pfe0505w Putative
Cyclosporin- Binding Domain
Length = 160
Score = 98.2 bits (243), Expect = 5e-21, Method: Compositional matrix adjust.
Identities = 55/149 (36%), Positives = 80/149 (53%), Gaps = 2/149 (1%)
Query: 2 SVLIETSLGDIVIDLFVDKCPRTTNNFLQHCKNKYYNGCLFHNIHKDFIAQXXXXXXXXX 61
S +I T++GDI I LF +C +T NF H N YYN C+FH + K F+ Q
Sbjct: 7 SAIIYTTMGDIHISLFYKECKKTVQNFSVHSINGYYNNCIFHRVIKHFMVQTGDPSGDGT 66
Query: 62 XXRSVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIFG 121
S++ + F DE L H K V MA+ G + N SQF+IT +LD KHT+FG
Sbjct: 67 GGESIWGNE-FEDEFFDHLNHSKPFMVSMANCGPNTNGSQFFITTVP-CPWLDFKHTVFG 124
Query: 122 EVAEGLETLTRINQAVVDEENRPPQQIII 150
+V +G + + I + D+ ++P + I I
Sbjct: 125 KVTQGSKIVLDIEKVRTDKRDKPLEDIKI 153
>pdb|2POE|A Chain A, Crystal Structure Of Cryptosporidium Parvum Cyclophilin
Type Peptidyl-Prolyl Cis-Trans Isomerase Cgd2_1660
pdb|2QER|A Chain A, Crystal Structure Of Cryptosporidium Parvum Cyclophilin
Type Peptidyl- Prolyl Cis-Trans Isomerase Cgd2_1660 In
The Presence Of Dipeptide Ala-Pro
Length = 185
Score = 97.4 bits (241), Expect = 9e-21, Method: Compositional matrix adjust.
Identities = 60/169 (35%), Positives = 90/169 (53%), Gaps = 7/169 (4%)
Query: 2 SVLIETSLGDIVIDLFVDKCPRTTNNFLQHCKNKYYNGCLFHNIHKDFIAQXXXXXXXXX 61
V I T+ GD+ +LF +CP+ NFL + YY +FH K FI Q
Sbjct: 18 GVRIITNYGDLKFELFCSQCPKACKNFLALSASGYYKNTIFHKNIKGFIIQGGDPTGTGK 77
Query: 62 XXRSVYEDRFFVDEIRADLKHDKVGTVGMASAGR----DLNASQFYITLRDNLHYLDEKH 117
S+Y R+F DEI +LK+D+ G + MAS G + N SQF+IT +L L+ ++
Sbjct: 78 GGESIY-GRYFDDEIYPELKYDRRGILSMASKGASKKPNTNGSQFFITY-SSLPQLNGEY 135
Query: 118 TIFGEVAEGLETLTRINQAVVDEENRPPQQIIIKQTYVLYPPELADDSI 166
IFG++ +G ETL + D+ ++P +IIIK V++ +AD I
Sbjct: 136 VIFGKLIDGFETLNTLENCPSDKSHKPIDEIIIKDI-VIHSNPIADQEI 183
>pdb|2HQ6|A Chain A, Structure Of The Cyclophilin_cecyp16-like Domain Of The
Serologically Defined Colon Cancer Antigen 10 From Homo
Sapiens
Length = 185
Score = 94.0 bits (232), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 55/158 (34%), Positives = 85/158 (53%), Gaps = 3/158 (1%)
Query: 3 VLIETSLGDIVIDLFVDKCPRTTNNFLQHCKNKYYNGCLFHNIHKDFIAQXXXXXXXXXX 62
VL++T+ GDI I+L+ + P+ NF+Q C YY+ +FH + FI Q
Sbjct: 27 VLLKTTAGDIDIELWSKEAPKACRNFIQLCLEAYYDNTIFHRVVPGFIVQGGDPTGTGSG 86
Query: 63 XRSVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIFGE 122
S+Y F DE + L+ ++ G V MA+AG N SQF+ TL L+ KHTIFG+
Sbjct: 87 GESIYGAP-FKDEFHSRLRFNRRGLVAMANAGSHDNGSQFFFTL-GRADELNNKHTIFGK 144
Query: 123 V-AEGLETLTRINQAVVDEENRPPQQIIIKQTYVLYPP 159
V + + + R+++ +D++ RP IK VL+ P
Sbjct: 145 VTGDTVYNMLRLSEVDIDDDERPHNPHKIKSCEVLFNP 182
>pdb|2B71|A Chain A, Plasmodium Yoelii Cyclophilin-Like Protein
Length = 196
Score = 89.0 bits (219), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 47/142 (33%), Positives = 77/142 (54%), Gaps = 2/142 (1%)
Query: 3 VLIETSLGDIVIDLFVDKCPRTTNNFLQHCKNKYYNGCLFHNIHKDFIAQXXXXXXXXXX 62
+ I T+LGD ++L+ P+T NF C+ +Y+ +FH + +F+ Q
Sbjct: 41 ITIYTNLGDFEVELYWYHSPKTCLNFYTLCEMGFYDNTIFHRVIPNFVIQGGDPTGTGKG 100
Query: 63 XRSVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIFGE 122
+S+Y + +F DEI +LKH G + M++ G + N+SQF+ITL L +LD KHTIF
Sbjct: 101 GKSIYGE-YFEDEINKELKHTGAGILSMSNNGPNTNSSQFFITLAP-LPHLDGKHTIFAR 158
Query: 123 VAEGLETLTRINQAVVDEENRP 144
V++ + + I N+P
Sbjct: 159 VSKNMTCIENIASVQTTATNKP 180
>pdb|1H0P|A Chain A, Cyclophilin_5 From C. Elegans
Length = 182
Score = 88.6 bits (218), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 51/146 (34%), Positives = 77/146 (52%), Gaps = 7/146 (4%)
Query: 9 LGDIVIDLFVDKCPRTTNNFLQHCK---NKYYNGCLFHNIHKDFIAQXXXXXXX-XXXXR 64
+G IVI LF P+T NF++ K + Y G FH + DF+ Q R
Sbjct: 20 IGRIVIGLFGKTVPKTATNFIELAKKPKGEGYPGSKFHRVIADFMIQGGDFTRGDGTGGR 79
Query: 65 SVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIFGEVA 124
S+Y ++F + + LKH G + MA+AG D N SQF+IT +LD +H +FG++
Sbjct: 80 SIYGEKFADENFK--LKHYGAGWLSMANAGADTNGSQFFITTVKT-PWLDGRHVVFGKIL 136
Query: 125 EGLETLTRINQAVVDEENRPPQQIII 150
EG++ + +I Q +RP Q +II
Sbjct: 137 EGMDVVRKIEQTEKLPGDRPKQDVII 162
>pdb|3ICH|A Chain A, Crystal Structure Of Cyclophilin B At 1.2 A Resolution
pdb|3ICI|A Chain A, Crystal Structure Of Cyclophilin B In Complex With
Calmegin Fragment
pdb|3ICI|B Chain B, Crystal Structure Of Cyclophilin B In Complex With
Calmegin Fragment
Length = 188
Score = 86.3 bits (212), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 49/146 (33%), Positives = 76/146 (52%), Gaps = 7/146 (4%)
Query: 9 LGDIVIDLFVDKCPRTTNNFLQHC---KNKYYNGCLFHNIHKDFIAQXXX-XXXXXXXXR 64
+G ++ LF P+T +NF+ K Y FH + KDF+ Q +
Sbjct: 29 VGRVIFGLFGKTVPKTVDNFVALATGEKGFGYKNSKFHRVIKDFMIQGGDFTRGDGTGGK 88
Query: 65 SVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIFGEVA 124
S+Y +RF + + LKH G V MA+AG+D N SQF+IT +LD KH +FG+V
Sbjct: 89 SIYGERFPDENFK--LKHYGPGWVSMANAGKDTNGSQFFITTVKTA-WLDGKHVVFGKVL 145
Query: 125 EGLETLTRINQAVVDEENRPPQQIII 150
EG+E + ++ D ++P + +II
Sbjct: 146 EGMEVVRKVESTKTDSRDKPLKDVII 171
>pdb|1CYN|A Chain A, Cyclophilin B Complexed With
[d-(Cholinylester)ser8]-Cyclosporin
Length = 178
Score = 85.9 bits (211), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 49/146 (33%), Positives = 76/146 (52%), Gaps = 7/146 (4%)
Query: 9 LGDIVIDLFVDKCPRTTNNFLQHC---KNKYYNGCLFHNIHKDFIAQXXXXXXX-XXXXR 64
+G ++ LF P+T +NF+ K Y FH + KDF+ Q +
Sbjct: 19 VGRVIFGLFGKTVPKTVDNFVALATGEKGFGYKNSKFHRVIKDFMIQGGDFTRGDGTGGK 78
Query: 65 SVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIFGEVA 124
S+Y +RF + + LKH G V MA+AG+D N SQF+IT +LD KH +FG+V
Sbjct: 79 SIYGERFPDENFK--LKHYGPGWVSMANAGKDTNGSQFFITTVKTA-WLDGKHVVFGKVL 135
Query: 125 EGLETLTRINQAVVDEENRPPQQIII 150
EG+E + ++ D ++P + +II
Sbjct: 136 EGMEVVRKVESTKTDSRDKPLKDVII 161
>pdb|4FRU|A Chain A, Crystal Structure Of Horse Wild-Type Cyclophilin B
Length = 185
Score = 85.5 bits (210), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 50/146 (34%), Positives = 76/146 (52%), Gaps = 7/146 (4%)
Query: 9 LGDIVIDLFVDKCPRTTNNFLQHC---KNKYYNGCLFHNIHKDFIAQXXX-XXXXXXXXR 64
+G +VI LF P+T +NF+ K Y FH + KDF+ Q +
Sbjct: 26 IGRVVIGLFGKTVPKTVDNFVALATGEKGFGYKDSKFHRVIKDFMIQGGDFTRGDGTGGK 85
Query: 65 SVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIFGEVA 124
S+Y +RF + + LKH G V MA+AG+D N SQF+IT +LD KH +FG+V
Sbjct: 86 SIYGERFPDENFK--LKHYGPGWVSMANAGKDTNGSQFFITTV-KTAWLDGKHVVFGKVL 142
Query: 125 EGLETLTRINQAVVDEENRPPQQIII 150
EG+E + ++ D ++P + + I
Sbjct: 143 EGMEVVRKVETTKTDGRDKPLKDVTI 168
>pdb|4FRV|A Chain A, Crystal Structure Of Mutated Cyclophilin B That Causes
Hyperelastosis Cutis In The American Quarter Horse
Length = 185
Score = 85.5 bits (210), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 50/146 (34%), Positives = 76/146 (52%), Gaps = 7/146 (4%)
Query: 9 LGDIVIDLFVDKCPRTTNNFLQHC---KNKYYNGCLFHNIHKDFIAQXXX-XXXXXXXXR 64
+G +VI LF P+T +NF+ K Y FH + KDF+ Q +
Sbjct: 26 IGRVVIGLFGKTVPKTVDNFVALATGEKGFGYKDSKFHRVIKDFMIQGGDFTRGDGTGGK 85
Query: 65 SVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIFGEVA 124
S+Y +RF + + LKH G V MA+AG+D N SQF+IT +LD KH +FG+V
Sbjct: 86 SIYGERFPDENFK--LKHYGPGWVSMANAGKDTNGSQFFITTVKTA-WLDGKHVVFGKVL 142
Query: 125 EGLETLTRINQAVVDEENRPPQQIII 150
EG+E + ++ D ++P + + I
Sbjct: 143 EGMEVVRKVETTKTDGRDKPLKDVTI 168
>pdb|3K2C|A Chain A, Crystal Structure Of Peptidyl-Prolyl Cis-Trans Isomerase
From Encephalitozoon Cuniculi At 1.9 A Resolution
pdb|3K2C|B Chain B, Crystal Structure Of Peptidyl-Prolyl Cis-Trans Isomerase
From Encephalitozoon Cuniculi At 1.9 A Resolution
pdb|3K2C|C Chain C, Crystal Structure Of Peptidyl-Prolyl Cis-Trans Isomerase
From Encephalitozoon Cuniculi At 1.9 A Resolution
pdb|3K2C|D Chain D, Crystal Structure Of Peptidyl-Prolyl Cis-Trans Isomerase
From Encephalitozoon Cuniculi At 1.9 A Resolution
Length = 193
Score = 84.7 bits (208), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 54/132 (40%), Positives = 71/132 (53%), Gaps = 7/132 (5%)
Query: 6 ETSLGDIVIDLFVDKCPRTTNNFLQHC---KNKYYNGCLFHNIHKDFIAQXX-XXXXXXX 61
E SLG IV+ L D P+T NF C K + Y G FH I F+ Q
Sbjct: 38 EESLGRIVMKLEDDIVPKTAKNFRTLCERPKGEGYKGSTFHRIIPGFMVQGGDYTAHNGT 97
Query: 62 XXRSVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIFG 121
RS+Y ++F DE +LKH K G + MA+ G N SQF+ITL +LDEKH +FG
Sbjct: 98 GGRSIYGEKF-PDE-NFELKHTKEGILSMANCGAHTNGSQFFITL-GKTQWLDEKHVVFG 154
Query: 122 EVAEGLETLTRI 133
EV EG++ + +I
Sbjct: 155 EVVEGMDVVHKI 166
>pdb|2RMC|A Chain A, Crystal Structure Of Murine Cyclophilin C Complexed With
Immunosuppressive Drug Cyclosporin A
pdb|2RMC|C Chain C, Crystal Structure Of Murine Cyclophilin C Complexed With
Immunosuppressive Drug Cyclosporin A
pdb|2RMC|E Chain E, Crystal Structure Of Murine Cyclophilin C Complexed With
Immunosuppressive Drug Cyclosporin A
pdb|2RMC|G Chain G, Crystal Structure Of Murine Cyclophilin C Complexed With
Immunosuppressive Drug Cyclosporin A
Length = 182
Score = 83.6 bits (205), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 51/140 (36%), Positives = 72/140 (51%), Gaps = 7/140 (5%)
Query: 9 LGDIVIDLFVDKCPRTTNNFLQHC---KNKYYNGCLFHNIHKDFIAQXXXXXXX-XXXXR 64
+G IVI LF + P+T NF+ K Y G +FH + KDF+ Q
Sbjct: 21 VGRIVIGLFGNVVPKTVENFVALATGEKGYGYKGSIFHRVIKDFMIQGGDFTARDGTGGM 80
Query: 65 SVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIFGEVA 124
S+Y + F + + LKH +G V MA+AG D N SQF+ITL +LD KH +FG+V
Sbjct: 81 SIYGETFPDENFK--LKHYGIGWVSMANAGPDTNGSQFFITLTKPT-WLDGKHVVFGKVL 137
Query: 125 EGLETLTRINQAVVDEENRP 144
+G+ + I D +RP
Sbjct: 138 DGMTVVHSIELQATDGHDRP 157
>pdb|2GW2|A Chain A, Crystal Structure Of The Peptidyl-Prolyl Isomerase Domain
Of Human Cyclophilin G
Length = 198
Score = 83.6 bits (205), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 52/160 (32%), Positives = 73/160 (45%), Gaps = 13/160 (8%)
Query: 10 GDIVIDLFVDKCPRTTNNFLQHCKNK-----------YYNGCLFHNIHKDFIAQXXXXXX 58
G +V +LF D CP+T NF C + +Y CLFH + KDF+ Q
Sbjct: 41 GRVVFELFSDVCPKTCENFRCLCTGEKGTGKSTQKPLHYKSCLFHRVVKDFMVQGGDFSE 100
Query: 59 XXXXXRSVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHT 118
FF DE A +KH+ + MA+ G+D N SQF+IT + H LD H
Sbjct: 101 GNGRGGESIYGGFFEDESFA-VKHNAAFLLSMANRGKDTNGSQFFITTKPTPH-LDGHHV 158
Query: 119 IFGEVAEGLETLTRINQAVVDEENRPPQQIIIKQTYVLYP 158
+FG+V G E + I D ++P ++ I L P
Sbjct: 159 VFGQVISGQEVVREIENQKTDAASKPFAEVRILSCGELIP 198
>pdb|2WFJ|A Chain A, Atomic Resolution Crystal Structure Of The Ppiase Domain
Of Human Cyclophilin G In Complex With Cyclosporin A
Length = 179
Score = 83.2 bits (204), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 51/152 (33%), Positives = 72/152 (47%), Gaps = 13/152 (8%)
Query: 10 GDIVIDLFVDKCPRTTNNFLQHCKNK-----------YYNGCLFHNIHKDFIAQXXXXXX 58
G +V +LF D CP+T NF C + +Y CLFH + KDF+ Q
Sbjct: 24 GRVVFELFSDVCPKTCENFRCLCTGEKGTGKSTQKPLHYKSCLFHRVVKDFMVQGGDFSE 83
Query: 59 XXXXXRSVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHT 118
FF DE A +KH+K + MA+ G+D N SQF+IT + H LD H
Sbjct: 84 GNGRGGESIYGGFFEDESFA-VKHNKEFLLSMANRGKDTNGSQFFITTKPTPH-LDGHHV 141
Query: 119 IFGEVAEGLETLTRINQAVVDEENRPPQQIII 150
+FG+V G E + I D ++P ++ I
Sbjct: 142 VFGQVISGQEVVREIENQKTDAASKPFAEVRI 173
>pdb|3BKP|A Chain A, Crystal Structure Of The Toxoplasma Gondii Cyclophilin,
49.m03261
Length = 232
Score = 82.0 bits (201), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 61/192 (31%), Positives = 90/192 (46%), Gaps = 21/192 (10%)
Query: 3 VLIETSLGDIVIDLFVDKCPRTTNNFLQHCKNKYYNGCLFHNIHKDFIAQXX-XXXXXXX 61
V++ TSLGD+ ++L+ +CP NF+Q C YY +FH + KDFI Q
Sbjct: 24 VVLHTSLGDLDVELWARECPLACRNFVQLCLEGYYVNTIFHRVVKDFIVQGGDPTGTGRG 83
Query: 62 XXRSVYEDRFFVDEIRADLKHDKVGTVGMASAGRD--------------LNASQFYITLR 107
+ ++ + F E LK G VG+A+ GR N +QF+ITL
Sbjct: 84 GADTTFDGKPFDVETHPRLKFRYRGLVGVANLGRSSKDAENDERGRSLGTNGNQFFITL- 142
Query: 108 DNLHYLDEKHTIFGEV-AEGLETLTRINQAVVDEENRPPQQIIIKQTYVLYPP--ELADD 164
L+ +T+FG+V L L + N V +E+RP IK VL+ P +L
Sbjct: 143 ARADVLNNAYTLFGKVTGHTLYNLMKFNDLEVGKEDRPMTPPFIKSVDVLWNPFEDLVPR 202
Query: 165 SIPEGEP--KDE 174
+P+ P KDE
Sbjct: 203 RLPDAPPAQKDE 214
>pdb|2ESL|A Chain A, Human Cyclophilin C In Complex With Cyclosporin A
pdb|2ESL|B Chain B, Human Cyclophilin C In Complex With Cyclosporin A
pdb|2ESL|C Chain C, Human Cyclophilin C In Complex With Cyclosporin A
pdb|2ESL|D Chain D, Human Cyclophilin C In Complex With Cyclosporin A
pdb|2ESL|E Chain E, Human Cyclophilin C In Complex With Cyclosporin A
pdb|2ESL|F Chain F, Human Cyclophilin C In Complex With Cyclosporin A
Length = 190
Score = 81.3 bits (199), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 51/140 (36%), Positives = 70/140 (50%), Gaps = 7/140 (5%)
Query: 9 LGDIVIDLFVDKCPRTTNNFLQHC---KNKYYNGCLFHNIHKDFIAQXXXXXXXXXXXR- 64
+G IVI LF P+T NF+ K Y G FH + KDF+ Q
Sbjct: 29 VGRIVIGLFGKVVPKTVENFVALATGEKGYGYKGSKFHRVIKDFMIQGGDITTGDGTGGV 88
Query: 65 SVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIFGEVA 124
S+Y + F + + LKH +G V MA+AG D N SQF+ITL +LD KH +FG+V
Sbjct: 89 SIYGETFPDENFK--LKHYGIGWVSMANAGPDTNGSQFFITLTKPT-WLDGKHVVFGKVI 145
Query: 125 EGLETLTRINQAVVDEENRP 144
+G+ + I D +RP
Sbjct: 146 DGMTVVHSIELQATDGHDRP 165
>pdb|1IHG|A Chain A, Bovine Cyclophilin 40, Monoclinic Form
pdb|1IIP|A Chain A, Bovine Cyclophilin 40, Tetragonal Form
Length = 370
Score = 80.9 bits (198), Expect = 9e-16, Method: Compositional matrix adjust.
Identities = 54/180 (30%), Positives = 89/180 (49%), Gaps = 24/180 (13%)
Query: 9 LGDIVIDLFVDKCPRTTNNFLQHCKNK-----------YYNGCLFHNIHKDFIAQXXX-X 56
+G IV++LF D P+T NF C + ++ GC FH I K F+ Q
Sbjct: 29 VGRIVLELFADIVPKTAENFRALCTGEKGIGPTTGKPLHFKGCPFHRIIKKFMIQGGDFS 88
Query: 57 XXXXXXXRSVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEK 116
S+Y ++F ++ KHDK G + MA+AG + N SQF+IT H LD K
Sbjct: 89 NQNGTGGESIYGEKF--EDENFHYKHDKEGLLSMANAGSNTNGSQFFITTVPTPH-LDGK 145
Query: 117 HTIFGEVAEGLETLTRINQAVVDEENRPPQQIIIKQT--------YVLYPPELADDSIPE 168
H +FG+V +G+ + +I + V + +P + +I + + ++P + + DS P+
Sbjct: 146 HVVFGQVIKGM-GVAKILENVEVKGEKPAKLCVIAECGELKEGDDWGIFPKDGSGDSHPD 204
>pdb|1QOI|A Chain A, U4U6 SNRNP-Specific Cyclophilin Snucyp-20
pdb|1MZW|A Chain A, Crystal Structure Of A U4U6 SNRNP COMPLEX BETWEEN HUMAN
Spliceosomal Cyclophilin H And A U4U6-60k Peptide
Length = 177
Score = 80.5 bits (197), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 46/153 (30%), Positives = 72/153 (47%), Gaps = 12/153 (7%)
Query: 9 LGDIVIDLFVDKCPRTTNNFLQHCKNKY--------YNGCLFHNIHKDFIAQXXXXXXX- 59
+G + I+LF D P+T NF Q C ++ Y G FH + KDF+ Q
Sbjct: 24 VGRMKIELFADVVPKTAENFRQFCTGEFRKDGVPIGYKGSTFHRVIKDFMIQGGDFVNGD 83
Query: 60 XXXXRSVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTI 119
S+Y F + + L+H G + MA++G N QF+IT +LD KH +
Sbjct: 84 GTGVASIYRGPFADENFK--LRHSAPGLLSMANSGPSTNGCQFFITC-SKCDWLDGKHVV 140
Query: 120 FGEVAEGLETLTRINQAVVDEENRPPQQIIIKQ 152
FG++ +GL + +I N+P ++I Q
Sbjct: 141 FGKIIDGLLVMRKIENVPTGPNNKPKLPVVISQ 173
>pdb|1C5F|A Chain A, Crystal Structure Of The Cyclophilin-Like Domain From
Brugia Malayi Complexed With Cyclosporin A
pdb|1C5F|C Chain C, Crystal Structure Of The Cyclophilin-Like Domain From
Brugia Malayi Complexed With Cyclosporin A
pdb|1C5F|E Chain E, Crystal Structure Of The Cyclophilin-Like Domain From
Brugia Malayi Complexed With Cyclosporin A
pdb|1C5F|G Chain G, Crystal Structure Of The Cyclophilin-Like Domain From
Brugia Malayi Complexed With Cyclosporin A
pdb|1C5F|I Chain I, Crystal Structure Of The Cyclophilin-Like Domain From
Brugia Malayi Complexed With Cyclosporin A
pdb|1C5F|K Chain K, Crystal Structure Of The Cyclophilin-Like Domain From
Brugia Malayi Complexed With Cyclosporin A
pdb|1C5F|M Chain M, Crystal Structure Of The Cyclophilin-Like Domain From
Brugia Malayi Complexed With Cyclosporin A
pdb|1C5F|O Chain O, Crystal Structure Of The Cyclophilin-Like Domain From
Brugia Malayi Complexed With Cyclosporin A
pdb|1A33|A Chain A, Peptidylprolyl Isomerase, Cyclophilin-Like Domain From
Brugia Malayi
pdb|1A58|A Chain A, Cyclophilin From Brugia Malayi
Length = 177
Score = 80.1 bits (196), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 55/163 (33%), Positives = 81/163 (49%), Gaps = 16/163 (9%)
Query: 1 MSVLIETSL-GDIVIDLFVDKCPRTTNNFLQHC-----------KNKYYNGCLFHNIHKD 48
+ V I+ +L G IV++L+ D PRT NNFL C K +Y G FH + K+
Sbjct: 11 LDVTIDGNLAGRIVMELYNDIAPRTCNNFLMLCTGMAGTGKISGKPLHYKGSTFHRVIKN 70
Query: 49 FIAQXXXXXXX-XXXXRSVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLR 107
F+ Q S+Y F D+ +KHD+ V MA+ G + N SQF+IT
Sbjct: 71 FMIQGGDFTKGDGTGGESIYGGMF--DDEEFVMKHDEPFVVSMANKGPNTNGSQFFITTT 128
Query: 108 DNLHYLDEKHTIFGEVAEGLETLTRINQAVVDEENRPPQQIII 150
H L+ H +FG+V G E +T+I + +NRP ++I
Sbjct: 129 PAPH-LNNIHVVFGKVVSGQEVVTKIEYLKTNSKNRPLADVVI 170
>pdb|2WFI|A Chain A, Atomic Resolution Crystal Structure Of The Ppiase Domain
Of Human Cyclophilin G
Length = 179
Score = 78.6 bits (192), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 50/152 (32%), Positives = 71/152 (46%), Gaps = 13/152 (8%)
Query: 10 GDIVIDLFVDKCPRTTNNFLQHCKNK-----------YYNGCLFHNIHKDFIAQXXXXXX 58
G +V +LF D CP+T NF C + +Y LFH + KDF+ Q
Sbjct: 24 GRVVFELFSDVCPKTCENFRCLCTGEKGTGKSTQKPLHYKSXLFHRVVKDFMVQGGDFSE 83
Query: 59 XXXXXRSVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHT 118
FF DE A +KH+K + MA+ G+D N SQF+IT + H LD H
Sbjct: 84 GNGRGGESIYGGFFEDESFA-VKHNKEFLLSMANRGKDTNGSQFFITTKPTPH-LDGHHV 141
Query: 119 IFGEVAEGLETLTRINQAVVDEENRPPQQIII 150
+FG+V G E + I D ++P ++ I
Sbjct: 142 VFGQVISGQEVVREIENQKTDAASKPFAEVRI 173
>pdb|2HAQ|A Chain A, Crystal Structure Of Cyclophilin A From Leishmania
Donovani
pdb|3EOV|A Chain A, Crystal Structure Of Cyclophilin From Leishmania Donovani
Ligated With Cyclosporin A
pdb|3EOV|B Chain B, Crystal Structure Of Cyclophilin From Leishmania Donovani
Ligated With Cyclosporin A
Length = 172
Score = 78.6 bits (192), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 51/153 (33%), Positives = 84/153 (54%), Gaps = 9/153 (5%)
Query: 3 VLIETS-LGDIVIDLFVDKCPRTTNNFLQHCKNKY---YNGCLFHNIHKDFIAQXXXXXX 58
V+I++ LG I I LF P TT NF Q C ++ Y +FH + ++F+ Q
Sbjct: 18 VMIDSEPLGRITIGLFGKDAPLTTENFRQLCTGEHGFGYKDSIFHRVIQNFMIQGGDFTN 77
Query: 59 X-XXXXRSVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKH 117
+S+Y ++F DE ++KH VG + MA+AG + N SQF+IT +LD +H
Sbjct: 78 FDGTGGKSIYGEKF-ADE-NLNVKH-FVGALSMANAGPNTNGSQFFITTAPT-PWLDGRH 133
Query: 118 TIFGEVAEGLETLTRINQAVVDEENRPPQQIII 150
+FG+V +G++ + RI + + +RP + + I
Sbjct: 134 VVFGKVLDGMDVVLRIEKTKTNSHDRPVKPVKI 166
>pdb|1XO7|A Chain A, Crystal Structure Of Cyclophilin From Trypanosoma Cruzi
pdb|1XO7|B Chain B, Crystal Structure Of Cyclophilin From Trypanosoma Cruzi
pdb|1XO7|C Chain C, Crystal Structure Of Cyclophilin From Trypanosoma Cruzi
pdb|1XO7|D Chain D, Crystal Structure Of Cyclophilin From Trypanosoma Cruzi
pdb|1XQ7|A Chain A, Cyclophilin From Trypanosoma Cruzi Bound To Cyclosporin A
pdb|1XQ7|B Chain B, Cyclophilin From Trypanosoma Cruzi Bound To Cyclosporin A
pdb|1XQ7|C Chain C, Cyclophilin From Trypanosoma Cruzi Bound To Cyclosporin A
Length = 166
Score = 78.2 bits (191), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 48/152 (31%), Positives = 80/152 (52%), Gaps = 8/152 (5%)
Query: 9 LGDIVIDLFVDKCPRTTNNF--LQHCKNKY-YNGCLFHNIHKDFIAQXXXXXXX-XXXXR 64
+G +VI LF + P+T NF L +N + Y G +FH + ++F+ Q +
Sbjct: 19 VGRVVIGLFGNDVPKTVENFKQLASGENGFGYKGSIFHRVIRNFMIQGGDFTNFDGTGGK 78
Query: 65 SVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIFGEVA 124
S+Y RF D+ +KH VG V MA+AG + N SQF++T +LD +H +FG+V
Sbjct: 79 SIYGTRF--DDENLKIKH-FVGAVSMANAGPNSNGSQFFVTTAPT-PWLDGRHVVFGKVV 134
Query: 125 EGLETLTRINQAVVDEENRPPQQIIIKQTYVL 156
EG++ + ++ ++P + + I VL
Sbjct: 135 EGMDVVKKVENTKTGLNDKPKKAVKINDCGVL 166
>pdb|3BT8|A Chain A, Crystal Structure Of Mutant Cyclophilin (R147a) From
Leishmania Donovani
Length = 172
Score = 77.8 bits (190), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 51/153 (33%), Positives = 83/153 (54%), Gaps = 9/153 (5%)
Query: 3 VLIETS-LGDIVIDLFVDKCPRTTNNFLQHCKNKY---YNGCLFHNIHKDFIAQXXXXXX 58
V+I++ LG I I LF P TT NF Q C ++ Y +FH + ++F+ Q
Sbjct: 18 VMIDSEPLGRITIGLFGKDAPLTTENFRQLCTGEHGFGYKDSIFHRVIQNFMIQGGDFTN 77
Query: 59 X-XXXXRSVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKH 117
+S+Y ++F DE ++KH VG + MA+AG + N SQF+IT +LD H
Sbjct: 78 FDGTGGKSIYGEKF-ADE-NLNVKH-FVGALSMANAGPNTNGSQFFITTAPT-PWLDGAH 133
Query: 118 TIFGEVAEGLETLTRINQAVVDEENRPPQQIII 150
+FG+V +G++ + RI + + +RP + + I
Sbjct: 134 VVFGKVLDGMDVVLRIEKTKTNSHDRPVKPVKI 166
>pdb|2C3B|A Chain A, The Crystal Structure Of Aspergillus Fumigatus Cyclophilin
Reveals 3d Domain Swapping Of A Central Element
pdb|2C3B|B Chain B, The Crystal Structure Of Aspergillus Fumigatus Cyclophilin
Reveals 3d Domain Swapping Of A Central Element
Length = 172
Score = 77.8 bits (190), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 50/124 (40%), Positives = 66/124 (53%), Gaps = 7/124 (5%)
Query: 6 ETSLGDIVIDLFVDKCPRTTNNFLQHCK---NKYYNGCLFHNIHKDFIAQXX-XXXXXXX 61
ET +G IV +LF P+T NF + CK + Y FH I +F+ Q
Sbjct: 18 ETKVGRIVFNLFDKDVPKTAKNFRELCKRPAGEGYRESTFHRIIPNFMIQGGDFTRGNGT 77
Query: 62 XXRSVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIFG 121
RS+Y D+F DE KHDK G + MA+AG + N SQF+IT +LD KH +FG
Sbjct: 78 GGRSIYGDKF-ADE-NFSRKHDKKGILSMANAGPNTNGSQFFITTAVT-SWLDGKHVVFG 134
Query: 122 EVAE 125
EVA+
Sbjct: 135 EVAD 138
>pdb|1QNG|A Chain A, Plasmodium Falciparum Cyclophilin Complexed With
Cyclosporin A
Length = 170
Score = 77.0 bits (188), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 47/133 (35%), Positives = 67/133 (50%), Gaps = 11/133 (8%)
Query: 7 TSLGDIVIDLFVDKCPRTTNNFLQHC---------KNKYYNGCLFHNIHKDFIAQXXXXX 57
++ G I+ +LF D PRT NF C KN +Y +FH I F+ Q
Sbjct: 15 SNAGRIIFELFSDITPRTCENFRALCTGEKIGSRGKNLHYKNSIFHRIIPQFMCQGGDIT 74
Query: 58 XXXXXXRSVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKH 117
R F DE ++KHD+ G + MA+AG + N+SQF+ITL +LD KH
Sbjct: 75 NGNGSGGESIYGRSFTDE-NFNMKHDQPGLLSMANAGPNTNSSQFFITLVP-CPWLDGKH 132
Query: 118 TIFGEVAEGLETL 130
+FG+V EG+ +
Sbjct: 133 VVFGKVIEGMNVV 145
>pdb|1QNH|A Chain A, Plasmodium Falciparum Cyclophilin (Double Mutant)
Complexed With Cyclosporin A
pdb|1QNH|B Chain B, Plasmodium Falciparum Cyclophilin (Double Mutant)
Complexed With Cyclosporin A
Length = 170
Score = 75.9 bits (185), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 47/133 (35%), Positives = 66/133 (49%), Gaps = 11/133 (8%)
Query: 7 TSLGDIVIDLFVDKCPRTTNNFLQHC---------KNKYYNGCLFHNIHKDFIAQXXXXX 57
++ G I+ +LF D PRT NF C KN +Y +FH I F+ Q
Sbjct: 15 SNAGRIIFELFSDITPRTCENFRALCTGEKIGSRGKNLHYKNSIFHRIIPQFMCQGGDIT 74
Query: 58 XXXXXXRSVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKH 117
R F DE ++KHD+ G + MA+AG + N+SQF ITL +LD KH
Sbjct: 75 NGNGSGGESIYGRSFTDE-NFNMKHDQPGLLSMANAGPNTNSSQFLITLVP-CPWLDGKH 132
Query: 118 TIFGEVAEGLETL 130
+FG+V EG+ +
Sbjct: 133 VVFGKVIEGMNVV 145
>pdb|2HE9|A Chain A, Structure Of The Peptidylprolyl Isomerase Domain Of The
Human Nk-Tumour Recognition Protein
pdb|2HE9|B Chain B, Structure Of The Peptidylprolyl Isomerase Domain Of The
Human Nk-Tumour Recognition Protein
Length = 192
Score = 75.9 bits (185), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 51/159 (32%), Positives = 70/159 (44%), Gaps = 13/159 (8%)
Query: 9 LGDIVIDLFVDKCPRTTNNFLQHC-----------KNKYYNGCLFHNIHKDFIAQXXXXX 57
+G I+ LF D CP+T NFL C K Y G FH + K+F+ Q
Sbjct: 33 VGRIMFQLFSDICPKTCKNFLCLCSGEKGLGKTTGKKLCYKGSTFHRVVKNFMIQGGDFS 92
Query: 58 XXXXXXRSVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKH 117
+F DE LKHD+ + MA+ G+ N SQF+IT + H LD H
Sbjct: 93 EGNGKGGESIYGGYFKDE-NFILKHDRAFLLSMANRGKHTNGSQFFITTKPAPH-LDGVH 150
Query: 118 TIFGEVAEGLETLTRINQAVVDEENRPPQQIIIKQTYVL 156
+FG V G E + +I D +RP + + VL
Sbjct: 151 VVFGLVISGFEVIEQIENLKTDAASRPYADVRVIDCGVL 189
>pdb|2CFE|A Chain A, The 1.5 A Crystal Structure Of The Malassezia Sympodialis
Mala S 6 Allergen, A Member Of The Cyclophilin Pan-
Allergen Family
Length = 162
Score = 75.5 bits (184), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 54/151 (35%), Positives = 74/151 (49%), Gaps = 8/151 (5%)
Query: 9 LGDIVIDLFVDKCPRTTNNFLQHC---KNKYYNGCLFHNIHKDFIAQXX-XXXXXXXXXR 64
LG I LF D P+T NF C K Y G FH + DF+ Q +
Sbjct: 15 LGTIKFKLFDDVVPKTAANFRALCTGEKGFGYAGSHFHRVIPDFMLQGGDFTAGNGTGGK 74
Query: 65 SVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIFGEVA 124
S+Y +F DE LKH+K G + MA+AG + N SQF+IT +LD KH +FGEV
Sbjct: 75 SIYGAKF-ADE-NFQLKHNKPGLLSMANAGPNTNGSQFFITTVVT-SWLDGKHVVFGEVI 131
Query: 125 EGLETLTRINQAVVDEENRPPQQIIIKQTYV 155
+G+ + I +A +P +I I + V
Sbjct: 132 DGMNVVKAI-EAEGSGSGKPRSRIEIAKCGV 161
>pdb|1W74|A Chain A, X-Ray Structure Of Peptidyl-Prolyl Cis-Trans Isomerase A,
Ppia, Rv0009, From Mycobacterium Tuberculosis.
pdb|1W74|B Chain B, X-Ray Structure Of Peptidyl-Prolyl Cis-Trans Isomerase A,
Ppia, Rv0009, From Mycobacterium Tuberculosis
Length = 191
Score = 75.1 bits (183), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 50/171 (29%), Positives = 80/171 (46%), Gaps = 22/171 (12%)
Query: 2 SVLIETSLGDIVIDLFVDKCPRTTNNFLQHCKNK---------------YYNGCLFHNIH 46
+ + T+ GDI I LF + P+T NF+ + +Y+G +FH +
Sbjct: 25 TATLHTNRGDIKIALFGNHAPKTVANFVGLAQGTKDYSTQNASGGPSGPFYDGAVFHRVI 84
Query: 47 KDFIAQXXXXXXXXXXXRSVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITL 106
+ F+ Q Y+ F DE +L+ DK + MA+AG N SQF+IT+
Sbjct: 85 QGFMIQGGDPTGTGRG-GPGYK---FADEFHPELQFDKPYLLAMANAGPGTNGSQFFITV 140
Query: 107 RDNLHYLDEKHTIFGEV--AEGLETLTRINQAVVDEENRPPQQIIIKQTYV 155
H L+ +HTIFGEV AE + I++ D +RP ++I+ +
Sbjct: 141 GKTPH-LNRRHTIFGEVIDAESQRVVEAISKTATDGNDRPTDPVVIESITI 190
>pdb|2BIT|X Chain X, Crystal Structure Of Human Cyclophilin D At 1.7 A
Resolution
pdb|2BIU|X Chain X, Crystal Structure Of Human Cyclophilin D At 1.7 A
Resolution, Dmso Complex
Length = 165
Score = 74.7 bits (182), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 50/147 (34%), Positives = 77/147 (52%), Gaps = 10/147 (6%)
Query: 9 LGDIVIDLFVDKCPRTTNNFLQHC---KNKYYNGCLFHNIHKDFIAQXX-XXXXXXXXXR 64
LG +V++L D P+T NF C K Y G FH + F+ Q +
Sbjct: 17 LGRVVLELKADVVPKTAENFRALCTGEKGFGYKGSTFHRVIPSFMCQAGDFTNHNGTGGK 76
Query: 65 SVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYI-TLRDNLHYLDEKHTIFGEV 123
S+Y RF DE LKH G + MA+AG + N SQF+I T++ + +LD KH +FG V
Sbjct: 77 SIYGSRF-PDE-NFTLKHVGPGVLSMANAGPNTNGSQFFICTIKTD--WLDGKHVVFGHV 132
Query: 124 AEGLETLTRINQAVVDEENRPPQQIII 150
EG++ + +I ++ + R ++I+I
Sbjct: 133 IEGMDVVKKI-ESFGSKSGRTSKKIVI 158
>pdb|3R49|A Chain A, Human Cyclophilin D Complexed With Quinolin-8-Amine
pdb|3R4G|A Chain A, Human Cyclophilin D Complexed With A Fragment
pdb|3R54|A Chain A, Human Cyclophilin D Complexed With A Fragment
pdb|3R56|A Chain A, Human Cyclophilin D Complexed With A Fragment
pdb|3R57|A Chain A, Human Cyclophilin D Complexed With A Fragment
pdb|3R59|A Chain A, Human Cyclophilin D Complexed With A Fragment
pdb|3RCF|A Chain A, Human Cyclophilin D Complexed With N-[(4-Aminophenyl)
Sulfonyl]benzamide
pdb|3RCG|A Chain A, Human Cyclophilin D Complexed With Dimethylformamide
pdb|3RCI|X Chain X, Human Cyclophilin D Complexed With
5-Methyl-1,2-Oxazol-3-Amine
pdb|3RCK|X Chain X, Human Cyclophilin D Complexed With A Fragment
pdb|3RCL|A Chain A, Human Cyclophilin D Complexed With A Fragment
pdb|3RD9|X Chain X, Human Cyclophilin D Complexed With A Fragment
pdb|3RDA|X Chain X, Human Cyclophilin D Complexed With A Fragment
pdb|3RDB|A Chain A, Human Cyclophilin D Complexed With A Fragment
pdb|3RDC|A Chain A, Human Cyclophilin D Complexed With An Inhibitor
Length = 166
Score = 74.7 bits (182), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 50/147 (34%), Positives = 77/147 (52%), Gaps = 10/147 (6%)
Query: 9 LGDIVIDLFVDKCPRTTNNFLQHC---KNKYYNGCLFHNIHKDFIAQXX-XXXXXXXXXR 64
LG +V++L D P+T NF C K Y G FH + F+ Q +
Sbjct: 18 LGRVVLELKADVVPKTAENFRALCTGEKGFGYKGSTFHRVIPSFMCQAGDFTNHNGTGGK 77
Query: 65 SVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYI-TLRDNLHYLDEKHTIFGEV 123
S+Y RF DE LKH G + MA+AG + N SQF+I T++ + +LD KH +FG V
Sbjct: 78 SIYGSRF-PDE-NFTLKHVGPGVLSMANAGPNTNGSQFFICTIKTD--WLDGKHVVFGHV 133
Query: 124 AEGLETLTRINQAVVDEENRPPQQIII 150
EG++ + +I ++ + R ++I+I
Sbjct: 134 IEGMDVVKKI-ESFGSKSGRTSKKIVI 159
>pdb|3QYU|A Chain A, Crystal Structure Of Human Cyclophilin D At 1.54 A
Resolution At Room Temperature
Length = 164
Score = 74.7 bits (182), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 50/147 (34%), Positives = 77/147 (52%), Gaps = 10/147 (6%)
Query: 9 LGDIVIDLFVDKCPRTTNNFLQHC---KNKYYNGCLFHNIHKDFIAQXX-XXXXXXXXXR 64
LG +V++L D P+T NF C K Y G FH + F+ Q +
Sbjct: 16 LGRVVLELKADVVPKTAENFRALCTGEKGFGYKGSTFHRVIPSFMCQAGDFTNHNGTGGK 75
Query: 65 SVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYI-TLRDNLHYLDEKHTIFGEV 123
S+Y RF DE LKH G + MA+AG + N SQF+I T++ + +LD KH +FG V
Sbjct: 76 SIYGSRF-PDE-NFTLKHVGPGVLSMANAGPNTNGSQFFICTIKTD--WLDGKHVVFGHV 131
Query: 124 AEGLETLTRINQAVVDEENRPPQQIII 150
EG++ + +I ++ + R ++I+I
Sbjct: 132 IEGMDVVKKI-ESFGSKSGRTSKKIVI 157
>pdb|2Z6W|A Chain A, Crystal Structure Of Human Cyclophilin D In Complex With
Cyclosporin A
pdb|2Z6W|B Chain B, Crystal Structure Of Human Cyclophilin D In Complex With
Cyclosporin A
Length = 165
Score = 74.7 bits (182), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 50/147 (34%), Positives = 77/147 (52%), Gaps = 10/147 (6%)
Query: 9 LGDIVIDLFVDKCPRTTNNFLQHC---KNKYYNGCLFHNIHKDFIAQXX-XXXXXXXXXR 64
LG +V++L D P+T NF C K Y G FH + F+ Q +
Sbjct: 17 LGRVVLELKADVVPKTAENFRALCTGEKGFGYKGSTFHRVIPSFMCQAGDFTNHNGTGGK 76
Query: 65 SVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYI-TLRDNLHYLDEKHTIFGEV 123
S+Y RF DE LKH G + MA+AG + N SQF+I T++ + +LD KH +FG V
Sbjct: 77 SIYGSRF-PDE-NFTLKHVGPGVLSMANAGPNTNGSQFFICTIKTD--WLDGKHVVFGHV 132
Query: 124 AEGLETLTRINQAVVDEENRPPQQIII 150
EG++ + +I ++ + R ++I+I
Sbjct: 133 IEGMDVVKKI-ESFGSKSGRTSKKIVI 158
>pdb|2R99|A Chain A, Crystal Structure Of Cyclophilin Abh-Like Domain Of Human
Peptidylprolyl Isomerase E Isoform 1
Length = 173
Score = 74.7 bits (182), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 51/145 (35%), Positives = 74/145 (51%), Gaps = 8/145 (5%)
Query: 10 GDIVIDLFVDKCPRTTNNF---LQHCKNKYYNGCLFHNIHKDFIAQXXX-XXXXXXXXRS 65
G I + L D P T NF H K + G FH I F+ Q +S
Sbjct: 26 GRIQMLLRSDVVPMTAENFRCLCTHEKGFGFKGSSFHRIIPQFMCQGGDFTNHNGTGGKS 85
Query: 66 VYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIFGEVAE 125
+Y +F D+ LKH G + MA++G + N SQF++T D +LD KH +FGEV E
Sbjct: 86 IYGKKF--DDENFILKHTGPGLLSMANSGPNTNGSQFFLTC-DKTDWLDGKHVVFGEVTE 142
Query: 126 GLETLTRINQAVVDEENRPPQQIII 150
GL+ L +I +A ++ +P Q++II
Sbjct: 143 GLDVLRQI-EAQGSKDGKPKQKVII 166
>pdb|4I9Y|A Chain A, Structure Of The C-terminal Domain Of Nup358
pdb|4I9Y|B Chain B, Structure Of The C-terminal Domain Of Nup358
pdb|4I9Y|C Chain C, Structure Of The C-terminal Domain Of Nup358
pdb|4I9Y|D Chain D, Structure Of The C-terminal Domain Of Nup358
pdb|4I9Y|E Chain E, Structure Of The C-terminal Domain Of Nup358
pdb|4I9Y|F Chain F, Structure Of The C-terminal Domain Of Nup358
Length = 167
Score = 74.3 bits (181), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 46/129 (35%), Positives = 70/129 (54%), Gaps = 7/129 (5%)
Query: 9 LGDIVIDLFVDKCPRTTNNFLQHC---KNKYYNGCLFHNIHKDFIAQXXXXXXX-XXXXR 64
LG I ++LF + PRT NF C K + +FH + DF+ Q +
Sbjct: 20 LGRITMELFSNIVPRTAENFRALCTGEKGFGFKNSIFHRVIPDFVCQGGDITKHDGTGGQ 79
Query: 65 SVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIFGEVA 124
S+Y D+F ++ D+KH G + MA+ G++ N SQF ITL+ H LD KH +FG V
Sbjct: 80 SIYGDKF--EDENFDVKHTGPGLLSMANQGQNTNNSQFVITLKKAEH-LDFKHVVFGFVK 136
Query: 125 EGLETLTRI 133
+G++T+ +I
Sbjct: 137 DGMDTVKKI 145
>pdb|1ZMF|A Chain A, C Domain Of Human Cyclophilin-33(Hcyp33)
Length = 165
Score = 74.3 bits (181), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 51/145 (35%), Positives = 74/145 (51%), Gaps = 8/145 (5%)
Query: 10 GDIVIDLFVDKCPRTTNNF---LQHCKNKYYNGCLFHNIHKDFIAQXXX-XXXXXXXXRS 65
G I + L D P T NF H K + G FH I F+ Q +S
Sbjct: 18 GRIQMLLRSDVVPMTAENFRCLCTHEKGFGFKGSSFHRIIPQFMCQGGDFTNHNGTGGKS 77
Query: 66 VYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIFGEVAE 125
+Y +F D+ LKH G + MA++G + N SQF++T D +LD KH +FGEV E
Sbjct: 78 IYGKKF--DDENFILKHTGPGLLSMANSGPNTNGSQFFLTC-DKTDWLDGKHVVFGEVTE 134
Query: 126 GLETLTRINQAVVDEENRPPQQIII 150
GL+ L +I +A ++ +P Q++II
Sbjct: 135 GLDVLRQI-EAQGSKDGKPKQKVII 158
>pdb|1IST|A Chain A, Crystal Structure Of Yeast Cyclophilin A, Cpr1
pdb|1IST|B Chain B, Crystal Structure Of Yeast Cyclophilin A, Cpr1
pdb|1VDN|A Chain A, Crystal Structure Of Yeast Cyclophilin A Complexed With
Ace-Ala-Ala- Pro-Ala-7-Amino-4-Methylcoumarin
Length = 162
Score = 70.5 bits (171), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 42/129 (32%), Positives = 65/129 (50%), Gaps = 7/129 (5%)
Query: 9 LGDIVIDLFVDKCPRTTNNFLQHC---KNKYYNGCLFHNIHKDFIAQXX-XXXXXXXXXR 64
+G +V L+ D P+T NF C K Y G FH + DF+ Q +
Sbjct: 15 IGRVVFKLYNDIVPKTAENFRALCTGEKGFGYAGSPFHRVIPDFMLQGGDFTAGNGTGGK 74
Query: 65 SVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIFGEVA 124
S+Y +F + + HD+ G + MA+AG + N SQF+IT +LD KH +FGEV
Sbjct: 75 SIYGGKFPDENFKK--HHDRPGLLSMANAGPNTNGSQFFITTVP-CPWLDGKHVVFGEVV 131
Query: 125 EGLETLTRI 133
+G + + ++
Sbjct: 132 DGYDIVKKV 140
>pdb|3BO7|A Chain A, Crystal Structure Of Toxoplasma Gondii Peptidyl-Prolyl
Cis-Trans Isomerase, 541.M00136
pdb|3BO7|B Chain B, Crystal Structure Of Toxoplasma Gondii Peptidyl-Prolyl
Cis-Trans Isomerase, 541.M00136
pdb|3BO7|C Chain C, Crystal Structure Of Toxoplasma Gondii Peptidyl-Prolyl
Cis-Trans Isomerase, 541.M00136
pdb|3BO7|D Chain D, Crystal Structure Of Toxoplasma Gondii Peptidyl-Prolyl
Cis-Trans Isomerase, 541.M00136
Length = 201
Score = 69.7 bits (169), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 43/137 (31%), Positives = 66/137 (48%), Gaps = 12/137 (8%)
Query: 5 IETSLGDIVIDLFVDKCPRTTNNFLQHCKNKYYNGCLFHNIHKDFIAQXXXXXXXXXXXR 64
I T+ G + I+L D PR ++FL+ C KY++ +FH ++F+ Q +
Sbjct: 11 IVTTQGSLNIELHADMAPRACDSFLRLCAVKYFDDTIFHRCIRNFMIQGGRAELRQPSKK 70
Query: 65 SVYEDR-----------FFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYL 113
+ F DE L H +G + MA+ G+ N S+F+IT + H L
Sbjct: 71 KEVQQSPRSISGFPGGAPFEDEFDNRLVHQGIGVLSMANDGKHSNLSEFFITFKSCEH-L 129
Query: 114 DEKHTIFGEVAEGLETL 130
+ KHTIFG V GL+ L
Sbjct: 130 NNKHTIFGRVVGGLDVL 146
>pdb|3UCH|A Chain A, Crystal Structure Of A Hypotherical Peptidyl-Prolyl
Cis-Trans Isomerase E (Ppie) From Homo Sapiens At 2.50 A
Resolution
Length = 174
Score = 69.7 bits (169), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 50/145 (34%), Positives = 71/145 (48%), Gaps = 8/145 (5%)
Query: 10 GDIVIDLFVDKCPRTTNNF---LQHCKNKYYNGCLFHNIHKDFIAQXXX-XXXXXXXXRS 65
G I L D P T NF H K + G FH I F Q +S
Sbjct: 27 GRIQXLLRSDVVPXTAENFRCLCTHEKGFGFKGSSFHRIIPQFXCQGGDFTNHNGTGGKS 86
Query: 66 VYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIFGEVAE 125
+Y +F D+ LKH G + A++G + N SQF++T D +LD KH +FGEV E
Sbjct: 87 IYGKKF--DDENFILKHTGPGLLSXANSGPNTNGSQFFLTC-DKTDWLDGKHVVFGEVTE 143
Query: 126 GLETLTRINQAVVDEENRPPQQIII 150
GL+ L +I +A ++ +P Q++II
Sbjct: 144 GLDVLRQI-EAQGSKDGKPKQKVII 167
>pdb|2XGY|B Chain B, Complex Of Rabbit Endogenous Lentivirus (Relik)capsid With
Cyclophilin A
Length = 173
Score = 68.9 bits (167), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 43/123 (34%), Positives = 61/123 (49%), Gaps = 7/123 (5%)
Query: 9 LGDIVIDLFVDKCPRTTNNFLQHC---KNKYYNGCLFHNIHKDFIAQXX-XXXXXXXXXR 64
LG + +LF DK P+T NF K Y G FH I F+ Q +
Sbjct: 25 LGRVSFELFADKVPKTAENFRALSTGEKGFGYKGSCFHRIIPGFMCQGGDFTRHNGTGGK 84
Query: 65 SVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIFGEVA 124
S+Y ++F ++ LKH G + MA+AG + N SQF+I +LD KH +FG+V
Sbjct: 85 SIYGEKF--EDENFILKHTGPGILSMANAGPNTNGSQFFICTAKT-EWLDGKHVVFGKVK 141
Query: 125 EGL 127
EG+
Sbjct: 142 EGM 144
>pdb|3PMP|A Chain A, Crystal Structure Of Cyclophilin A From Moniliophthora
Perniciosa In Complex With Cyclosporin A
pdb|3PMP|B Chain B, Crystal Structure Of Cyclophilin A From Moniliophthora
Perniciosa In Complex With Cyclosporin A
Length = 164
Score = 68.6 bits (166), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 43/128 (33%), Positives = 67/128 (52%), Gaps = 7/128 (5%)
Query: 10 GDIVIDLFVDKCPRTTNNFLQHCKNKY---YNGCLFHNIHKDFIAQXX-XXXXXXXXXRS 65
G IV L+ + P+T NF + ++ Y +FH + F+ Q +S
Sbjct: 17 GRIVFKLYDEAVPKTAKNFRELATGQHGFGYKDSIFHRVIPQFMLQGGDFTRHNGTGGKS 76
Query: 66 VYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIFGEVAE 125
+Y ++F DE +KH K G + MA+AG + N SQF+IT +LD KH +FGEV E
Sbjct: 77 IYGEKF-ADE-NFQVKHTKPGLLSMANAGANTNGSQFFITTVPT-SWLDGKHVVFGEVIE 133
Query: 126 GLETLTRI 133
GL+ + ++
Sbjct: 134 GLDIVRKV 141
>pdb|3K0R|A Chain A, Cryogenic Structure Of Cypa Mutant Arg55lys
Length = 165
Score = 68.6 bits (166), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 43/123 (34%), Positives = 61/123 (49%), Gaps = 7/123 (5%)
Query: 9 LGDIVIDLFVDKCPRTTNNFLQHC---KNKYYNGCLFHNIHKDFIAQXX-XXXXXXXXXR 64
LG + +LF DK P+T NF K Y G FH I F+ Q +
Sbjct: 17 LGRVSFELFADKVPKTAENFRALSTGEKGFGYKGSCFHKIIPGFMCQGGDFTRHNGTGGK 76
Query: 65 SVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIFGEVA 124
S+Y ++F ++ LKH G + MA+AG + N SQF+I +LD KH +FG+V
Sbjct: 77 SIYGEKF--EDENFILKHTGPGILSMANAGPNTNGSQFFICTAKT-EWLDGKHVVFGKVK 133
Query: 125 EGL 127
EG+
Sbjct: 134 EGM 136
>pdb|4DGD|A Chain A, Trimcyp Cyclophilin Domain From Macaca Mulatta: H70c
Mutant
pdb|4DGE|A Chain A, Trimcyp Cyclophilin Domain From Macaca Mulatta: H70c
Mutant, Hiv-1 Ca(O-Loop) Complex
pdb|4DGE|B Chain B, Trimcyp Cyclophilin Domain From Macaca Mulatta: H70c
Mutant, Hiv-1 Ca(O-Loop) Complex
Length = 165
Score = 68.6 bits (166), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 43/123 (34%), Positives = 61/123 (49%), Gaps = 7/123 (5%)
Query: 9 LGDIVIDLFVDKCPRTTNNFLQHC---KNKYYNGCLFHNIHKDFIAQXXXXXX-XXXXXR 64
LG + +LF DK P+T NF K Y G FH I F+ Q +
Sbjct: 17 LGRVSFELFADKVPKTAENFRALSTGEKGFGYKGSCFHRIIPGFMCQGGNFTHCNGTGGK 76
Query: 65 SVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIFGEVA 124
S+Y ++F ++ LKH G + MA+AG + N SQF+I +LD KH +FG+V
Sbjct: 77 SIYGEKF--EDENFILKHTGPGILSMANAGPNTNGSQFFICTAKT-EWLDGKHVVFGKVK 133
Query: 125 EGL 127
EG+
Sbjct: 134 EGM 136
>pdb|2PLU|A Chain A, Crystal Structure Of Cryptosporidium Parvum Cyclophilin
Type Peptidyl-Prolyl Cis-Trans Isomerase Cgd2_4120
pdb|2POY|A Chain A, Cryptosporidium Parvum Cyclophilin Type Peptidyl-Prolyl
Cis-Trans Isomerase Cgd2_4120 In Complex With
Cyclosporin A
pdb|2POY|B Chain B, Cryptosporidium Parvum Cyclophilin Type Peptidyl-Prolyl
Cis-Trans Isomerase Cgd2_4120 In Complex With
Cyclosporin A
pdb|2POY|C Chain C, Cryptosporidium Parvum Cyclophilin Type Peptidyl-Prolyl
Cis-Trans Isomerase Cgd2_4120 In Complex With
Cyclosporin A
Length = 186
Score = 68.6 bits (166), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 50/161 (31%), Positives = 72/161 (44%), Gaps = 15/161 (9%)
Query: 6 ETSLGDIVIDLFVDKCPRTTNNFLQHCKNKY----------YNGCLFHNIHKDFIAQXXX 55
+T G I ++LF DK P T NF C + Y G FH I F+ Q
Sbjct: 30 QTPAGRITMELFADKVPITAENFRALCTGEKGMGQSGKPLCYTGSFFHRIIPQFMIQGGD 89
Query: 56 XXXX-XXXXRSVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLD 114
S+Y +F DE HD + MA+AG + N SQF+IT +LD
Sbjct: 90 FTRGDGTGGESIYGSKF-RDE-NFVYTHDAPFLLSMANAGPNTNGSQFFITTVP-CPWLD 146
Query: 115 EKHTIFGEVAEGLETLTRINQAVVDEENRPPQQIIIKQTYV 155
KH +FG+V EG+E + I + + +P + + I + V
Sbjct: 147 GKHVVFGKVLEGMEVVKSIEKC-GSQNGKPTKSVCITASGV 186
>pdb|2RMA|A Chain A, Crystal Structures Of Cyclophilin A Complexed With
Cyclosporin A And
N-Methyl-4-[(E)-2-Butenyl]-4,4-Dimethylthreonine
Cyclosporin A
pdb|2RMA|C Chain C, Crystal Structures Of Cyclophilin A Complexed With
Cyclosporin A And
N-Methyl-4-[(E)-2-Butenyl]-4,4-Dimethylthreonine
Cyclosporin A
pdb|2RMA|E Chain E, Crystal Structures Of Cyclophilin A Complexed With
Cyclosporin A And
N-Methyl-4-[(E)-2-Butenyl]-4,4-Dimethylthreonine
Cyclosporin A
pdb|2RMA|G Chain G, Crystal Structures Of Cyclophilin A Complexed With
Cyclosporin A And
N-Methyl-4-[(E)-2-Butenyl]-4,4-Dimethylthreonine
Cyclosporin A
pdb|2RMA|I Chain I, Crystal Structures Of Cyclophilin A Complexed With
Cyclosporin A And
N-Methyl-4-[(E)-2-Butenyl]-4,4-Dimethylthreonine
Cyclosporin A
pdb|2RMA|K Chain K, Crystal Structures Of Cyclophilin A Complexed With
Cyclosporin A And
N-Methyl-4-[(E)-2-Butenyl]-4,4-Dimethylthreonine
Cyclosporin A
pdb|2RMA|M Chain M, Crystal Structures Of Cyclophilin A Complexed With
Cyclosporin A And
N-Methyl-4-[(E)-2-Butenyl]-4,4-Dimethylthreonine
Cyclosporin A
pdb|2RMA|O Chain O, Crystal Structures Of Cyclophilin A Complexed With
Cyclosporin A And
N-Methyl-4-[(E)-2-Butenyl]-4,4-Dimethylthreonine
Cyclosporin A
pdb|2RMA|Q Chain Q, Crystal Structures Of Cyclophilin A Complexed With
Cyclosporin A And
N-Methyl-4-[(E)-2-Butenyl]-4,4-Dimethylthreonine
Cyclosporin A
pdb|2RMA|S Chain S, Crystal Structures Of Cyclophilin A Complexed With
Cyclosporin A And
N-Methyl-4-[(E)-2-Butenyl]-4,4-Dimethylthreonine
Cyclosporin A
pdb|2RMB|A Chain A, Crystal Structures Of Cyclophilin A Complexed With
Cyclosporin A And
N-Methyl-4-[(E)-2-Butenyl]-4,4-Dimethylthreonine
Cyclosporin A
pdb|2RMB|C Chain C, Crystal Structures Of Cyclophilin A Complexed With
Cyclosporin A And
N-Methyl-4-[(E)-2-Butenyl]-4,4-Dimethylthreonine
Cyclosporin A
pdb|2RMB|E Chain E, Crystal Structures Of Cyclophilin A Complexed With
Cyclosporin A And
N-Methyl-4-[(E)-2-Butenyl]-4,4-Dimethylthreonine
Cyclosporin A
pdb|2RMB|G Chain G, Crystal Structures Of Cyclophilin A Complexed With
Cyclosporin A And
N-Methyl-4-[(E)-2-Butenyl]-4,4-Dimethylthreonine
Cyclosporin A
pdb|2RMB|I Chain I, Crystal Structures Of Cyclophilin A Complexed With
Cyclosporin A And
N-Methyl-4-[(E)-2-Butenyl]-4,4-Dimethylthreonine
Cyclosporin A
pdb|2RMB|K Chain K, Crystal Structures Of Cyclophilin A Complexed With
Cyclosporin A And
N-Methyl-4-[(E)-2-Butenyl]-4,4-Dimethylthreonine
Cyclosporin A
pdb|2RMB|M Chain M, Crystal Structures Of Cyclophilin A Complexed With
Cyclosporin A And
N-Methyl-4-[(E)-2-Butenyl]-4,4-Dimethylthreonine
Cyclosporin A
pdb|2RMB|O Chain O, Crystal Structures Of Cyclophilin A Complexed With
Cyclosporin A And
N-Methyl-4-[(E)-2-Butenyl]-4,4-Dimethylthreonine
Cyclosporin A
pdb|2RMB|Q Chain Q, Crystal Structures Of Cyclophilin A Complexed With
Cyclosporin A And
N-Methyl-4-[(E)-2-Butenyl]-4,4-Dimethylthreonine
Cyclosporin A
pdb|2RMB|S Chain S, Crystal Structures Of Cyclophilin A Complexed With
Cyclosporin A And
N-Methyl-4-[(E)-2-Butenyl]-4,4-Dimethylthreonine
Cyclosporin A
pdb|1CWC|A Chain A, Improved Binding Affinity For Cyclophilin A By A
Cyclosporin Derivative Singly Modified At Its Effector
Domain
pdb|1CWB|A Chain A, The X-Ray Structure Of (Mebm2t)1-Cyclosporin Complexed
With Cyclophilin A Provides An Explanation For Its
Anomalously High Immunosuppressive Activity
pdb|1CWA|A Chain A, X-Ray Structure Of A Monomeric Cyclophilin A-Cyclosporin A
Crystal Complex At 2.1 Angstroms Resolution
pdb|1MIK|A Chain A, The Role Of Water Molecules In The Structure-Based Design
Of (5- Hydroxynorvaline)-2-Cyclosporin: Synthesis,
Biological Activity, And Crystallographic Analysis With
Cyclophilin A
pdb|1FGL|A Chain A, Cyclophilin A Complexed With A Fragment Of Hiv-1 Gag
Protein
pdb|1AK4|A Chain A, Human Cyclophilin A Bound To The Amino-Terminal Domain Of
Hiv-1 Capsid
pdb|1AK4|B Chain B, Human Cyclophilin A Bound To The Amino-Terminal Domain Of
Hiv-1 Capsid
pdb|1CWF|A Chain A, Human Cyclophilin A Complexed With 2-Val Cyclosporin
pdb|1CWH|A Chain A, Human Cyclophilin A Complexed With 3-D-Ser Cyclosporin
pdb|1CWK|A Chain A, Human Cyclophilin A Complexed With 1-(6,7-Dihydro)mebmt
2-Val 3-D-(2- S-Methyl)sarcosine Cyclosporin
pdb|1CWL|A Chain A, Human Cyclophilin A Complexed With 4 4-Hydroxy-Meleu
Cyclosporin
pdb|1CWM|A Chain A, Human Cyclophilin A Complexed With 4 Meile Cyclosporin
pdb|1CWI|A Chain A, Human Cyclophilin A Complexed With 2-Val
3-(N-Methyl)-D-Alanine Cyclosporin
pdb|1CWJ|A Chain A, Human Cyclophilin A Complexed With 2-Val
3-S-Methyl-Sarcosine Cyclosporin
pdb|1VBS|A Chain A, Structure Of Cyclophilin Complexed With (D)ala Containing
Tetrapeptide
pdb|1VBT|A Chain A, Structure Of Cyclophilin Complexed With Sulfur-Substituted
Tetrapeptide Aapf
pdb|1VBT|B Chain B, Structure Of Cyclophilin Complexed With Sulfur-Substituted
Tetrapeptide Aapf
pdb|1M63|C Chain C, Crystal Structure Of Calcineurin-Cyclophilin-Cyclosporin
Shows Common But Distinct Recognition Of
Immunophilin-Drug Complexes
pdb|1M63|G Chain G, Crystal Structure Of Calcineurin-Cyclophilin-Cyclosporin
Shows Common But Distinct Recognition Of
Immunophilin-Drug Complexes
pdb|1MF8|C Chain C, Crystal Structure Of Human Calcineurin Complexed With
Cyclosporin A And Human Cyclophilin
pdb|1NMK|A Chain A, The Sanglifehrin-Cyclophilin Interaction: Degradation
Work, Synthetic Macrocyclic Analogues, X-Ray Crystal
Structure And Binding Data
pdb|1NMK|B Chain B, The Sanglifehrin-Cyclophilin Interaction: Degradation
Work, Synthetic Macrocyclic Analogues, X-Ray Crystal
Structure And Binding Data
pdb|1M9C|A Chain A, X-Ray Crystal Structure Of Cyclophilin AHIV-1 Ca N-
Terminal Domain (1-146) M-Type Complex.
pdb|1M9C|B Chain B, X-Ray Crystal Structure Of Cyclophilin AHIV-1 Ca N-
Terminal Domain (1-146) M-Type Complex.
pdb|1M9D|A Chain A, X-Ray Crystal Structure Of Cyclophilin AHIV-1 Ca N-
Terminal Domain (1-146) O-Type Chimera Complex.
pdb|1M9D|B Chain B, X-Ray Crystal Structure Of Cyclophilin AHIV-1 Ca N-
Terminal Domain (1-146) O-Type Chimera Complex.
pdb|1M9F|A Chain A, X-Ray Crystal Structure Of Cyclophilin AHIV-1 Ca N-
Terminal Domain (1-146) M-Type H87a,A88m Complex.
pdb|1M9F|B Chain B, X-Ray Crystal Structure Of Cyclophilin AHIV-1 Ca N-
Terminal Domain (1-146) M-Type H87a,A88m Complex.
pdb|1M9X|A Chain A, X-Ray Crystal Structure Of Cyclophilin AHIV-1 Ca N-
Terminal Domain (1-146) M-Type H87a,A88m,G89a Complex.
pdb|1M9X|B Chain B, X-Ray Crystal Structure Of Cyclophilin AHIV-1 Ca N-
Terminal Domain (1-146) M-Type H87a,A88m,G89a Complex.
pdb|1M9X|E Chain E, X-Ray Crystal Structure Of Cyclophilin AHIV-1 Ca N-
Terminal Domain (1-146) M-Type H87a,A88m,G89a Complex.
pdb|1M9X|F Chain F, X-Ray Crystal Structure Of Cyclophilin AHIV-1 Ca N-
Terminal Domain (1-146) M-Type H87a,A88m,G89a Complex.
pdb|1M9Y|A Chain A, X-Ray Crystal Structure Of Cyclophilin AHIV-1 Ca N-
Terminal Domain (1-146) M-Type H87a,G89a Complex.
pdb|1M9Y|B Chain B, X-Ray Crystal Structure Of Cyclophilin AHIV-1 Ca N-
Terminal Domain (1-146) M-Type H87a,G89a Complex.
pdb|1M9Y|E Chain E, X-Ray Crystal Structure Of Cyclophilin AHIV-1 Ca N-
Terminal Domain (1-146) M-Type H87a,G89a Complex.
pdb|1M9Y|F Chain F, X-Ray Crystal Structure Of Cyclophilin AHIV-1 Ca N-
Terminal Domain (1-146) M-Type H87a,G89a Complex.
pdb|1W8L|A Chain A, Enzymatic And Structural Characterization Of Non Peptide
Ligand Cyclophilin Complexes
pdb|1W8M|A Chain A, Enzymatic And Structural Characterisation Of Non Peptide
Ligand Cyclophilin Complexes
pdb|1W8V|A Chain A, Enzymatic And Structural Characterization Of Non Peptide
Ligand Cyclophilin Complexes
pdb|1YND|A Chain A, Structure Of Human Cyclophilin A In Complex With The Novel
Immunosuppressant Sanglifehrin A At 1.6a Resolution
pdb|1YND|B Chain B, Structure Of Human Cyclophilin A In Complex With The Novel
Immunosuppressant Sanglifehrin A At 1.6a Resolution
pdb|1ZKF|A Chain A, Cyrstal Structure Of Human Cyclophilin-A In Complex With
Suc-Agpf-Pna
pdb|1ZKF|B Chain B, Cyrstal Structure Of Human Cyclophilin-A In Complex With
Suc-Agpf-Pna
pdb|1OCA|A Chain A, Human Cyclophilin A, Unligated, Nmr, 20 Structures
pdb|2CPL|A Chain A, Similarities And Differences Between Human Cyclophilin A
And Other Beta-Barrel Structures. Structural Refinement
At 1.63 Angstroms Resolution
pdb|3CYS|A Chain A, Determination Of The Nmr Solution Structure Of The
Cyclophilin A- Cyclosporin A Complex
pdb|3K0M|A Chain A, Cryogenic Structure Of Cypa
pdb|3K0N|A Chain A, Room Temperature Structure Of Cypa
pdb|3ODI|A Chain A, Crystal Structure Of Cyclophilin A In Complex With
Voclosporin E- Isa247
pdb|3ODI|C Chain C, Crystal Structure Of Cyclophilin A In Complex With
Voclosporin E- Isa247
pdb|3ODI|E Chain E, Crystal Structure Of Cyclophilin A In Complex With
Voclosporin E- Isa247
pdb|3ODI|G Chain G, Crystal Structure Of Cyclophilin A In Complex With
Voclosporin E- Isa247
pdb|3ODI|I Chain I, Crystal Structure Of Cyclophilin A In Complex With
Voclosporin E- Isa247
pdb|3ODI|K Chain K, Crystal Structure Of Cyclophilin A In Complex With
Voclosporin E- Isa247
pdb|3ODI|M Chain M, Crystal Structure Of Cyclophilin A In Complex With
Voclosporin E- Isa247
pdb|3ODI|O Chain O, Crystal Structure Of Cyclophilin A In Complex With
Voclosporin E- Isa247
pdb|3ODI|Q Chain Q, Crystal Structure Of Cyclophilin A In Complex With
Voclosporin E- Isa247
pdb|3ODI|S Chain S, Crystal Structure Of Cyclophilin A In Complex With
Voclosporin E- Isa247
pdb|3ODL|A Chain A, Crystal Structure Of Cyclophilin A In Complex With
Voclosporin Z- Isa247
pdb|3ODL|C Chain C, Crystal Structure Of Cyclophilin A In Complex With
Voclosporin Z- Isa247
pdb|3ODL|E Chain E, Crystal Structure Of Cyclophilin A In Complex With
Voclosporin Z- Isa247
pdb|3ODL|G Chain G, Crystal Structure Of Cyclophilin A In Complex With
Voclosporin Z- Isa247
pdb|3ODL|I Chain I, Crystal Structure Of Cyclophilin A In Complex With
Voclosporin Z- Isa247
pdb|3ODL|K Chain K, Crystal Structure Of Cyclophilin A In Complex With
Voclosporin Z- Isa247
pdb|3ODL|M Chain M, Crystal Structure Of Cyclophilin A In Complex With
Voclosporin Z- Isa247
pdb|3ODL|O Chain O, Crystal Structure Of Cyclophilin A In Complex With
Voclosporin Z- Isa247
pdb|3ODL|Q Chain Q, Crystal Structure Of Cyclophilin A In Complex With
Voclosporin Z- Isa247
pdb|3ODL|S Chain S, Crystal Structure Of Cyclophilin A In Complex With
Voclosporin Z- Isa247
Length = 165
Score = 68.6 bits (166), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 43/123 (34%), Positives = 61/123 (49%), Gaps = 7/123 (5%)
Query: 9 LGDIVIDLFVDKCPRTTNNFLQHC---KNKYYNGCLFHNIHKDFIAQXX-XXXXXXXXXR 64
LG + +LF DK P+T NF K Y G FH I F+ Q +
Sbjct: 17 LGRVSFELFADKVPKTAENFRALSTGEKGFGYKGSCFHRIIPGFMCQGGDFTRHNGTGGK 76
Query: 65 SVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIFGEVA 124
S+Y ++F ++ LKH G + MA+AG + N SQF+I +LD KH +FG+V
Sbjct: 77 SIYGEKF--EDENFILKHTGPGILSMANAGPNTNGSQFFICTAKT-EWLDGKHVVFGKVK 133
Query: 125 EGL 127
EG+
Sbjct: 134 EGM 136
>pdb|2WLW|A Chain A, Structure Of The N-Terminal Capsid Domain Of Hiv-2
pdb|4DGA|A Chain A, Trimcyp Cyclophilin Domain From Macaca Mulatta: Hiv-1
Ca(O-Loop) Complex
pdb|4DGA|B Chain B, Trimcyp Cyclophilin Domain From Macaca Mulatta: Hiv-1
Ca(O-Loop) Complex
pdb|4DGB|A Chain A, Trimcyp Cyclophilin Domain From Macaca Mulatta: Hiv-2 Ca
Cyclophilin- Binding Loop Complex
pdb|4DGC|A Chain A, Trimcyp Cyclophilin Domain From Macaca Mulatta:
Cyclosporin A Complex
pdb|4DGC|B Chain B, Trimcyp Cyclophilin Domain From Macaca Mulatta:
Cyclosporin A Complex
pdb|4DGC|C Chain C, Trimcyp Cyclophilin Domain From Macaca Mulatta:
Cyclosporin A Complex
pdb|4DGC|D Chain D, Trimcyp Cyclophilin Domain From Macaca Mulatta:
Cyclosporin A Complex
pdb|4DGC|E Chain E, Trimcyp Cyclophilin Domain From Macaca Mulatta:
Cyclosporin A Complex
Length = 165
Score = 68.2 bits (165), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 43/123 (34%), Positives = 61/123 (49%), Gaps = 7/123 (5%)
Query: 9 LGDIVIDLFVDKCPRTTNNFLQHC---KNKYYNGCLFHNIHKDFIAQXXX-XXXXXXXXR 64
LG + +LF DK P+T NF K Y G FH I F+ Q +
Sbjct: 17 LGRVSFELFADKVPKTAENFRALSTGEKGFGYKGSCFHRIIPGFMCQGGNFTHHNGTGGK 76
Query: 65 SVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIFGEVA 124
S+Y ++F ++ LKH G + MA+AG + N SQF+I +LD KH +FG+V
Sbjct: 77 SIYGEKF--EDENFILKHTGPGILSMANAGPNTNGSQFFICTAKT-EWLDGKHVVFGKVK 133
Query: 125 EGL 127
EG+
Sbjct: 134 EGM 136
>pdb|3O7T|A Chain A, Crystal Structure Of Cyclophilin A From Moniliophthora
Perniciosa
Length = 164
Score = 68.2 bits (165), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 43/128 (33%), Positives = 67/128 (52%), Gaps = 7/128 (5%)
Query: 10 GDIVIDLFVDKCPRTTNNFLQHCKNKY---YNGCLFHNIHKDFIAQXX-XXXXXXXXXRS 65
G IV L+ + P+T NF + ++ Y +FH + F+ Q +S
Sbjct: 18 GRIVFKLYDEAVPKTAKNFRELATGQHGFGYKDSIFHRVIPQFMLQGGDFTRHNGTGGKS 77
Query: 66 VYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIFGEVAE 125
+Y ++F DE +KH K G + MA+AG + N SQF+IT +LD KH +FGEV E
Sbjct: 78 IYGEKF-ADE-NFQVKHTKPGLLSMANAGANTNGSQFFITTVPT-SWLDGKHVVFGEVIE 134
Query: 126 GLETLTRI 133
GL+ + ++
Sbjct: 135 GLDIVRKV 142
>pdb|1BCK|A Chain A, Human Cyclophilin A Complexed With 2-Thr Cyclosporin
pdb|1CWO|A Chain A, Human Cyclophilin A Complexed With Thr2, Leu5, D-Hiv8,
Leu10 Cyclosporin
Length = 165
Score = 68.2 bits (165), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 43/123 (34%), Positives = 61/123 (49%), Gaps = 7/123 (5%)
Query: 9 LGDIVIDLFVDKCPRTTNNFLQHC---KNKYYNGCLFHNIHKDFIAQXX-XXXXXXXXXR 64
LG + +LF DK P+T NF K Y G FH I F+ Q +
Sbjct: 17 LGRVSFELFADKVPKTAENFRALSTGEKGFGYKGSCFHRIIPGFMCQGGDFTRHNGTGGK 76
Query: 65 SVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIFGEVA 124
S+Y ++F ++ LKH G + MA+AG + N SQF+I +LD KH +FG+V
Sbjct: 77 SIYGEKF--EDENFILKHTGPGILSMANAGPNTNGSQFFICTAKT-EWLDGKHVVFGKVK 133
Query: 125 EGL 127
EG+
Sbjct: 134 EGM 136
>pdb|5CYH|A Chain A, Cyclophilin A Complexed With Dipeptide Gly-Pro
pdb|4CYH|A Chain A, Cyclophilin A Complexed With Dipeptide His-Pro
pdb|3CYH|A Chain A, Cyclophilin A Complexed With Dipeptide Ser-Pro
pdb|2CYH|A Chain A, Cyclophilin A Complexed With Dipeptide Ala-Pro
pdb|1RMH|A Chain A, Recombinant Cyclophilin A From Human T Cell
pdb|1RMH|B Chain B, Recombinant Cyclophilin A From Human T Cell
pdb|1AWQ|A Chain A, Cypa Complexed With Hagpia (Pseudo-Symmetric Monomer)
pdb|1AWR|A Chain A, Cypa Complexed With Hagpia
pdb|1AWR|B Chain B, Cypa Complexed With Hagpia
pdb|1AWR|C Chain C, Cypa Complexed With Hagpia
pdb|1AWR|D Chain D, Cypa Complexed With Hagpia
pdb|1AWR|E Chain E, Cypa Complexed With Hagpia
pdb|1AWR|F Chain F, Cypa Complexed With Hagpia
pdb|1AWU|A Chain A, Cypa Complexed With Hvgpia (Pseudo-Symmetric Monomer)
pdb|1AWV|A Chain A, Cypa Complexed With Hvgpia
pdb|1AWV|B Chain B, Cypa Complexed With Hvgpia
pdb|1AWV|C Chain C, Cypa Complexed With Hvgpia
pdb|1AWV|D Chain D, Cypa Complexed With Hvgpia
pdb|1AWV|E Chain E, Cypa Complexed With Hvgpia
pdb|1AWV|F Chain F, Cypa Complexed With Hvgpia
Length = 164
Score = 68.2 bits (165), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 43/123 (34%), Positives = 61/123 (49%), Gaps = 7/123 (5%)
Query: 9 LGDIVIDLFVDKCPRTTNNFLQHC---KNKYYNGCLFHNIHKDFIAQXX-XXXXXXXXXR 64
LG + +LF DK P+T NF K Y G FH I F+ Q +
Sbjct: 16 LGRVSFELFADKVPKTAENFRALSTGEKGFGYKGSCFHRIIPGFMCQGGDFTRHNGTGGK 75
Query: 65 SVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIFGEVA 124
S+Y ++F ++ LKH G + MA+AG + N SQF+I +LD KH +FG+V
Sbjct: 76 SIYGEKF--EDENFILKHTGPGILSMANAGPNTNGSQFFICTAKT-EWLDGKHVVFGKVK 132
Query: 125 EGL 127
EG+
Sbjct: 133 EGM 135
>pdb|1M9E|A Chain A, X-Ray Crystal Structure Of Cyclophilin AHIV-1 Ca N-
Terminal Domain (1-146) M-Type H87a Complex.
pdb|1M9E|B Chain B, X-Ray Crystal Structure Of Cyclophilin AHIV-1 Ca N-
Terminal Domain (1-146) M-Type H87a Complex
Length = 164
Score = 68.2 bits (165), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 43/123 (34%), Positives = 61/123 (49%), Gaps = 7/123 (5%)
Query: 9 LGDIVIDLFVDKCPRTTNNFLQHC---KNKYYNGCLFHNIHKDFIAQXX-XXXXXXXXXR 64
LG + +LF DK P+T NF K Y G FH I F+ Q +
Sbjct: 17 LGRVSFELFADKVPKTAENFRALSTGEKGFGYKGSCFHRIIPGFMCQGGDFTRHNGTGGK 76
Query: 65 SVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIFGEVA 124
S+Y ++F ++ LKH G + MA+AG + N SQF+I +LD KH +FG+V
Sbjct: 77 SIYGEKF--EDENFILKHTGPGILSMANAGPNTNGSQFFICTAKT-EWLDGKHVVFGKVK 133
Query: 125 EGL 127
EG+
Sbjct: 134 EGM 136
>pdb|1Z81|A Chain A, Crystal Structure Of Cyclophilin From Plasmodium Yoelii
Length = 229
Score = 68.2 bits (165), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 40/126 (31%), Positives = 65/126 (51%), Gaps = 12/126 (9%)
Query: 9 LGDIVIDLFVDKCPRTTNNFLQHCKNKY--------YNGCLFHNIHKDFIAQXXXXXXXX 60
LG +LF + P+T+ NF Q C +Y Y +FH + K+F+ Q
Sbjct: 73 LGKFKFELFQNIVPKTSENFRQFCTGEYKVNNLPVGYKNTIFHRVIKEFMIQGGDFINHN 132
Query: 61 XXXR-SVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTI 119
S+Y ++F D+ D+KHDK G + MA++G + N QF+IT + +LD K+ +
Sbjct: 133 GSGSLSIYGEKF--DDENFDIKHDKEGLLSMANSGPNTNGCQFFITTKK-CEWLDGKNVV 189
Query: 120 FGEVAE 125
FG + +
Sbjct: 190 FGRIID 195
>pdb|3RDD|A Chain A, Human Cyclophilin A Complexed With An Inhibitor
Length = 184
Score = 68.2 bits (165), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 43/123 (34%), Positives = 61/123 (49%), Gaps = 7/123 (5%)
Query: 9 LGDIVIDLFVDKCPRTTNNFLQHC---KNKYYNGCLFHNIHKDFIAQXX-XXXXXXXXXR 64
LG + +LF DK P+T NF K Y G FH I F+ Q +
Sbjct: 36 LGRVSFELFADKVPKTAENFRALSTGEKGFGYKGSCFHRIIPGFMCQGGDFTRHNGTGGK 95
Query: 65 SVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIFGEVA 124
S+Y ++F ++ LKH G + MA+AG + N SQF+I +LD KH +FG+V
Sbjct: 96 SIYGEKF--EDENFILKHTGPGILSMANAGPNTNGSQFFICTAKT-EWLDGKHVVFGKVK 152
Query: 125 EGL 127
EG+
Sbjct: 153 EGM 155
>pdb|2CK1|A Chain A, The Structure Of Oxidised Cyclophilin A From S. Mansoni
pdb|2CMT|A Chain A, The Structure Of Reduced Cyclophilin A From S. Mansoni
Length = 172
Score = 67.8 bits (164), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 43/147 (29%), Positives = 73/147 (49%), Gaps = 8/147 (5%)
Query: 10 GDIVIDLFVDKCPRTTNNFLQHCKNKY---YNGCLFHNIHKDFIAQXXXXXXX-XXXXRS 65
G IV++L D PRT NF C + Y+ C FH + F+ Q +S
Sbjct: 25 GRIVMELRSDIVPRTAENFRALCTGERGFGYHNCCFHRVIPQFMCQGGDFVKGDGTGGKS 84
Query: 66 VYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIFGEVAE 125
+Y +F D+ L+H+ G + MA++G + N SQF+I +LD KH +FG V +
Sbjct: 85 IYGRKF--DDENFQLRHEGFGVLSMANSGPNTNGSQFFICT-TKCDWLDGKHVVFGRVVD 141
Query: 126 GLETLTRINQAVVDEENRPPQQIIIKQ 152
G + ++ ++V + + + +II +
Sbjct: 142 GQNVVKKM-ESVGSKSGKVKEPVIISR 167
>pdb|3K0O|A Chain A, Room Temperature Structure Of Cypa Mutant Ser99thr
pdb|3K0P|A Chain A, Cryogenic Structure Of Cypa Mutant Ser99thr
pdb|3K0Q|A Chain A, Cryogenic Structure Of Cypa Mutant Ser99thr (2)
Length = 165
Score = 67.8 bits (164), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 43/123 (34%), Positives = 61/123 (49%), Gaps = 7/123 (5%)
Query: 9 LGDIVIDLFVDKCPRTTNNFLQHC---KNKYYNGCLFHNIHKDFIAQXX-XXXXXXXXXR 64
LG + +LF DK P+T NF K Y G FH I F+ Q +
Sbjct: 17 LGRVSFELFADKVPKTAENFRALSTGEKGFGYKGSCFHRIIPGFMCQGGDFTRHNGTGGK 76
Query: 65 SVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIFGEVA 124
S+Y ++F ++ LKH G + MA+AG + N SQF+I +LD KH +FG+V
Sbjct: 77 SIYGEKF--EDENFILKHTGPGILTMANAGPNTNGSQFFICTAKT-EWLDGKHVVFGKVK 133
Query: 125 EGL 127
EG+
Sbjct: 134 EGM 136
>pdb|2X83|B Chain B, Evolutionary Basis Of Hiv Restriction By The
Antiretroviral Trimcyp
pdb|2X83|D Chain D, Evolutionary Basis Of Hiv Restriction By The
Antiretroviral Trimcyp
Length = 163
Score = 67.8 bits (164), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 43/123 (34%), Positives = 61/123 (49%), Gaps = 7/123 (5%)
Query: 9 LGDIVIDLFVDKCPRTTNNFLQHC---KNKYYNGCLFHNIHKDFIAQXX-XXXXXXXXXR 64
LG + +LF DK P+T NF K Y G FH I F+ Q +
Sbjct: 16 LGRVSFELFADKVPKTAENFRALSTGEKGFGYKGSCFHRIIPGFMCQGGDFTHHNGTGGK 75
Query: 65 SVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIFGEVA 124
S+Y ++F ++ LKH G + MA+AG + N SQF+I +LD KH +FG+V
Sbjct: 76 SIYGEKF--EDENFILKHTGPGILSMANAGPNTNGSQFFICTAKT-EWLDGKHVVFGKVK 132
Query: 125 EGL 127
EG+
Sbjct: 133 EGM 135
>pdb|2ALF|A Chain A, Crystal Structure Of Human Cypa Mutant K131a
Length = 164
Score = 67.8 bits (164), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 43/123 (34%), Positives = 60/123 (48%), Gaps = 7/123 (5%)
Query: 9 LGDIVIDLFVDKCPRTTNNFLQHC---KNKYYNGCLFHNIHKDFIAQXX-XXXXXXXXXR 64
LG + +LF DK P+T NF K Y G FH I F+ Q +
Sbjct: 16 LGRVSFELFADKVPKTAENFRALSTGEKGFGYKGSCFHRIIPGFMCQGGDFTRHNGTGGK 75
Query: 65 SVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIFGEVA 124
S+Y ++F ++ LKH G + MA+AG + N SQF+I +LD KH +FG V
Sbjct: 76 SIYGEKF--EDENFILKHTGPGILSMANAGPNTNGSQFFICTAKT-KWLDGKHVVFGAVK 132
Query: 125 EGL 127
EG+
Sbjct: 133 EGM 135
>pdb|2X2C|K Chain K, Acetyl-Cypa:cyclosporine Complex
pdb|2X2C|M Chain M, Acetyl-Cypa:cyclosporine Complex
pdb|2X2C|O Chain O, Acetyl-Cypa:cyclosporine Complex
pdb|2X2C|Q Chain Q, Acetyl-Cypa:cyclosporine Complex
pdb|2X2C|S Chain S, Acetyl-Cypa:cyclosporine Complex
pdb|2X2D|B Chain B, Acetyl-Cypa:hiv-1 N-Term Capsid Domain Complex
pdb|2X2D|C Chain C, Acetyl-Cypa:hiv-1 N-Term Capsid Domain Complex
Length = 165
Score = 66.2 bits (160), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 42/123 (34%), Positives = 60/123 (48%), Gaps = 7/123 (5%)
Query: 9 LGDIVIDLFVDKCPRTTNNFLQHC---KNKYYNGCLFHNIHKDFIAQXX-XXXXXXXXXR 64
LG + +LF DK P+T NF K Y G FH I F+ Q +
Sbjct: 17 LGRVSFELFADKVPKTAENFRALSTGEKGFGYKGSCFHRIIPGFMCQGGDFTRHNGTGGK 76
Query: 65 SVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIFGEVA 124
S+Y ++F ++ LKH G + MA+AG + N SQF+I +LD H +FG+V
Sbjct: 77 SIYGEKF--EDENFILKHTGPGILSMANAGPNTNGSQFFICTAKT-EWLDGXHVVFGKVK 133
Query: 125 EGL 127
EG+
Sbjct: 134 EGM 136
>pdb|2X2A|A Chain A, Free Acetyl-Cypa Trigonal Form
pdb|2X2A|B Chain B, Free Acetyl-Cypa Trigonal Form
Length = 165
Score = 66.2 bits (160), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 42/123 (34%), Positives = 60/123 (48%), Gaps = 7/123 (5%)
Query: 9 LGDIVIDLFVDKCPRTTNNFLQHC---KNKYYNGCLFHNIHKDFIAQXX-XXXXXXXXXR 64
LG + +LF DK P+T NF K Y G FH I F+ Q +
Sbjct: 17 LGRVSFELFADKVPKTAENFRALSTGEKGFGYKGSCFHRIIPGFMCQGGDFTRHNGTGGK 76
Query: 65 SVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIFGEVA 124
S+Y ++F ++ LKH G + MA+AG + N SQF+I +LD H +FG+V
Sbjct: 77 SIYGEKF--EDENFILKHTGPGILSMANAGPNTNGSQFFICTAKT-KWLDGXHVVFGKVK 133
Query: 125 EGL 127
EG+
Sbjct: 134 EGM 136
>pdb|2X25|B Chain B, Free Acetyl-Cypa Orthorhombic Form
Length = 169
Score = 64.7 bits (156), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 42/123 (34%), Positives = 60/123 (48%), Gaps = 7/123 (5%)
Query: 9 LGDIVIDLFVDKCPRTTNNFLQHC---KNKYYNGCLFHNIHKDFIAQXX-XXXXXXXXXR 64
LG + +LF DK P+T NF K Y G FH I F+ Q +
Sbjct: 21 LGRVSFELFADKVPKTAENFRALSTGEKGFGYKGSCFHRIIPGFMCQGGDFTRHNGTGGK 80
Query: 65 SVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIFGEVA 124
S+Y ++F ++ LKH G + MA+AG + N SQF+I +LD H +FG+V
Sbjct: 81 SIYGEKF--EDENFILKHTGPGILSMANAGPNTNGSQFFICTAKT-KWLDGXHVVFGKVK 137
Query: 125 EGL 127
EG+
Sbjct: 138 EGM 140
>pdb|1DYW|A Chain A, Biochemical And Structural Characterization Of A Divergent
Loop Cyclophilin From Caenorhabditis Elegans
pdb|1E3B|A Chain A, Cyclophilin 3 From C.Elegans Complexed With Aup(Et)3
pdb|1E8K|A Chain A, Cyclophilin 3 Complexed With Dipeptide Ala-Pro
pdb|2IGV|A Chain A, Cyclophilin 3 Complexed With Dipeptide Ser-Pro
pdb|2IGW|A Chain A, Cyclophilin 3 Complexed With Dipeptide Gly-Pro
Length = 173
Score = 63.9 bits (154), Expect = 9e-11, Method: Compositional matrix adjust.
Identities = 43/153 (28%), Positives = 75/153 (49%), Gaps = 17/153 (11%)
Query: 10 GDIVIDLFVDKCPRTTNNFLQHCKNK----------YYNGCLFHNIHKDFIAQXX-XXXX 58
G IV++L+ D P+T NF C + ++ G FH I +F+ Q
Sbjct: 18 GRIVMELYDDVVPKTAGNFRALCTGENGIGKSGKPLHFKGSKFHRIIPNFMIQGGDFTRG 77
Query: 59 XXXXXRSVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYI-TLRDNLHYLDEKH 117
S+Y ++F + + KH G + MA+AG + N SQF++ T++ +LD KH
Sbjct: 78 NGTGGESIYGEKFPDENFKE--KHTGPGVLSMANAGPNTNGSQFFLCTVK--TEWLDGKH 133
Query: 118 TIFGEVAEGLETLTRINQAVVDEENRPPQQIII 150
+FG V EGL+ + + ++ + +P + +I
Sbjct: 134 VVFGRVVEGLDVVKAV-ESNGSQSGKPVKDCMI 165
>pdb|1AWS|A Chain A, Secypa Complexed With Hagpia (Pseudo-Symmetric Monomer)
pdb|1AWT|A Chain A, Secypa Complexed With Hagpia
pdb|1AWT|B Chain B, Secypa Complexed With Hagpia
pdb|1AWT|C Chain C, Secypa Complexed With Hagpia
pdb|1AWT|D Chain D, Secypa Complexed With Hagpia
pdb|1AWT|E Chain E, Secypa Complexed With Hagpia
pdb|1AWT|F Chain F, Secypa Complexed With Hagpia
Length = 164
Score = 63.2 bits (152), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 42/122 (34%), Positives = 58/122 (47%), Gaps = 7/122 (5%)
Query: 9 LGDIVIDLFVDKCPRTTNNFLQHC---KNKYYNGCLFHNIHKDFIAQXX-XXXXXXXXXR 64
LG + +LF DK P+T NF K Y G FH I F Q +
Sbjct: 16 LGRVSFELFADKVPKTAENFRALSTGEKGFGYKGSCFHRIIPGFXCQGGDFTRHNGTGGK 75
Query: 65 SVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDEKHTIFGEVA 124
S+Y ++F ++ LKH G + A+AG + N SQF+I +LD KH +FG+V
Sbjct: 76 SIYGEKF--EDENFILKHTGPGILSXANAGPNTNGSQFFICTAKT-EWLDGKHVVFGKVK 132
Query: 125 EG 126
EG
Sbjct: 133 EG 134
>pdb|3T1U|A Chain A, Crystal Structure Of The Complex Of Cyclophilin-a Enzyme
From Azotobacter Vinelandii With Sucafpfpna Peptide
Length = 163
Score = 62.8 bits (151), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 45/148 (30%), Positives = 71/148 (47%), Gaps = 28/148 (18%)
Query: 2 SVLIETSLGDIVIDLFVDKCPRTTNNFLQHCKNKYYNGCLFHNIHKDFIAQXXXXXXXXX 61
S+ ++T+ G I + LF DK P T NF Q+ K+ +Y+G +FH + F+ Q
Sbjct: 1 SIKLQTNHGTITLKLFADKAPETAANFEQYVKDGHYDGTIFHRVIDGFMIQGGG------ 54
Query: 62 XXRSVYEDRFFVDEIRADLKH-------DKVGTVGMASAGRDLNAS-QFYITLRDNLHYL 113
+E RA +K+ +K T+ MA +AS QF+I ++DN +L
Sbjct: 55 -----FEPGMKQKSTRAPIKNEANNGLSNKKYTIAMARTPDPHSASAQFFINVKDNA-FL 108
Query: 114 DE--------KHTIFGEVAEGLETLTRI 133
D + +FGEV EG + + RI
Sbjct: 109 DHTAPTAHGWGYAVFGEVVEGTDVVDRI 136
>pdb|2HQJ|A Chain A, Cyclophilin From Leishmania Major
Length = 183
Score = 62.8 bits (151), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 38/140 (27%), Positives = 65/140 (46%), Gaps = 13/140 (9%)
Query: 8 SLGDIVIDLFVDKCPRTTNNFLQHCKNK----------YYNGCLFHNIHKDFIAQXXX-X 56
+ G IV++L+ D P+T NF C + +Y +FH + +F+ Q
Sbjct: 20 AAGRIVMELYADTVPKTAENFRALCTGEKGKGRSGKPLHYKSSVFHRVIPNFMIQGGDFT 79
Query: 57 XXXXXXXRSVYEDRFFVDEIRADL-KHDKVGTVGMASAGRDLNASQFYITLRDNLHYLDE 115
S+Y F + +H +G + MA+AG + N SQF+I +LD
Sbjct: 80 RGNGTGGESIYGTTFRDESFSGKAGRHTGLGCLSMANAGPNTNGSQFFICTAAT-PWLDG 138
Query: 116 KHTIFGEVAEGLETLTRINQ 135
KH +FG V +GL+ + ++ +
Sbjct: 139 KHVVFGRVIDGLDVVKKVER 158
>pdb|1J2A|A Chain A, Structure Of E. Coli Cyclophilin B K163t Mutant
pdb|1V9T|A Chain A, Structure Of E. Coli Cyclophilin B K163t Mutant Bound To
Succinyl-Ala- Pro-Ala-P-Nitroanilide
pdb|1V9T|B Chain B, Structure Of E. Coli Cyclophilin B K163t Mutant Bound To
Succinyl-Ala- Pro-Ala-P-Nitroanilide
pdb|1VAI|A Chain A, Structure Of E. Coli Cyclophilin B K163t Mutant Bound To
N- Acetyl-Ala-Ala-Pro-Ala-7-Amino-4-Methylcoumarin
pdb|1VAI|B Chain B, Structure Of E. Coli Cyclophilin B K163t Mutant Bound To
N- Acetyl-Ala-Ala-Pro-Ala-7-Amino-4-Methylcoumarin
Length = 166
Score = 60.8 bits (146), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 45/164 (27%), Positives = 80/164 (48%), Gaps = 15/164 (9%)
Query: 3 VLIETSLGDIVIDLFVDKCPRTTNNFLQHCKNKYYNGCLFHNIHKDFIAQXXXXXXXXXX 62
VL+ TS G+I ++L K P + NF+ + + +YN FH + F+ Q
Sbjct: 7 VLLTTSAGNIELELDKQKAPVSVQNFVDYVNSGFYNNTTFHRVIPGFMIQGGGFTEQMQQ 66
Query: 63 XRSVYEDRFFVDEIRADLKHDKVGTVGMA-SAGRDLNASQFYITLRDNLHYLDE-----K 116
+ + +E L++ + GT+ MA +A +D SQF+I + DN +LD
Sbjct: 67 KK---PNPPIKNEADNGLRNTR-GTIAMARTADKDSATSQFFINVADNA-FLDHGQRDFG 121
Query: 117 HTIFGEVAEGLETLTRINQA----VVDEENRPPQQIIIKQTYVL 156
+ +FG+V +G++ +I+Q V +N P + ++I VL
Sbjct: 122 YAVFGKVVKGMDVADKISQVPTHDVGPYQNVPSKPVVILSATVL 165
>pdb|1CLH|A Chain A, Three-Dimensional Solution Structure Of Escherichia Coli
Periplasmic Cyclophilin
Length = 166
Score = 60.5 bits (145), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 45/164 (27%), Positives = 80/164 (48%), Gaps = 15/164 (9%)
Query: 3 VLIETSLGDIVIDLFVDKCPRTTNNFLQHCKNKYYNGCLFHNIHKDFIAQXXXXXXXXXX 62
VL+ TS G+I ++L K P + NF+ + + +YN FH + F+ Q
Sbjct: 7 VLLTTSAGNIELELDKQKAPVSVQNFVDYVNSGFYNNTTFHRVIPGFMIQGGGFTEQMQQ 66
Query: 63 XRSVYEDRFFVDEIRADLKHDKVGTVGMA-SAGRDLNASQFYITLRDNLHYLDE-----K 116
+ + +E L++ + GT+ MA +A +D SQF+I + DN +LD
Sbjct: 67 KK---PNPPIKNEADNGLRNTR-GTIAMARTADKDSATSQFFINVADNA-FLDHGQRDFG 121
Query: 117 HTIFGEVAEGLETLTRINQA----VVDEENRPPQQIIIKQTYVL 156
+ +FG+V +G++ +I+Q V +N P + ++I VL
Sbjct: 122 YAVFGKVVKGMDVADKISQVPTHDVGPYQNVPSKPVVILSAKVL 165
>pdb|2NUL|A Chain A, Peptidylprolyl Isomerase From E. Coli
pdb|2RS4|A Chain A, Nmr Strucure Of Stereo-Array Isotope Labelled (Sail)
Peptidyl-Prolyl Cis-Trans Isomerase From E. Coli (Eppib)
Length = 164
Score = 60.1 bits (144), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 46/165 (27%), Positives = 77/165 (46%), Gaps = 16/165 (9%)
Query: 3 VLIETSLGDIVIDLFVDKCPRTTNNFLQHCKNKYYNGCLFHNIHKDFIAQXXXXXXXXXX 62
V T+ GDIVI F DK P T NFL +C+ +YN +FH + F+ Q
Sbjct: 2 VTFHTNHGDIVIKTFDDKAPETVKNFLDYCREGFYNNTIFHRVINGFMIQGGGFEPGMKQ 61
Query: 63 XRSVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNAS-QFYITLRDN--LHYLDEK--- 116
+ + +E LK+ + GT+ MA +A+ QF+I + DN L++ E
Sbjct: 62 KATKEPIK---NEANNGLKNTR-GTLAMARTQAPHSATAQFFINVVDNDFLNFSGESLQG 117
Query: 117 --HTIFGEVAEGLETLTRINQAVVD----EENRPPQQIIIKQTYV 155
+ +F EV +G++ + +I ++ P + +II+ V
Sbjct: 118 WGYCVFAEVVDGMDVVDKIKGVATGRSGMHQDVPKEDVIIESVTV 162
>pdb|1LOP|A Chain A, Cyclophilin A Complexed With
Succinyl-Ala-Pro-Ala-P-Nitroanilide
Length = 164
Score = 59.7 bits (143), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 46/165 (27%), Positives = 77/165 (46%), Gaps = 16/165 (9%)
Query: 3 VLIETSLGDIVIDLFVDKCPRTTNNFLQHCKNKYYNGCLFHNIHKDFIAQXXXXXXXXXX 62
V T+ GDIVI F DK P T NFL +C+ +YN +FH + F+ Q
Sbjct: 2 VTFHTNHGDIVIKTFDDKAPETVKNFLDYCREGFYNNTIFHRVINGFMIQGGGFEPGMKQ 61
Query: 63 XRSVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNAS-QFYITLRDN--LHYLDEK--- 116
+ + +E LK+ + GT+ MA +A+ QF+I + DN L++ E
Sbjct: 62 KATKEPIK---NEANNGLKNTR-GTLAMARTQAPHSATAQFFINVVDNDFLNFSGESLQG 117
Query: 117 --HTIFGEVAEGLETLTRINQAVVDE----ENRPPQQIIIKQTYV 155
+ +F EV +G++ + +I ++ P + +II+ V
Sbjct: 118 WGYCVFAEVVDGMDEVDKIKGVATGRSGMHQDVPKEDVIIESVTV 162
>pdb|3SXL|A Chain A, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
pdb|3SXL|B Chain B, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
pdb|3SXL|C Chain C, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
Length = 184
Score = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 36/67 (53%)
Query: 211 DNVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAY 270
D L+V L D+ L IF ++G++V ILRD TG AFV + KRE ++A
Sbjct: 100 DTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAI 159
Query: 271 FKMNNAL 277
+NN +
Sbjct: 160 SALNNVI 166
Score = 48.5 bits (114), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 43/84 (51%)
Query: 206 DVKPPDNVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREA 265
D + + L V L D +L+ +F G + + I RDY+TG S YAFV+F
Sbjct: 9 DPRASNTNLIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSEXD 68
Query: 266 CEQAYFKMNNALIDDRRICVDFSQ 289
++A +N + ++R+ V +++
Sbjct: 69 SQRAIKVLNGITVRNKRLKVSYAR 92
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 52.8 bits (125), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 36/67 (53%)
Query: 211 DNVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAY 270
D L+V L D+ L IF ++G++V ILRD TG AFV + KRE ++A
Sbjct: 89 DTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAI 148
Query: 271 FKMNNAL 277
+NN +
Sbjct: 149 SALNNVI 155
Score = 48.5 bits (114), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 38/65 (58%)
Query: 225 DEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKMNNALIDDRRIC 284
D +L+ +F G + + I+RDY+TG S YAFV+F ++A +N + ++R+
Sbjct: 17 DRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLK 76
Query: 285 VDFSQ 289
V +++
Sbjct: 77 VSYAR 81
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 52.8 bits (125), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 32/111 (28%), Positives = 53/111 (47%), Gaps = 3/111 (2%)
Query: 178 PLNEQLSSEKEAHSRAVALECIGDIPDADVKPPDNVLFVCQLNPVTEDEDLHVIFSQFGT 237
P ++S +G+ + D P+ L V L+ T + DL +FS++G
Sbjct: 16 PRGSHMASMTGGQQMGRGSRHVGNRANPD---PNCCLGVFGLSLYTTERDLREVFSKYGP 72
Query: 238 VVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKMNNALIDDRRICVDFS 288
+ I+ D ++ S +AFV FE + ++A + N +D RRI VDFS
Sbjct: 73 IADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVDFS 123
>pdb|2DGO|A Chain A, Solution Structure Of The Rna Binding Domain In Cytotoxic
Granule-Associated Rna Binding Protein 1
pdb|2RNE|A Chain A, Solution Structure Of The Second Rna Recognition Motif
(Rrm) Of Tia-1
Length = 115
Score = 52.4 bits (124), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 39/75 (52%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKM 273
+FV L+P ED+ F+ FG + A +++D TG+S Y FV F + E A +M
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 77
Query: 274 NNALIDDRRICVDFS 288
+ R+I +++
Sbjct: 78 GGQWLGGRQIRTNWA 92
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 52.0 bits (123), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 38/75 (50%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKM 273
+FV L+P ED+ F+ FG + A +++D TG+S Y FV F + E A M
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIVHM 77
Query: 274 NNALIDDRRICVDFS 288
+ R+I +++
Sbjct: 78 GGQWLGGRQIRTNWA 92
>pdb|1SXL|A Chain A, Resonance Assignments And Solution Structure Of The Second
Rna-Binding Domain Of Sex-Lethal Determined By
Multidimensional Heteronuclear Magnetic Resonance
Spectroscopy
Length = 97
Score = 51.2 bits (121), Expect = 7e-07, Method: Composition-based stats.
Identities = 25/67 (37%), Positives = 36/67 (53%)
Query: 211 DNVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAY 270
D L+V L D+ L IF ++G++V ILRD TG AFV + KRE ++A
Sbjct: 13 DTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAI 72
Query: 271 FKMNNAL 277
+NN +
Sbjct: 73 SALNNVI 79
>pdb|4F02|A Chain A, Crystal Structure Of The Pabp-Binding Site Of Eif4g In
Complex With Rrm1-2 Of Pabp And Poly(A)
pdb|4F02|D Chain D, Crystal Structure Of The Pabp-Binding Site Of Eif4g In
Complex With Rrm1-2 Of Pabp And Poly(A)
Length = 213
Score = 50.8 bits (120), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 44/72 (61%), Gaps = 2/72 (2%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKM 273
+F+ L+ +++ L+ FS FG ++S +++ D S Y FV FE +EA E+A KM
Sbjct: 106 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD--ENGSKGYGFVHFETQEAAERAIEKM 163
Query: 274 NNALIDDRRICV 285
N L++DR++ V
Sbjct: 164 NGMLLNDRKVFV 175
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 42/80 (52%)
Query: 210 PDNVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQA 269
P L+V L+P + L+ FS G ++S + RD T SL YA+V F++ E+A
Sbjct: 14 PMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERA 73
Query: 270 YFKMNNALIDDRRICVDFSQ 289
MN +I + + + +SQ
Sbjct: 74 LDTMNFDVIKGKPVRIMWSQ 93
>pdb|4F25|A Chain A, Crystal Structure Of The Second Rrm Domain Of Human Pabpc1
At Ph 6.0
pdb|4F26|A Chain A, Crystal Structure Of The Second Rrm Domain Of Human Pabpc1
A Ph 9.0
Length = 115
Score = 50.4 bits (119), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 44/72 (61%), Gaps = 2/72 (2%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKM 273
+F+ L+ +++ L+ FS FG ++S +++ D S Y FV FE +EA E+A KM
Sbjct: 8 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG--SKGYGFVHFETQEAAERAIEKM 65
Query: 274 NNALIDDRRICV 285
N L++DR++ V
Sbjct: 66 NGMLLNDRKVFV 77
>pdb|2CPZ|A Chain A, Solution Structure Of Rna Binding Domain 3 In Cug Triplet
Repeat Rna-Binding Protein 1
pdb|2RQ4|A Chain A, Refinement Of Rna Binding Domain 3 In Cug Triplet Repeat
Rna-Binding Protein 1
pdb|2RQC|A Chain A, Solution Structure Of Rna-Binding Domain 3 Of Cugbp1 In
Complex With Rna (Ug)3
Length = 115
Score = 50.4 bits (119), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 30/103 (29%), Positives = 47/103 (45%)
Query: 188 EAHSRAVALECIGDIPDADVKPPDNVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDY 247
+ S + + IG P LF+ L D+DL +F FG VVSA++ D
Sbjct: 2 SSGSSGLTQQSIGAAGSQKEGPEGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDK 61
Query: 248 RTGESLCYAFVEFEKREACEQAYFKMNNALIDDRRICVDFSQS 290
+T S C+ FV ++ + + A MN I +R+ V +S
Sbjct: 62 QTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQLKRS 104
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 50.4 bits (119), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 28/79 (35%), Positives = 44/79 (55%)
Query: 210 PDNVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQA 269
P+ L V L+ T + DL +FS++G + I+ D ++ S +AFV FE + ++A
Sbjct: 11 PNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEA 70
Query: 270 YFKMNNALIDDRRICVDFS 288
+ N +D RRI VDFS
Sbjct: 71 KERANGMELDGRRIRVDFS 89
>pdb|1CVJ|A Chain A, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|B Chain B, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|C Chain C, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|D Chain D, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|E Chain E, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|F Chain F, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|G Chain G, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|H Chain H, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
Length = 190
Score = 50.4 bits (119), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 44/72 (61%), Gaps = 2/72 (2%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKM 273
+F+ L+ +++ L+ FS FG ++S +++ D S Y FV FE +EA E+A KM
Sbjct: 101 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD--ENGSKGYGFVHFETQEAAERAIEKM 158
Query: 274 NNALIDDRRICV 285
N L++DR++ V
Sbjct: 159 NGMLLNDRKVFV 170
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 42/80 (52%)
Query: 210 PDNVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQA 269
P L+V L+P + L+ FS G ++S + RD T SL YA+V F++ E+A
Sbjct: 9 PMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERA 68
Query: 270 YFKMNNALIDDRRICVDFSQ 289
MN +I + + + +SQ
Sbjct: 69 LDTMNFDVIKGKPVRIMWSQ 88
>pdb|3S6M|A Chain A, The Structure Of A Peptidyl-Prolyl Cis-Trans Isomerase
From Burkholderia Pseudomallei
Length = 167
Score = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 39/140 (27%), Positives = 66/140 (47%), Gaps = 14/140 (10%)
Query: 3 VLIETSLGDIVIDLFVDKCPRTTNNFLQHCKNKYYNGCLFHNIHKDFIAQXXXXXXXXXX 62
V + T+ G I ++L K P+T NFL + K +Y+G +FH + F+ Q
Sbjct: 6 VELHTNHGVIKLELDEAKAPKTVENFLNYVKKGHYDGTIFHRVINGFMIQGGGFEPGLKQ 65
Query: 63 XRSVYEDRFFVDEIRADLKHDKVGTVGMASAGRDLNAS-QFYITLRDNLHYLDEK----- 116
+ D +E LK+D T+ MA +A+ QF+I + DN +L+
Sbjct: 66 KPT---DAPIANEANNGLKNDTY-TIAMARTNDPHSATAQFFINVNDN-EFLNHSSPTPQ 120
Query: 117 ---HTIFGEVAEGLETLTRI 133
+ +FG+V EG + + +I
Sbjct: 121 GWGYAVFGKVVEGQDIVDKI 140
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 49.7 bits (117), Expect = 2e-06, Method: Composition-based stats.
Identities = 28/79 (35%), Positives = 44/79 (55%)
Query: 210 PDNVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQA 269
P+ L V L+ T + DL +FS++G + I+ D ++ S +AFV FE + ++A
Sbjct: 14 PNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEA 73
Query: 270 YFKMNNALIDDRRICVDFS 288
+ N +D RRI VDFS
Sbjct: 74 KERANGMELDGRRIRVDFS 92
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 49.7 bits (117), Expect = 2e-06, Method: Composition-based stats.
Identities = 25/72 (34%), Positives = 44/72 (61%), Gaps = 2/72 (2%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKM 273
+F+ L+ +++ L+ FS FG ++S +++ D + Y FV FE +EA E+A KM
Sbjct: 14 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKG--YGFVHFETQEAAERAIEKM 71
Query: 274 NNALIDDRRICV 285
N L++DR++ V
Sbjct: 72 NGMLLNDRKVFV 83
>pdb|3PGW|S Chain S, Crystal Structure Of Human U1 Snrnp
pdb|3PGW|L Chain L, Crystal Structure Of Human U1 Snrnp
Length = 437
Score = 48.9 bits (115), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 40/84 (47%), Gaps = 1/84 (1%)
Query: 213 VLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFK 272
LFV ++N T + L F +G + ++ R+G+ YAF+E+E AY
Sbjct: 104 TLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKH 163
Query: 273 MNNALIDDRRICVDFSQSVS-KIW 295
+ ID RR+ VD + + K W
Sbjct: 164 ADGKKIDGRRVLVDVERGRTVKGW 187
>pdb|2QFJ|A Chain A, Crystal Structure Of First Two Rrm Domains Of Fir Bound To
Ssdna From A Portion Of Fuse
pdb|2QFJ|B Chain B, Crystal Structure Of First Two Rrm Domains Of Fir Bound To
Ssdna From A Portion Of Fuse
Length = 216
Score = 48.5 bits (114), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 36/63 (57%)
Query: 212 NVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYF 271
N ++V ++ D+D+ +F FG + SA + RD TG+ Y F+E+EK ++ + A
Sbjct: 126 NRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVS 185
Query: 272 KMN 274
MN
Sbjct: 186 SMN 188
Score = 36.6 bits (83), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 31/54 (57%)
Query: 232 FSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKMNNALIDDRRICV 285
F+ FG + S ++ D T + +AFVE+E EA + A +MN+ ++ R I V
Sbjct: 49 FAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKV 102
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 48.5 bits (114), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 39/73 (53%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKM 273
LFV L+ T ++ L +FS++G + +++D T S + FV FE + + A M
Sbjct: 15 LFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAM 74
Query: 274 NNALIDDRRICVD 286
N +D R+I VD
Sbjct: 75 NGKSVDGRQIRVD 87
>pdb|3CW1|K Chain K, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|6 Chain 6, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|7 Chain 7, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|8 Chain 8, Crystal Structure Of Human Spliceosomal U1 Snrnp
Length = 216
Score = 47.8 bits (112), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 40/85 (47%), Gaps = 1/85 (1%)
Query: 212 NVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYF 271
LFV ++N T + L F +G + ++ R+G+ YAF+E+E AY
Sbjct: 103 KTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYK 162
Query: 272 KMNNALIDDRRICVDFSQSVS-KIW 295
+ ID RR+ VD + + K W
Sbjct: 163 HADGKKIDGRRVLVDVERGRTVKGW 187
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 47.4 bits (111), Expect = 1e-05, Method: Composition-based stats.
Identities = 25/76 (32%), Positives = 44/76 (57%), Gaps = 1/76 (1%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVV-SAEILRDYRTGESLCYAFVEFEKREACEQAYFK 272
+F+ L+P +++ L+ FS FG ++ + +I+RD TG S YAF+ F +A + A
Sbjct: 8 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEA 67
Query: 273 MNNALIDDRRICVDFS 288
MN + +R I V ++
Sbjct: 68 MNGQYLCNRPITVSYA 83
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 47.0 bits (110), Expect = 1e-05, Method: Composition-based stats.
Identities = 20/65 (30%), Positives = 38/65 (58%)
Query: 225 DEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKMNNALIDDRRIC 284
D +L+ +F G + + I+RDY+TG S YAFV+F ++A +N + ++R+
Sbjct: 17 DRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLK 76
Query: 285 VDFSQ 289
V +++
Sbjct: 77 VSYAR 81
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 29/92 (31%), Positives = 48/92 (52%), Gaps = 3/92 (3%)
Query: 202 IPDADVKPPDNVLFVCQLN--PVTEDE-DLHVIFSQFGTVVSAEILRDYRTGESLCYAFV 258
IP + P +VL +N P T DE L +F ++G + S +I+ D T +S Y FV
Sbjct: 30 IPPTQMNPEPDVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFV 89
Query: 259 EFEKREACEQAYFKMNNALIDDRRICVDFSQS 290
+F+ + +QA +N I ++R+ V + S
Sbjct: 90 KFQSGSSAQQAIAGLNGFNILNKRLKVALAAS 121
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 42/75 (56%), Gaps = 1/75 (1%)
Query: 222 VTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKMNNALIDDR 281
+T+DE L +FS G V SA+++RD G SL Y FV + + E+A +N + +
Sbjct: 14 MTQDE-LRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSK 72
Query: 282 RICVDFSQSVSKIWK 296
I V +++ S++ K
Sbjct: 73 TIKVSYARPSSEVIK 87
Score = 44.7 bits (104), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 35/65 (53%)
Query: 211 DNVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAY 270
D L++ L +D+ +FS+FG ++++ +L D TG S AF+ F+KR E+A
Sbjct: 88 DANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAI 147
Query: 271 FKMNN 275
N
Sbjct: 148 TSFNG 152
>pdb|4ED5|A Chain A, Crystal Structure Of The Two N-Terminal Rrm Domains Of Hur
Complexed With Rna
pdb|4ED5|B Chain B, Crystal Structure Of The Two N-Terminal Rrm Domains Of Hur
Complexed With Rna
Length = 177
Score = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 42/75 (56%), Gaps = 1/75 (1%)
Query: 222 VTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKMNNALIDDR 281
+T+DE L +FS G V SA+++RD G SL Y FV + + E+A +N + +
Sbjct: 14 MTQDE-LRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSK 72
Query: 282 RICVDFSQSVSKIWK 296
I V +++ S++ K
Sbjct: 73 TIKVSYARPSSEVIK 87
Score = 44.7 bits (104), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 35/65 (53%)
Query: 211 DNVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAY 270
D L++ L +D+ +FS+FG ++++ +L D TG S AF+ F+KR E+A
Sbjct: 88 DANLYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDKRSEAEEAI 147
Query: 271 FKMNN 275
N
Sbjct: 148 TSFNG 152
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKM 273
LF+ L D DL F FG V+SA++ D +T S C+ FV F+ ++ + A M
Sbjct: 43 LFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKAM 102
Query: 274 NNALIDDRRICV 285
N + +R+ V
Sbjct: 103 NGFQVGTKRLKV 114
>pdb|2KXF|A Chain A, Solution Structure Of The First Two Rrm Domains Of
Fbp-Interacting Repressor (Fir)
pdb|2KXH|A Chain A, Solution Structure Of The First Two Rrm Domains Of Fir In
The Complex With Fbp Nbox Peptide
Length = 199
Score = 45.4 bits (106), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 35/63 (55%)
Query: 212 NVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYF 271
N ++V ++ D+D+ +F FG + S + RD TG+ Y F+E+EK ++ + A
Sbjct: 111 NRIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVS 170
Query: 272 KMN 274
MN
Sbjct: 171 SMN 173
Score = 35.8 bits (81), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 31/54 (57%)
Query: 232 FSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKMNNALIDDRRICV 285
F+ FG + S ++ D T + +AFVE+E EA + A +MN+ ++ R I V
Sbjct: 34 FAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKV 87
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 45.4 bits (106), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 38/75 (50%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKM 273
LFV LN +DE L F F + +S ++ D +TG S Y FV F ++ + A M
Sbjct: 90 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM 149
Query: 274 NNALIDDRRICVDFS 288
++ R + ++++
Sbjct: 150 QGQDLNGRPLRINWA 164
Score = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 17/76 (22%), Positives = 39/76 (51%), Gaps = 1/76 (1%)
Query: 213 VLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFK 272
VL+V L+ ++ L F G + + +I+ D + +++ YAFVE+ + A
Sbjct: 2 VLYVGNLDKAITEDILKQYFQVGGPIANIKIMID-KNNKNVNYAFVEYHQSHDANIALQT 60
Query: 273 MNNALIDDRRICVDFS 288
+N I++ + ++++
Sbjct: 61 LNGKQIENNIVKINWA 76
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 45.1 bits (105), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 35/65 (53%)
Query: 211 DNVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAY 270
D L+V L +++ +FSQ+G ++++ IL D TG S F+ F+KR E+A
Sbjct: 90 DANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAI 149
Query: 271 FKMNN 275
+N
Sbjct: 150 KGLNG 154
Score = 38.5 bits (88), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 37/71 (52%), Gaps = 1/71 (1%)
Query: 222 VTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKMNNALIDDR 281
+T+DE +F G + S +++RD TG+SL Y FV + ++A +N + +
Sbjct: 16 MTQDE-FKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTLNGLKLQTK 74
Query: 282 RICVDFSQSVS 292
I V +++ S
Sbjct: 75 TIKVSYARPSS 85
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 44.7 bits (104), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 39/77 (50%)
Query: 213 VLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFK 272
VL+V L +D+ LH F FG + +I DY T + +AFVEFE E A
Sbjct: 14 VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDN 73
Query: 273 MNNALIDDRRICVDFSQ 289
MN + + R I V+ ++
Sbjct: 74 MNESELFGRTIRVNLAK 90
>pdb|1FXL|A Chain A, Crystal Structure Of Hud And Au-Rich Element Of The C-Fos
Rna
pdb|1G2E|A Chain A, Crystal Structure Of Hud And Au-Rich Element Of The Tumor
Necrosis Factor Alpha Rna
Length = 167
Score = 44.7 bits (104), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 35/65 (53%)
Query: 211 DNVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAY 270
D L+V L ++L +FSQ+G ++++ IL D TG S F+ F+KR E+A
Sbjct: 88 DANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAI 147
Query: 271 FKMNN 275
+N
Sbjct: 148 KGLNG 152
Score = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 35/67 (52%)
Query: 226 EDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKMNNALIDDRRICV 285
E+ +F G + S +++RD TG+SL Y FV + + E+A +N + + I V
Sbjct: 17 EEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKV 76
Query: 286 DFSQSVS 292
+++ S
Sbjct: 77 SYARPSS 83
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 44.3 bits (103), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 27/75 (36%), Positives = 38/75 (50%), Gaps = 1/75 (1%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKM 273
+FV L T D L F FG + A ++ D +TG+S Y FV R A E+A K
Sbjct: 20 IFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERA-CKD 78
Query: 274 NNALIDDRRICVDFS 288
N +ID R+ V+ +
Sbjct: 79 PNPIIDGRKANVNLA 93
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 38/80 (47%), Gaps = 3/80 (3%)
Query: 210 PDNVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQA 269
P LFV L+ T +E L F V A I+ D TG S + FV+F E + A
Sbjct: 14 PSKTLFVKGLSEDTTEETLK---ESFDGSVRARIVTDRETGSSKGFGFVDFNSEEDAKAA 70
Query: 270 YFKMNNALIDDRRICVDFSQ 289
M + ID ++ +D+++
Sbjct: 71 KEAMEDGEIDGNKVTLDWAK 90
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 43.9 bits (102), Expect = 1e-04, Method: Composition-based stats.
Identities = 25/76 (32%), Positives = 41/76 (53%)
Query: 210 PDNVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQA 269
P+ L V L+ T + DL +FS++G + I+ D ++ S +AFV FE + ++A
Sbjct: 14 PNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEA 73
Query: 270 YFKMNNALIDDRRICV 285
+ N +D RRI V
Sbjct: 74 KERANGMELDGRRIRV 89
>pdb|2CJK|A Chain A, Structure Of The Rna Binding Domain Of Hrp1 In Complex
With Rna
pdb|2KM8|C Chain C, Interdomain Rrm Packing Contributes To Rna Recognition In
The Rna15, Hrp1, Anchor Rna 3' Processing Ternary
Complex
Length = 167
Score = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 40/72 (55%), Gaps = 5/72 (6%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKM 273
+FV + P ++ FSQ+GT++ A+++ D TG+S + FV ++ +A ++
Sbjct: 90 IFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRV---C 146
Query: 274 NNALID--DRRI 283
N ID DR+I
Sbjct: 147 QNKFIDFKDRKI 158
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 40/72 (55%), Gaps = 3/72 (4%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFK- 272
+F+ LN T +++L F ++GTV +I++D TG S + F+ FEK + ++
Sbjct: 6 MFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKTQ 65
Query: 273 --MNNALIDDRR 282
++ +ID +R
Sbjct: 66 HILDGKVIDPKR 77
>pdb|3MDF|A Chain A, Crystal Structure Of The Rrm Domain Of Cyclophilin 33
pdb|3MDF|B Chain B, Crystal Structure Of The Rrm Domain Of Cyclophilin 33
Length = 85
Score = 43.1 bits (100), Expect = 2e-04, Method: Composition-based stats.
Identities = 27/77 (35%), Positives = 39/77 (50%)
Query: 213 VLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFK 272
VL+V L +D+ LH F FG + +I DY T + +AFVEFE E A
Sbjct: 9 VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDN 68
Query: 273 MNNALIDDRRICVDFSQ 289
MN + + R I V+ ++
Sbjct: 69 MNESELFGRTIRVNLAK 85
>pdb|3LPY|A Chain A, Crystal Structure Of The Rrm Domain Of Cyp33
pdb|3LPY|B Chain B, Crystal Structure Of The Rrm Domain Of Cyp33
Length = 79
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 27/76 (35%), Positives = 38/76 (50%)
Query: 213 VLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFK 272
VL+V L +D+ LH F FG + +I DY T + +AFVEFE E A
Sbjct: 4 VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDN 63
Query: 273 MNNALIDDRRICVDFS 288
MN + + R I V+ +
Sbjct: 64 MNESELFGRTIRVNLA 79
>pdb|3UWT|A Chain A, Crystal Structure Of A Rna Binding Domain Of Poly-U
Binding Splicing Factor 60kda (Puf60) From Homo Sapiens
At 2.50 A Resolution
Length = 200
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 34/63 (53%)
Query: 212 NVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYF 271
N ++V ++ D+D+ +F FG + S + RD TG+ Y F+E+EK ++ + A
Sbjct: 110 NRIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVS 169
Query: 272 KMN 274
N
Sbjct: 170 SXN 172
Score = 31.2 bits (69), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 34/69 (49%)
Query: 225 DEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKMNNALIDDRRIC 284
++ + F+ FG + S + D T + +AFVE+E EA + A + N+ + R I
Sbjct: 26 EDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALEQXNSVXLGGRNIK 85
Query: 285 VDFSQSVSK 293
V ++ +
Sbjct: 86 VGRPSNIGQ 94
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 40/76 (52%), Gaps = 2/76 (2%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKM 273
L+V L+ +DE L FS FGT+ SA+++ + G S + FV F E +A +M
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVMME--GGRSKGFGFVCFSSPEEATKAVTEM 75
Query: 274 NNALIDDRRICVDFSQ 289
N ++ + + V +Q
Sbjct: 76 NGRIVATKPLYVALAQ 91
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 43.1 bits (100), Expect = 2e-04, Method: Composition-based stats.
Identities = 27/77 (35%), Positives = 39/77 (50%)
Query: 213 VLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFK 272
VL+V L +D+ LH F FG + +I DY T + +AFVEFE E A
Sbjct: 7 VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDN 66
Query: 273 MNNALIDDRRICVDFSQ 289
MN + + R I V+ ++
Sbjct: 67 MNESELFGRTIRVNLAK 83
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 42.7 bits (99), Expect = 2e-04, Method: Composition-based stats.
Identities = 21/64 (32%), Positives = 35/64 (54%)
Query: 211 DNVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAY 270
D L+V L +++ +FSQ+G ++++ IL D TG S F+ F+KR E+A
Sbjct: 1 DANLYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAI 60
Query: 271 FKMN 274
+N
Sbjct: 61 KGLN 64
>pdb|1P27|B Chain B, Crystal Structure Of The Human Y14MAGOH COMPLEX
pdb|1P27|D Chain D, Crystal Structure Of The Human Y14MAGOH COMPLEX
Length = 106
Score = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 25/93 (26%), Positives = 45/93 (48%)
Query: 195 ALECIGDIPDADVKPPDNVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLC 254
++E GD P +LFV ++ +ED+H F+++G + + + D RTG
Sbjct: 7 SVEQDGDEPGPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKG 66
Query: 255 YAFVEFEKREACEQAYFKMNNALIDDRRICVDF 287
Y VE+E + + A +N + + I VD+
Sbjct: 67 YTLVEYETYKEAQAAMEGLNGQDLMGQPISVDW 99
>pdb|3EX7|B Chain B, The Crystal Structure Of Ejc In Its Transition State
pdb|3EX7|G Chain G, The Crystal Structure Of Ejc In Its Transition State
Length = 126
Score = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 25/93 (26%), Positives = 45/93 (48%)
Query: 195 ALECIGDIPDADVKPPDNVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLC 254
++E GD P +LFV ++ +ED+H F+++G + + + D RTG
Sbjct: 6 SVEQDGDEPGPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKG 65
Query: 255 YAFVEFEKREACEQAYFKMNNALIDDRRICVDF 287
Y VE+E + + A +N + + I VD+
Sbjct: 66 YTLVEYETYKEAQAAMEGLNGQDLMGQPISVDW 98
>pdb|3HI9|A Chain A, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|B Chain B, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|C Chain C, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|D Chain D, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
Length = 84
Score = 42.0 bits (97), Expect = 5e-04, Method: Composition-based stats.
Identities = 23/68 (33%), Positives = 38/68 (55%), Gaps = 1/68 (1%)
Query: 222 VTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKMNNALIDDR 281
+T+DE L +FS G V SA+++RD G SL Y FV + + E+A +N + +
Sbjct: 16 MTQDE-LRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSK 74
Query: 282 RICVDFSQ 289
I V +++
Sbjct: 75 TIKVSYAR 82
>pdb|3MD1|A Chain A, Crystal Structure Of The Second Rrm Domain Of Yeast
Poly(U)-Binding Protein (Pub1)
pdb|3MD1|B Chain B, Crystal Structure Of The Second Rrm Domain Of Yeast
Poly(U)-Binding Protein (Pub1)
Length = 83
Score = 41.6 bits (96), Expect = 5e-04, Method: Composition-based stats.
Identities = 22/75 (29%), Positives = 38/75 (50%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKM 273
LFV LN +DE L F F + +S ++ D +TG S Y FV F ++ + A M
Sbjct: 4 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM 63
Query: 274 NNALIDDRRICVDFS 288
++ R + ++++
Sbjct: 64 QGQDLNGRPLRINWA 78
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 41.2 bits (95), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 27/76 (35%), Positives = 38/76 (50%)
Query: 213 VLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFK 272
VL+V L +D+ LH F FG + +I DY T + +AFVEFE E A
Sbjct: 65 VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDN 124
Query: 273 MNNALIDDRRICVDFS 288
MN + + R I V+ +
Sbjct: 125 MNESELFGRTIRVNLA 140
>pdb|4FXV|A Chain A, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
pdb|4FXV|B Chain B, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
pdb|4FXV|C Chain C, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
pdb|4FXV|D Chain D, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
Length = 99
Score = 41.2 bits (95), Expect = 8e-04, Method: Composition-based stats.
Identities = 23/67 (34%), Positives = 37/67 (55%), Gaps = 1/67 (1%)
Query: 223 TEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKMNNALIDDRR 282
T+DE L +FS G V SA+++RD G SL Y FV + + E+A +N + +
Sbjct: 32 TQDE-LRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSKT 90
Query: 283 ICVDFSQ 289
I V +++
Sbjct: 91 IKVSYAR 97
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 40.8 bits (94), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 33/70 (47%), Gaps = 1/70 (1%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKM 273
LFV L+ T E L FSQ+G VV I++D T +S + FV+F K C
Sbjct: 19 LFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKF-KDPNCVGTVLAS 77
Query: 274 NNALIDDRRI 283
+D R I
Sbjct: 78 RPHTLDGRNI 87
>pdb|1NO8|A Chain A, Solution Structure Of The Nuclear Factor Aly Rbd Domain
Length = 106
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 39/77 (50%), Gaps = 1/77 (1%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKM 273
L V L+ D D+ +F++FGT+ A + D R+G SL A V FE++ +A +
Sbjct: 31 LLVSNLDFGVSDADIQELFAEFGTLKKAAVHYD-RSGRSLGTADVHFERKADALKAMKQY 89
Query: 274 NNALIDDRRICVDFSQS 290
N +D R + + S
Sbjct: 90 NGVPLDGRPMNIQLVTS 106
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 30/54 (55%)
Query: 216 VCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQA 269
V L+ T + DL +F FG++ + +D TG+S +AF+ F +RE +A
Sbjct: 20 VTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARA 73
>pdb|2F3J|A Chain A, The Solution Structure Of The Ref2-I Mrna Export Factor
(Residues 1-155)
Length = 177
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 39/78 (50%), Gaps = 3/78 (3%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDY-RTGESLCYAFVEFEKREACEQAYFK 272
L V L+ D D+ +F++FGT+ A + DY R+G SL A V FE+R +A +
Sbjct: 91 LLVSNLDFGVSDADIQELFAEFGTLKKAAV--DYDRSGRSLGTADVHFERRADALKAMKQ 148
Query: 273 MNNALIDDRRICVDFSQS 290
+D R + + S
Sbjct: 149 YKGVPLDGRPMDIQLVAS 166
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 37/77 (48%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKM 273
+FV + +E L IFS+ G VVS ++ D TG+ Y F E++ +E A +
Sbjct: 11 VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 70
Query: 274 NNALIDDRRICVDFSQS 290
N R + VD + S
Sbjct: 71 NGREFSGRALRVDNAAS 87
>pdb|3ULH|A Chain A, Crystal Structure Of A Rna Binding Domain Of Tho Complex
Subunit 4 Protein (Thoc4) From Homo Sapiens At 2.54 A
Resolution
Length = 107
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 36/68 (52%), Gaps = 1/68 (1%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKM 273
L V L+ D D+ +F++FGT+ A + D R+G SL A V FE++ +A +
Sbjct: 32 LLVSNLDFGVSDADIQELFAEFGTLKKAAVHYD-RSGRSLGTADVHFERKADALKAXKQY 90
Query: 274 NNALIDDR 281
N +D R
Sbjct: 91 NGVPLDGR 98
>pdb|2XB2|D Chain D, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
pdb|2XB2|Z Chain Z, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
Length = 90
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 39/75 (52%)
Query: 213 VLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFK 272
+LFV ++ +ED+H F+++G + + + D RTG Y VE+E + + A
Sbjct: 9 ILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEG 68
Query: 273 MNNALIDDRRICVDF 287
+N + + I VD+
Sbjct: 69 LNGQDLMGQPISVDW 83
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 40/79 (50%), Gaps = 1/79 (1%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKM 273
LF+ LN T ++ L +F + G + +++D RT +S +AF+ FE + A M
Sbjct: 10 LFIGGLNRETNEKMLKAVFGKHGPISEVLLIKD-RTSKSRGFAFITFENPADAKNAAKDM 68
Query: 274 NNALIDDRRICVDFSQSVS 292
N + + I V+ ++ S
Sbjct: 69 NGKSLHGKAIKVEQAKKPS 87
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 39/75 (52%)
Query: 213 VLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFK 272
+LFV ++ +ED+H F+++G + + + D RTG Y VE+E + + A
Sbjct: 9 ILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEG 68
Query: 273 MNNALIDDRRICVDF 287
+N + + I VD+
Sbjct: 69 LNGQDLMGQPISVDW 83
>pdb|2OSE|A Chain A, Crystal Structure Of The Mimivirus Cyclophilin
Length = 234
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 43/167 (25%), Positives = 62/167 (37%), Gaps = 33/167 (19%)
Query: 3 VLIETSLGDIVIDLFVDKCPRTTNNFLQHCK--------------------NKYYNGCLF 42
VL +G + I LF D P NF+Q N+ Y GC F
Sbjct: 22 VLNNEIIGRLQIKLFRDAFPAGVENFVQLTNGKTYRVNSNGTGKYKYNRHINRTYEGCKF 81
Query: 43 HNI-HKDFIAQXXXXXXXXXXXRSVYEDRFFVDEIRADL--KHDKVGTVGMAS----AGR 95
HN+ H ++I +VY D + + D H+ G + + +G
Sbjct: 82 HNVLHNNYIVSGDIYNSNGSSAGTVYCDEP-IPPVFGDYFYPHESKGLLSLVPYTDESGN 140
Query: 96 DLNASQFYITLRD-----NLHYLDEKHTIFGEVAEGLETLTRINQAV 137
S F ITL D L LD + G+V GL+ L +IN +
Sbjct: 141 RYYDSTFMITLDDIRPSNVLDELDRDQVVIGQVYGGLDVLDKINSMI 187
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 39.7 bits (91), Expect = 0.002, Method: Composition-based stats.
Identities = 22/77 (28%), Positives = 40/77 (51%)
Query: 207 VKPPDNVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREAC 266
+ P + ++V L + DL+ IFS++G VV I++D T +S AF+ F +++
Sbjct: 12 LAPSKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSA 71
Query: 267 EQAYFKMNNALIDDRRI 283
+ +NN + R I
Sbjct: 72 QNCTRAINNKQLFGRVI 88
>pdb|2J0Q|D Chain D, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
pdb|2J0Q|G Chain G, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
Length = 109
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 39/75 (52%)
Query: 213 VLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFK 272
+LFV ++ +ED+H F+++G + + + D RTG Y VE+E + + A
Sbjct: 9 ILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEG 68
Query: 273 MNNALIDDRRICVDF 287
+N + + I VD+
Sbjct: 69 LNGQDLMGQPISVDW 83
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 35/63 (55%), Gaps = 2/63 (3%)
Query: 224 EDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKMNNALIDDRRI 283
D DL +F QFG ++ EI+ + R S + FV FE ++A K++ +++ R+I
Sbjct: 42 RDPDLRQMFGQFGKILDVEIIFNERG--SKGFGFVTFENSADADRAREKLHGTVVEGRKI 99
Query: 284 CVD 286
V+
Sbjct: 100 EVN 102
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 35/63 (55%), Gaps = 2/63 (3%)
Query: 224 EDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKMNNALIDDRRI 283
D DL +F QFG ++ EI+ + R S + FV FE ++A K++ +++ R+I
Sbjct: 28 RDPDLRQMFGQFGKILDVEIIFNERG--SKGFGFVTFENSADADRAREKLHGTVVEGRKI 85
Query: 284 CVD 286
V+
Sbjct: 86 EVN 88
>pdb|1HD0|A Chain A, Heterogeneous Nuclear Ribonucleoprotein D0 (Hnrnp D0
Rbd1), Nmr
pdb|1HD1|A Chain A, Heterogeneous Nuclear Ribonucleoprotein D0 (Hnrnp D0
Rbd1), Nmr
Length = 75
Score = 39.3 bits (90), Expect = 0.003, Method: Composition-based stats.
Identities = 25/73 (34%), Positives = 39/73 (53%), Gaps = 4/73 (5%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREAC----EQA 269
+F+ L+ T +DL FS+FG VV + D TG S + FV F++ E+ +Q
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQK 61
Query: 270 YFKMNNALIDDRR 282
K+N +ID +R
Sbjct: 62 EHKLNGKVIDPKR 74
>pdb|3VAF|A Chain A, Structure Of U2af65 Variant With Bru3 Dna
pdb|3VAF|B Chain B, Structure Of U2af65 Variant With Bru3 Dna
pdb|3VAG|A Chain A, Structure Of U2af65 Variant With Bru3c2 Dna
pdb|3VAG|B Chain B, Structure Of U2af65 Variant With Bru3c2 Dna
pdb|3VAH|A Chain A, Structure Of U2af65 Variant With Bru3c4 Dna
pdb|3VAH|B Chain B, Structure Of U2af65 Variant With Bru3c4 Dna
pdb|3VAI|A Chain A, Structure Of U2af65 Variant With Bru3c5 Dna
pdb|3VAI|B Chain B, Structure Of U2af65 Variant With Bru3c5 Dna
pdb|3VAJ|A Chain A, Structure Of U2af65 Variant With Bru5c6 Dna
pdb|3VAJ|B Chain B, Structure Of U2af65 Variant With Bru5c6 Dna
pdb|3VAK|A Chain A, Structure Of U2af65 Variant With Bru5 Dna
pdb|3VAK|B Chain B, Structure Of U2af65 Variant With Bru5 Dna
pdb|3VAL|A Chain A, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|B Chain B, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|D Chain D, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|I Chain I, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAM|A Chain A, Structure Of U2af65 Variant With Bru5c2 Dna
pdb|3VAM|B Chain B, Structure Of U2af65 Variant With Bru5c2 Dna
Length = 174
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 38/77 (49%)
Query: 209 PPDNVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQ 268
P + LF+ L D+ + + + FG + + +++D TG S YAF E+ +Q
Sbjct: 94 PGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQ 153
Query: 269 AYFKMNNALIDDRRICV 285
A +N + D+++ V
Sbjct: 154 AIAGLNGMQLGDKKLLV 170
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 39.3 bits (90), Expect = 0.003, Method: Composition-based stats.
Identities = 23/83 (27%), Positives = 42/83 (50%), Gaps = 3/83 (3%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGE---SLCYAFVEFEKREACEQAY 270
LF+ LN T +E L +FS+ G + S I + S+ + FVE++K E ++A
Sbjct: 8 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKAL 67
Query: 271 FKMNNALIDDRRICVDFSQSVSK 293
++ +D ++ V S+ +K
Sbjct: 68 KQLQGHTVDGHKLEVRISERATK 90
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 38/77 (49%)
Query: 209 PPDNVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQ 268
P + LF+ L D+ + + + FG + + +++D TG S YAF E+ +Q
Sbjct: 92 PGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQ 151
Query: 269 AYFKMNNALIDDRRICV 285
A +N + D+++ V
Sbjct: 152 AIAGLNGMQLGDKKLLV 168
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 33/68 (48%), Gaps = 2/68 (2%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKM 273
L V L T ++DL FS FG V+ ++ +D +TG S + FV F + E Q
Sbjct: 18 LIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYET--QVKVMS 75
Query: 274 NNALIDDR 281
+ID R
Sbjct: 76 QRHMIDGR 83
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 39/77 (50%), Gaps = 8/77 (10%)
Query: 213 VLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFK 272
VLFV L +E L FSQFG + + L+D YAF+ F++R+ +A +
Sbjct: 13 VLFVRNLANTVTEEILEKAFSQFGKLERVKKLKD--------YAFIHFDERDGAVKAMEE 64
Query: 273 MNNALIDDRRICVDFSQ 289
MN ++ I + F++
Sbjct: 65 MNGKDLEGENIEIVFAK 81
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 39/75 (52%)
Query: 213 VLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFK 272
+LFV ++ +++++ F +G + + + D RTG S YA VE+E + A
Sbjct: 28 ILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEA 87
Query: 273 MNNALIDDRRICVDF 287
+N A I + I VD+
Sbjct: 88 LNGAEIMGQTIQVDW 102
>pdb|1HL6|A Chain A, A Novel Mode Of Rbd-Protein Recognition In The Y14-Mago
Complex
pdb|1HL6|C Chain C, A Novel Mode Of Rbd-Protein Recognition In The Y14-Mago
Complex
pdb|1RK8|A Chain A, Structure Of The Cytosolic Protein Pym Bound To The Mago-
Y14 Core Of The Exon Junction Complex
pdb|2X1G|A Chain A, Crystal Structure Of Importin13 - Mago-Y14 Complex
pdb|2X1G|C Chain C, Crystal Structure Of Importin13 - Mago-Y14 Complex
Length = 165
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 39/75 (52%)
Query: 213 VLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFK 272
+LFV ++ +++++ F +G + + + D RTG S YA VE+E + A
Sbjct: 74 ILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEA 133
Query: 273 MNNALIDDRRICVDF 287
+N A I + I VD+
Sbjct: 134 LNGAEIMGQTIQVDW 148
>pdb|2KT5|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hsv-1
Icp27 Peptide
Length = 124
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 36/69 (52%), Gaps = 3/69 (4%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDY-RTGESLCYAFVEFEKREACEQAYFK 272
L V L+ D D+ +F++FGT+ A + DY R+G SL A V FE+R +A +
Sbjct: 38 LLVSNLDFGVSDADIQELFAEFGTLKKAAV--DYDRSGRSLGTADVHFERRADALKAMKQ 95
Query: 273 MNNALIDDR 281
+D R
Sbjct: 96 YKGVPLDGR 104
>pdb|2YH0|A Chain A, Solution Structure Of The Closed Conformation Of Human
U2af65 Tandem Rrm1 And Rrm2 Domains
pdb|2YH1|A Chain A, Model Of Human U2af65 Tandem Rrm1 And Rrm2 Domains With
Eight-Site Uridine Binding
Length = 198
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 39/78 (50%), Gaps = 2/78 (2%)
Query: 210 PDNV--LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACE 267
PD+ LF+ L D+ + + + FG + + +++D TG S YAF E+ +
Sbjct: 111 PDSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTD 170
Query: 268 QAYFKMNNALIDDRRICV 285
QA +N + D+++ V
Sbjct: 171 QAIAGLNGMQLGDKKLLV 188
>pdb|2YKA|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hvs
Orf57 Peptide
Length = 124
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 36/69 (52%), Gaps = 3/69 (4%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDY-RTGESLCYAFVEFEKREACEQAYFK 272
L V L+ D D+ +F++FGT+ A + DY R+G SL A V FE+R +A +
Sbjct: 38 LLVSNLDFGVSDADIQELFAEFGTLKKAAV--DYDRSGRSLGTADVHFERRADALKAMKQ 95
Query: 273 MNNALIDDR 281
+D R
Sbjct: 96 YKGVPLDGR 104
>pdb|2DGT|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Rna- Binding Protein 30
Length = 92
Score = 38.1 bits (87), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 38/77 (49%), Gaps = 8/77 (10%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKM 273
L V ++P +++L F ++G V+ +I++D YAFV E+ E +A +
Sbjct: 13 LHVGNISPTCTNQELRAKFEEYGPVIECDIVKD--------YAFVHMERAEDAVEAIRGL 64
Query: 274 NNALIDDRRICVDFSQS 290
+N +R+ V S S
Sbjct: 65 DNTEFQGKRMHVQLSTS 81
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 38.1 bits (87), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 36/73 (49%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKM 273
L+V L+ ++ L IF FG + S +++ D TG S Y F+ F E ++A ++
Sbjct: 29 LYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQL 88
Query: 274 NNALIDDRRICVD 286
N + R + V
Sbjct: 89 NGFELAGRPMKVG 101
>pdb|2DK2|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleoprotein R (Hnrnp R)
Length = 97
Score = 38.1 bits (87), Expect = 0.006, Method: Composition-based stats.
Identities = 27/75 (36%), Positives = 35/75 (46%), Gaps = 8/75 (10%)
Query: 200 GDIPDADVKPPDNVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVE 259
G D +V VLFV L +E L FS+FG + + L+D YAFV
Sbjct: 4 GSSGDPEVMAKVKVLFVRNLATTVTEEILEKSFSEFGKLERVKKLKD--------YAFVH 55
Query: 260 FEKREACEQAYFKMN 274
FE R A +A +MN
Sbjct: 56 FEDRGAAVKAMDEMN 70
>pdb|2CPX|A Chain A, Solution Structure Of Rna Binding Domain In Hypothetical
Protein Flj11016
Length = 115
Score = 38.1 bits (87), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 20/81 (24%), Positives = 38/81 (46%)
Query: 210 PDNVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQA 269
P+ VL++ L+P + DL +F++F I TG AF+ F +E QA
Sbjct: 24 PNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQA 83
Query: 270 YFKMNNALIDDRRICVDFSQS 290
+N + + + ++F ++
Sbjct: 84 LHLVNGYKLYGKILVIEFGKN 104
>pdb|2HYI|B Chain B, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|2HYI|H Chain H, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
Length = 91
Score = 37.7 bits (86), Expect = 0.007, Method: Composition-based stats.
Identities = 21/75 (28%), Positives = 39/75 (52%)
Query: 213 VLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFK 272
+LFV ++ +ED+H F+++G + + + D RTG Y VE+E + + A
Sbjct: 11 ILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEG 70
Query: 273 MNNALIDDRRICVDF 287
+N + + I VD+
Sbjct: 71 LNGQDLMGQPISVDW 85
>pdb|2KM8|B Chain B, Interdomain Rrm Packing Contributes To Rna Recognition In
The Rna15, Hrp1, Anchor Rna 3' Processing Ternary
Complex
Length = 84
Score = 37.7 bits (86), Expect = 0.008, Method: Composition-based stats.
Identities = 21/82 (25%), Positives = 41/82 (50%)
Query: 209 PPDNVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQ 268
PP V+++ + +E + + S G V++ +++ D +TG S YAF+EF E+
Sbjct: 2 PPSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSAS 61
Query: 269 AYFKMNNALIDDRRICVDFSQS 290
A +N + R + +S +
Sbjct: 62 AVRNLNGYQLGSRFLKCGYSSN 83
>pdb|1X5O|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 1
Length = 114
Score = 37.4 bits (85), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 31/69 (44%), Gaps = 2/69 (2%)
Query: 210 PDNVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQA 269
P N L++ L ++++L + FG V+S ILRD +G S F E E CE
Sbjct: 25 PTN-LYISNLPLSMDEQELENMLKPFGQVISTRILRD-SSGTSRGVGFARMESTEKCEAV 82
Query: 270 YFKMNNALI 278
N I
Sbjct: 83 IGHFNGKFI 91
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 37.4 bits (85), Expect = 0.010, Method: Composition-based stats.
Identities = 18/56 (32%), Positives = 31/56 (55%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQA 269
L++ L P T D+DL + +G +VS + + D T + Y FV+F+ A ++A
Sbjct: 8 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKA 63
>pdb|2XS2|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Rna, Uuguucuu
Length = 102
Score = 36.6 bits (83), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 34/60 (56%), Gaps = 3/60 (5%)
Query: 201 DIPDADVKPPDNVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEF 260
+P+ + P N +FV ++ ++ ++ F+++G+V +I+ D RTG S Y FV F
Sbjct: 1 SLPEGKIMP--NTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSF 57
>pdb|3H2U|B Chain B, Human Raver1 Rrm1, Rrm2, And Rrm3 Domains In Complex With
Human Vinculin Tail Domain Vt
pdb|3H2U|D Chain D, Human Raver1 Rrm1, Rrm2, And Rrm3 Domains In Complex With
Human Vinculin Tail Domain Vt
Length = 283
Score = 36.6 bits (83), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 19/82 (23%), Positives = 39/82 (47%)
Query: 207 VKPPDNVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREAC 266
++P D +L V L P + + FG++ ++ RTG+S Y F E+ K+++
Sbjct: 89 LQPTDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSA 148
Query: 267 EQAYFKMNNALIDDRRICVDFS 288
+A + + R + V ++
Sbjct: 149 ARAKSDLLGKPLGPRTLYVHWT 170
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 36.6 bits (83), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 19/82 (23%), Positives = 39/82 (47%)
Query: 207 VKPPDNVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREAC 266
++P D +L V L P + + FG++ ++ RTG+S Y F E+ K+++
Sbjct: 91 LQPTDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSA 150
Query: 267 EQAYFKMNNALIDDRRICVDFS 288
+A + + R + V ++
Sbjct: 151 ARAKSDLLGKPLGPRTLYVHWT 172
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 36.6 bits (83), Expect = 0.020, Method: Composition-based stats.
Identities = 20/71 (28%), Positives = 37/71 (52%), Gaps = 1/71 (1%)
Query: 222 VTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKMNNALIDDR 281
+T+DE +F G + S +++RD TG+SL Y FV + ++A +N + +
Sbjct: 16 MTQDE-FKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTLNGLKLQTK 74
Query: 282 RICVDFSQSVS 292
I V +++ S
Sbjct: 75 TIKVSYARPSS 85
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 36.2 bits (82), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 19/82 (23%), Positives = 39/82 (47%)
Query: 207 VKPPDNVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREAC 266
++P D +L V L P + + FG++ ++ RTG+S Y F E+ K+++
Sbjct: 91 LQPTDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSA 150
Query: 267 EQAYFKMNNALIDDRRICVDFS 288
+A + + R + V ++
Sbjct: 151 ARAKSDLLGKPLGPRTLYVHWT 172
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 36.2 bits (82), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 39/77 (50%), Gaps = 3/77 (3%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKM 273
++V L P +D+ +F ++G + + L++ R G +AFVEFE E A +
Sbjct: 25 IYVGNLPPDIRTKDIEDVFYKYGAIRDID-LKNRRGGPP--FAFVEFEDPRDAEDAVYGR 81
Query: 274 NNALIDDRRICVDFSQS 290
+ D R+ V+F +S
Sbjct: 82 DGYDYDGYRLRVEFPRS 98
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In Rna-Binding
Protein 14
Length = 90
Score = 36.2 bits (82), Expect = 0.024, Method: Composition-based stats.
Identities = 20/80 (25%), Positives = 38/80 (47%), Gaps = 8/80 (10%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKM 273
+FV ++ ++L +F + G V+ ++++DY AFV EK + A ++
Sbjct: 12 IFVGNVSAACTSQELRSLFERRGRVIECDVVKDY--------AFVHMEKEADAKAAIAQL 63
Query: 274 NNALIDDRRICVDFSQSVSK 293
N + +RI V+ S K
Sbjct: 64 NGKEVKGKRINVELSTKGQK 83
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 36.2 bits (82), Expect = 0.025, Method: Composition-based stats.
Identities = 22/73 (30%), Positives = 37/73 (50%), Gaps = 4/73 (5%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKRE----ACEQA 269
+FV L+ T ED+ F QFG V A ++ D T + FV FE + CE
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIH 61
Query: 270 YFKMNNALIDDRR 282
+ ++NN +++ ++
Sbjct: 62 FHEINNKMVECKK 74
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 35.8 bits (81), Expect = 0.028, Method: Composition-based stats.
Identities = 19/72 (26%), Positives = 36/72 (50%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKM 273
LF+ L D+ + + + FG + + +++D TG S YAF E+ +QA +
Sbjct: 4 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 63
Query: 274 NNALIDDRRICV 285
N + D+++ V
Sbjct: 64 NGMQLGDKKLLV 75
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 35.8 bits (81), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 32/64 (50%), Gaps = 2/64 (3%)
Query: 208 KPPDNV--LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREA 265
K P+ + LF+ L+ T DE L F Q+GT+ ++RD T S + FV + E
Sbjct: 8 KEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEE 67
Query: 266 CEQA 269
+ A
Sbjct: 68 VDAA 71
Score = 34.7 bits (78), Expect = 0.065, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 33/66 (50%), Gaps = 4/66 (6%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACE----QA 269
+FV + TE+ L F Q+G + EI+ D +G+ +AFV F+ ++ + Q
Sbjct: 107 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQK 166
Query: 270 YFKMNN 275
Y +N
Sbjct: 167 YHTVNG 172
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 35.8 bits (81), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 40/81 (49%), Gaps = 6/81 (7%)
Query: 208 KPPDNV--LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREA 265
K P+ + LF+ L+ T DE L F Q+GT+ ++RD T S + FV + E
Sbjct: 6 KEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEE 65
Query: 266 CEQAY----FKMNNALIDDRR 282
+ A K++ +++ +R
Sbjct: 66 VDAAMNARPHKVDGRVVEPKR 86
Score = 34.7 bits (78), Expect = 0.065, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 33/66 (50%), Gaps = 4/66 (6%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACE----QA 269
+FV + TE+ L F Q+G + EI+ D +G+ +AFV F+ ++ + Q
Sbjct: 105 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQK 164
Query: 270 YFKMNN 275
Y +N
Sbjct: 165 YHTVNG 170
>pdb|2DO0|A Chain A, Solution Structure Of The Rna Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein M
Length = 114
Score = 35.8 bits (81), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 36/74 (48%), Gaps = 1/74 (1%)
Query: 212 NVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYF 271
+ +FV L+ + L +FS G VV A+IL D + G+S V FE+ QA
Sbjct: 16 STVFVANLDYKVGWKKLKEVFSMAGVVVRADILED-KDGKSRGIGTVTFEQSIEAVQAIS 74
Query: 272 KMNNALIDDRRICV 285
N L+ DR + V
Sbjct: 75 MFNGQLLFDRPMHV 88
>pdb|1PGZ|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggttag(6-Mi)
G); A Human Telomeric Repeat Containing 6-Methyl-8-(2-
Deoxy-Beta-Ribofuranosyl)isoxanthopteridine (6-Mi)
Length = 195
Score = 35.8 bits (81), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 40/81 (49%), Gaps = 6/81 (7%)
Query: 208 KPPDNV--LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREA 265
K P+ + LF+ L+ T DE L F Q+GT+ ++RD T S + FV + E
Sbjct: 7 KEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEE 66
Query: 266 CEQAY----FKMNNALIDDRR 282
+ A K++ +++ +R
Sbjct: 67 VDAAMNARPHKVDGRVVEPKR 87
Score = 34.7 bits (78), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 33/66 (50%), Gaps = 4/66 (6%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACE----QA 269
+FV + TE+ L F Q+G + EI+ D +G+ +AFV F+ ++ + Q
Sbjct: 106 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQK 165
Query: 270 YFKMNN 275
Y +N
Sbjct: 166 YHTVNG 171
>pdb|1L3K|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
pdb|1U1K|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtt 7da
Ggg); A Human Telomeric Repeat Containing
7-Deaza-Adenine
pdb|1U1L|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtt Prn
Ggg); A Human Telomeric Repeat Containing Nebularine
pdb|1U1M|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtta 7gu
Gg); A Human Telomeric Repeat Containing 7-Deaza-Guanine
pdb|1U1N|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtta (Prn)
Gg); A Human Telomeric Repeat Containing Nebularine
pdb|1U1O|A Chain A, Crystal Structure Of Up1 Complexed With
D(Ttagggttag(Di)g); A Human Telomeric Repeat Containing
Inosine
pdb|1U1P|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtta 2pr
Gg); A Human Telomeric Repeat Containing 2-Aminopurine
pdb|1U1Q|A Chain A, Crystal Structure Of Up1 Complexed With
D(Ttagggtta(Di)gg); A Human Telomeric Repeat Containing
Inosine
pdb|1U1R|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggttag(2pr)
G); A Human Telomeric Repeat Containing 2-Aminopurine
Length = 196
Score = 35.8 bits (81), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 32/64 (50%), Gaps = 2/64 (3%)
Query: 208 KPPDNV--LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREA 265
K P+ + LF+ L+ T DE L F Q+GT+ ++RD T S + FV + E
Sbjct: 8 KEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEE 67
Query: 266 CEQA 269
+ A
Sbjct: 68 VDAA 71
Score = 34.7 bits (78), Expect = 0.069, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 33/66 (50%), Gaps = 4/66 (6%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACE----QA 269
+FV + TE+ L F Q+G + EI+ D +G+ +AFV F+ ++ + Q
Sbjct: 107 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQK 166
Query: 270 YFKMNN 275
Y +N
Sbjct: 167 YHTVNG 172
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 35.8 bits (81), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 32/64 (50%), Gaps = 2/64 (3%)
Query: 208 KPPDNV--LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREA 265
K P+ + LF+ L+ T DE L F Q+GT+ ++RD T S + FV + E
Sbjct: 9 KEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEE 68
Query: 266 CEQA 269
+ A
Sbjct: 69 VDAA 72
Score = 34.7 bits (78), Expect = 0.067, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 33/66 (50%), Gaps = 4/66 (6%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACE----QA 269
+FV + TE+ L F Q+G + EI+ D +G+ +AFV F+ ++ + Q
Sbjct: 108 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQK 167
Query: 270 YFKMNN 275
Y +N
Sbjct: 168 YHTVNG 173
>pdb|2UP1|A Chain A, Structure Of Up1-Telomeric Dna Complex
pdb|1PO6|A Chain A, Crystal Structure Of Up1 Complexed With
D(Tagg(6mi)ttaggg): A Human Telomeric Repeat Containing
6-Methyl-8-(2-Deoxy-
Beta-Ribofuranosyl)isoxanthopteridine (6mi)
Length = 183
Score = 35.8 bits (81), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 32/64 (50%), Gaps = 2/64 (3%)
Query: 208 KPPDNV--LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREA 265
K P+ + LF+ L+ T DE L F Q+GT+ ++RD T S + FV + E
Sbjct: 1 KEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEE 60
Query: 266 CEQA 269
+ A
Sbjct: 61 VDAA 64
Score = 34.7 bits (78), Expect = 0.074, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 33/66 (50%), Gaps = 4/66 (6%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACE----QA 269
+FV + TE+ L F Q+G + EI+ D +G+ +AFV F+ ++ + Q
Sbjct: 100 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQK 159
Query: 270 YFKMNN 275
Y +N
Sbjct: 160 YHTVNG 165
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 35.4 bits (80), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 22/57 (38%), Positives = 29/57 (50%), Gaps = 1/57 (1%)
Query: 213 VLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQA 269
L V L+PV +E L FSQFG V A ++ D R G + FVEF + +A
Sbjct: 98 ALTVKNLSPVVSNELLEQAFSQFGPVEKAVVVVDDR-GRATGKGFVEFAAKPPARKA 153
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 35.4 bits (80), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 31/66 (46%), Gaps = 1/66 (1%)
Query: 211 DNVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAY 270
D LF+ ++ + D+ V+FS FG + ILR G S AFV F R + A
Sbjct: 107 DRKLFIGMISKKCTENDIRVMFSSFGQIEECRILRG-PDGLSRGCAFVTFTTRAMAQTAI 165
Query: 271 FKMNNA 276
M+ A
Sbjct: 166 KAMHQA 171
Score = 33.1 bits (74), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 36/77 (46%), Gaps = 6/77 (7%)
Query: 201 DIPDADVKPPDNVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTG--ESLCYAFV 258
D PD D +FV Q+ ++DL +F Q+G V +LRD +S FV
Sbjct: 9 DQPDLDAIK----MFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFV 64
Query: 259 EFEKREACEQAYFKMNN 275
F R+A +A ++N
Sbjct: 65 TFYTRKAALEAQNALHN 81
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 35.0 bits (79), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 31/66 (46%), Gaps = 1/66 (1%)
Query: 211 DNVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAY 270
D LF+ ++ + D+ V+FS FG + ILR G S AFV F R + A
Sbjct: 95 DRKLFIGMISKKCTENDIRVMFSSFGQIEECRILRG-PDGLSRGCAFVTFTTRAMAQTAI 153
Query: 271 FKMNNA 276
M+ A
Sbjct: 154 KAMHQA 159
Score = 32.3 bits (72), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 32/64 (50%), Gaps = 2/64 (3%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTG--ESLCYAFVEFEKREACEQAYF 271
+FV Q+ ++DL +F Q+G V +LRD +S FV F R+A +A
Sbjct: 6 MFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQN 65
Query: 272 KMNN 275
++N
Sbjct: 66 ALHN 69
>pdb|2X1A|A Chain A, Structure Of Rna15 Rrm With Rna Bound (G)
pdb|2X1B|A Chain A, Structure Of Rna15 Rrm
Length = 97
Score = 35.0 bits (79), Expect = 0.056, Method: Composition-based stats.
Identities = 20/81 (24%), Positives = 40/81 (49%)
Query: 210 PDNVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQA 269
P V+++ + +E + + S G V++ +++ D +TG S YAF+EF E+ A
Sbjct: 2 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASA 61
Query: 270 YFKMNNALIDDRRICVDFSQS 290
+N + R + +S +
Sbjct: 62 VRNLNGYQLGSRFLKCGYSSN 82
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 34.7 bits (78), Expect = 0.062, Method: Composition-based stats.
Identities = 20/81 (24%), Positives = 40/81 (49%)
Query: 210 PDNVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQA 269
P V+++ + +E + + S G V++ +++ D +TG S YAF+EF E+ A
Sbjct: 1 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASA 60
Query: 270 YFKMNNALIDDRRICVDFSQS 290
+N + R + +S +
Sbjct: 61 VRNLNGYQLGSRFLKCGYSSN 81
>pdb|2XS5|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Mvh Rna, Uguuc
pdb|2XS5|B Chain B, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Mvh Rna, Uguuc
pdb|2XS7|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Sycp3 Rna, Uuguuu
Length = 87
Score = 34.7 bits (78), Expect = 0.065, Method: Composition-based stats.
Identities = 18/59 (30%), Positives = 34/59 (57%), Gaps = 3/59 (5%)
Query: 202 IPDADVKPPDNVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEF 260
+P+ + P N +FV ++ ++ ++ F+++G+V +I+ D RTG S Y FV F
Sbjct: 2 LPEGKIMP--NTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSF 57
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 34.3 bits (77), Expect = 0.077, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 32/56 (57%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQA 269
LF+ Q+ +++DL +F +FG + +L+D TG AF+ + +RE+ +A
Sbjct: 16 LFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKA 71
>pdb|1H2T|Z Chain Z, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2U|X Chain X, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2U|Y Chain Y, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2V|Z Chain Z, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
pdb|1N52|B Chain B, Cap Binding Complex
pdb|1N54|B Chain B, Cap Binding Complex M7gpppg Free
pdb|3FEX|B Chain B, Crystal Structure Of The Cbc-Importin Alpha Complex.
pdb|3FEY|B Chain B, Crystal Structure Of The Cbc-Importin Alpha Complex
Length = 156
Score = 34.3 bits (77), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 36/75 (48%)
Query: 213 VLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFK 272
L+V L+ T +E ++ +FS+ G + + D + + FVE+ R E A
Sbjct: 41 TLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRY 100
Query: 273 MNNALIDDRRICVDF 287
+N +DDR I D+
Sbjct: 101 INGTRLDDRIIRTDW 115
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 34.3 bits (77), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 40/83 (48%)
Query: 211 DNVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAY 270
D ++V L+ + L +F Q G VV+ + +D TG+ Y FVEF E + A
Sbjct: 15 DATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAI 74
Query: 271 FKMNNALIDDRRICVDFSQSVSK 293
M+ + + I V+ + + +K
Sbjct: 75 KIMDMIKLYGKPIRVNKASAHNK 97
>pdb|2ADC|A Chain A, Solution Structure Of Polypyrimidine Tract Binding Protein
Rbd34 Complexed With Cucucu Rna
pdb|2EVZ|A Chain A, Structure Of Rna Binding Domains 3 And 4 Of Polypyrimidine
Tract Binding Protein
Length = 229
Score = 34.3 bits (77), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 41/87 (47%), Gaps = 5/87 (5%)
Query: 206 DVKPPDNVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREA 265
++ PP L + + P +EDL V+FS G VV + ++ + A ++ E
Sbjct: 146 NIFPPSATLHLSNIPPSVSEEDLKVLFSSNGGVVKG--FKFFQKDRKM--ALIQMGSVEE 201
Query: 266 CEQAYFKMNNA-LIDDRRICVDFSQSV 291
QA ++N L ++ + V FS+S
Sbjct: 202 AVQALIDLHNHDLGENHHLRVSFSKST 228
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 34.3 bits (77), Expect = 0.086, Method: Composition-based stats.
Identities = 18/53 (33%), Positives = 28/53 (52%), Gaps = 1/53 (1%)
Query: 222 VTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKMN 274
+TED L IF FG + + +++D TG S Y F+ F E +A ++N
Sbjct: 17 ITEDM-LRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQLN 68
>pdb|1QM9|A Chain A, Nmr, Representative Structure
Length = 198
Score = 33.9 bits (76), Expect = 0.100, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 41/87 (47%), Gaps = 5/87 (5%)
Query: 206 DVKPPDNVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREA 265
++ PP L + + P +EDL V+FS G VV + ++ + A ++ E
Sbjct: 115 NIFPPSATLHLSNIPPSVSEEDLKVLFSSNGGVVKG--FKFFQKDRKM--ALIQMGSVEE 170
Query: 266 CEQAYFKMNNA-LIDDRRICVDFSQSV 291
QA ++N L ++ + V FS+S
Sbjct: 171 AVQALIDLHNHDLGENHHLRVSFSKST 197
>pdb|3BS9|A Chain A, X-Ray Structure Of Human Tia-1 Rrm2
pdb|3BS9|B Chain B, X-Ray Structure Of Human Tia-1 Rrm2
Length = 87
Score = 33.9 bits (76), Expect = 0.10, Method: Composition-based stats.
Identities = 21/70 (30%), Positives = 34/70 (48%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKM 273
+FV L+P + F+ FG + A +++D TG+S Y FV F + E A +M
Sbjct: 9 VFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 68
Query: 274 NNALIDDRRI 283
+ R+I
Sbjct: 69 GGQWLGGRQI 78
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In Trinucleotide
Repeat Containing 4 Variant
Length = 102
Score = 33.9 bits (76), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 32/66 (48%), Gaps = 1/66 (1%)
Query: 211 DNVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAY 270
D LFV L DED+ +F FGT+ +LR G S AFV+F+ + A
Sbjct: 12 DRKLFVGMLGKQQTDEDVRKMFEPFGTIDECTVLRGP-DGTSKGCAFVKFQTHAEAQAAI 70
Query: 271 FKMNNA 276
++++
Sbjct: 71 NTLHSS 76
>pdb|2DIV|A Chain A, Solution Structure Of The Rrm Domain Of Trna
Selenocysteine Associated Protein
Length = 99
Score = 33.9 bits (76), Expect = 0.12, Method: Composition-based stats.
Identities = 20/62 (32%), Positives = 32/62 (51%), Gaps = 1/62 (1%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFG-TVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFK 272
L++ L P ++ + F+ G TV+S +I+R+ TG Y FVEF E+ K
Sbjct: 12 LWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCLHK 71
Query: 273 MN 274
+N
Sbjct: 72 IN 73
>pdb|2DO4|A Chain A, Solution Structure Of The Rna Binding Domain Of Squamous
Cell Carcinoma Antigen Recognized By T Cells 3
Length = 100
Score = 33.9 bits (76), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 34/77 (44%), Gaps = 1/77 (1%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKM 273
LF+ L E+L I GTV ++ + R G+ A+VE+E QA KM
Sbjct: 20 LFISGLPFSCTKEELEEICKAHGTVKDLRLVTN-RAGKPKGLAYVEYENESQASQAVMKM 78
Query: 274 NNALIDDRRICVDFSQS 290
+ I + I V S S
Sbjct: 79 DGMTIKENIIKVAISNS 95
>pdb|3S7R|A Chain A, Crystal Structure Of A Heterogeneous Nuclear
Ribonucleoprotein AB (Hnrpab) From Homo Sapiens At 2.15
A Resolution
pdb|3S7R|B Chain B, Crystal Structure Of A Heterogeneous Nuclear
Ribonucleoprotein AB (Hnrpab) From Homo Sapiens At 2.15
A Resolution
Length = 87
Score = 33.9 bits (76), Expect = 0.13, Method: Composition-based stats.
Identities = 22/72 (30%), Positives = 36/72 (50%), Gaps = 4/72 (5%)
Query: 215 FVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACE----QAY 270
FV L+ T +DL F++FG VV I D TG S + F+ F+ + E Q
Sbjct: 15 FVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASVEKVLDQKE 74
Query: 271 FKMNNALIDDRR 282
+++ +ID ++
Sbjct: 75 HRLDGRVIDPKK 86
>pdb|1WTB|A Chain A, Complex Structure Of The C-Terminal Rna-Binding Domain Of
Hnrnp D (Auf1) With Telomere Dna
pdb|1X0F|A Chain A, Complex Structure Of The C-Terminal Rna-Binding Domain Of
Hnrnp D(Auf1) With Telomeric Dna
Length = 79
Score = 33.5 bits (75), Expect = 0.14, Method: Composition-based stats.
Identities = 17/55 (30%), Positives = 30/55 (54%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQ 268
+FV L+P T +E + F FG V S E+ D +T + + F+ F++ E ++
Sbjct: 4 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKK 58
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 33.5 bits (75), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 31/56 (55%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQA 269
LFV Q+ +++DL +F +FG + +L+D TG AF+ + R++ +A
Sbjct: 18 LFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSALKA 73
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 33.5 bits (75), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 23/47 (48%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEF 260
+F+ L+ T E L F QFG V ++RD T S + FV F
Sbjct: 28 MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTF 74
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 33.5 bits (75), Expect = 0.16, Method: Composition-based stats.
Identities = 17/55 (30%), Positives = 30/55 (54%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQ 268
+FV L+P T +E + F FG V S E+ D +T + + F+ F++ E ++
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKK 56
>pdb|2DNQ|A Chain A, Solution Structure Of Rna Binding Domain 1 In Rna-Binding
Protein 30
Length = 90
Score = 33.1 bits (74), Expect = 0.18, Method: Composition-based stats.
Identities = 20/80 (25%), Positives = 40/80 (50%), Gaps = 8/80 (10%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKM 273
LF+ L ++++ +F Q+G V+ +I+++ Y FV E + A E A +
Sbjct: 11 LFIGNLPREATEQEIRSLFEQYGKVLECDIIKN--------YGFVHIEDKTAAEDAIRNL 62
Query: 274 NNALIDDRRICVDFSQSVSK 293
++ + I V+ S++ SK
Sbjct: 63 HHYKLHGVNINVEASKNKSK 82
>pdb|3NNH|A Chain A, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu Rna
pdb|3NNH|C Chain C, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu Rna
pdb|3NNH|B Chain B, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu Rna
pdb|3NNH|D Chain D, Crystal Structure Of The Cugbp1 Rrm1 With Guuguuuuguuu Rna
Length = 88
Score = 33.1 bits (74), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 32/64 (50%), Gaps = 2/64 (3%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTG--ESLCYAFVEFEKREACEQAYF 271
+FV Q+ ++DL +F Q+G V +LRD +S FV F R+A +A
Sbjct: 6 MFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQN 65
Query: 272 KMNN 275
++N
Sbjct: 66 ALHN 69
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 32.3 bits (72), Expect = 0.31, Method: Composition-based stats.
Identities = 16/49 (32%), Positives = 29/49 (59%), Gaps = 1/49 (2%)
Query: 212 NVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEF 260
N +FV ++ ++ ++ F+++G+V +I+ D RTG S Y FV F
Sbjct: 11 NTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSF 58
>pdb|3PGW|A Chain A, Crystal Structure Of Human U1 Snrnp
pdb|3PGW|P Chain P, Crystal Structure Of Human U1 Snrnp
Length = 282
Score = 32.3 bits (72), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 23/92 (25%), Positives = 45/92 (48%), Gaps = 7/92 (7%)
Query: 210 PDNVLFVCQLN-PVTEDE---DLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREA 265
P++ +++ LN + +DE L+ IFSQFG ++ + R + AFV F++ +
Sbjct: 8 PNHTIYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSRSLKM---RGQAFVIFKEVSS 64
Query: 266 CEQAYFKMNNALIDDRRICVDFSQSVSKIWKK 297
A M D+ + + ++++ S I K
Sbjct: 65 ATNALRSMQGFPFYDKPMRIQYAKTDSDIIAK 96
Score = 27.7 bits (60), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 23/88 (26%), Positives = 38/88 (43%), Gaps = 15/88 (17%)
Query: 200 GDIPDADV---KPPDNVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYA 256
G +P A PP+++LF+ L T + L ++F+QF ++ A
Sbjct: 193 GQMPPAQPLSENPPNHILFLTNLPEETNELMLSMLFNQFPGFKEVRLVPGRHD-----IA 247
Query: 257 FVEFEK-------REACEQAYFKMNNAL 277
FVEF+ R+A + NNA+
Sbjct: 248 FVEFDNEVQAGAARDALQGFKITQNNAM 275
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 32.3 bits (72), Expect = 0.34, Method: Composition-based stats.
Identities = 21/72 (29%), Positives = 37/72 (51%), Gaps = 1/72 (1%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKM 273
++V L E + +FSQFG V + +++ D T + + FVE ++ E+ +A K+
Sbjct: 4 IYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQE-ESVSEAIAKL 62
Query: 274 NNALIDDRRICV 285
+N R I V
Sbjct: 63 DNTDFMGRTIRV 74
>pdb|1H6K|Z Chain Z, Nuclear Cap Binding Complex
pdb|1H6K|X Chain X, Nuclear Cap Binding Complex
pdb|1H6K|Y Chain Y, Nuclear Cap Binding Complex
Length = 98
Score = 32.3 bits (72), Expect = 0.34, Method: Composition-based stats.
Identities = 22/75 (29%), Positives = 39/75 (52%), Gaps = 3/75 (4%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLC-YAFVEFEKREACEQAYFK 272
L+V L+ T +E ++ +FS+ G + +I+ ++ C + FVE+ R E A
Sbjct: 21 LYVGNLSFYTTEEQIYELFSKSGDI--KKIIMGLDKMKTACGFCFVEYYSRADAENAMRY 78
Query: 273 MNNALIDDRRICVDF 287
+N +DDR I D+
Sbjct: 79 INGTRLDDRIIRTDW 93
>pdb|1M5K|C Chain C, Crystal Structure Of A Hairpin Ribozyme In The
Catalytically-Active Conformation
pdb|1M5K|F Chain F, Crystal Structure Of A Hairpin Ribozyme In The
Catalytically-Active Conformation
pdb|1M5O|C Chain C, Transition State Stabilization By A Catalytic Rna
pdb|1M5O|F Chain F, Transition State Stabilization By A Catalytic Rna
pdb|1M5P|C Chain C, Transition State Stabilization By A Catalytic Rna
pdb|1M5P|F Chain F, Transition State Stabilization By A Catalytic Rna
pdb|1M5V|C Chain C, Transition State Stabilization By A Catalytic Rna
pdb|1M5V|F Chain F, Transition State Stabilization By A Catalytic Rna
pdb|1SJ3|P Chain P, Hepatitis Delta Virus Gemonic Ribozyme Precursor, With
Mg2+ Bound
pdb|1SJ4|P Chain P, Crystal Structure Of A C75u Mutant Hepatitis Delta Virus
Ribozyme Precursor, In Cu2+ Solution
pdb|1SJF|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Cobalt
Hexammine Solution
pdb|1VBX|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Edta Solution
pdb|1VBY|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, And Mn2+ Bound
pdb|1VBZ|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Ba2+ Solution
pdb|1VC0|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Imidazole And
Sr2+ Solution
pdb|1VC5|A Chain A, Crystal Structure Of The Wild Type Hepatitis Delta Virus
Gemonic Ribozyme Precursor, In Edta Solution
pdb|1VC6|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Product With C75u Mutaion, Cleaved In Imidazole
And Mg2+ Solutions
pdb|1VC7|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Sr2+ Solution
pdb|2OIH|A Chain A, Hepatitis Delta Virus Gemonic Ribozyme Precursor With C75u
Mutation And Bound To Monovalent Cation Tl+
pdb|2OJ3|A Chain A, Hepatitis Delta Virus Ribozyme Precursor Structure, With
C75u Mutation, Bound To Tl+ And Cobalt Hexammine
(Co(Nh3) 63+)
Length = 100
Score = 32.3 bits (72), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 24/93 (25%), Positives = 47/93 (50%), Gaps = 9/93 (9%)
Query: 210 PDNVLFVCQLN-PVTEDE---DLHVIFSQFGTVVSAEILRDYRT-GESLCYAFVEFEKRE 264
P++ +++ LN + +DE LH IFS+FG ++ + R + G+ AFV F++
Sbjct: 8 PNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQ----AFVIFKEVS 63
Query: 265 ACEQAYFKMNNALIDDRRICVDFSQSVSKIWKK 297
+ A M D+ + + ++++ S I K
Sbjct: 64 SATNALRSMQGFPFYDKPMRIQYAKTDSDIIAK 96
>pdb|2JWN|A Chain A, Solution Nmr Structure Of The Protease-Resistent Domain Of
Xenopus Laevis Epabp2
pdb|2JWN|B Chain B, Solution Nmr Structure Of The Protease-Resistent Domain Of
Xenopus Laevis Epabp2
Length = 124
Score = 32.0 bits (71), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 36/72 (50%), Gaps = 1/72 (1%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKM 273
++V ++ + +DL FS G++ IL D +G YA++EF +R + + A M
Sbjct: 39 VYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAA-VAM 97
Query: 274 NNALIDDRRICV 285
+ + R I V
Sbjct: 98 DETVFRGRTIKV 109
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 32.0 bits (71), Expect = 0.40, Method: Composition-based stats.
Identities = 21/72 (29%), Positives = 35/72 (48%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKM 273
LFV L+ + +EDL +FS +G + D T + +AFV F E +AY ++
Sbjct: 11 LFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEV 70
Query: 274 NNALIDDRRICV 285
+ + R + V
Sbjct: 71 DGQVFQGRMLHV 82
>pdb|1AUD|A Chain A, U1a-Utrrna, Nmr, 31 Structures
pdb|1DZ5|A Chain A, The Nmr Structure Of The 38kda U1a Protein-Pie Rna Complex
Reveals The Basis Of Cooperativity In Regulation Of
Polyadenylation By Human U1a Protein
pdb|1DZ5|B Chain B, The Nmr Structure Of The 38kda U1a Protein-Pie Rna Complex
Reveals The Basis Of Cooperativity In Regulation Of
Polyadenylation By Human U1a Protein
Length = 101
Score = 32.0 bits (71), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 24/93 (25%), Positives = 47/93 (50%), Gaps = 9/93 (9%)
Query: 210 PDNVLFVCQLN-PVTEDE---DLHVIFSQFGTVVSAEILRDYRT-GESLCYAFVEFEKRE 264
P++ +++ LN + +DE LH IFS+FG ++ + R + G+ AFV F++
Sbjct: 7 PNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQ----AFVIFKEVS 62
Query: 265 ACEQAYFKMNNALIDDRRICVDFSQSVSKIWKK 297
+ A M D+ + + ++++ S I K
Sbjct: 63 SATNALRSMQGFPFYDKPMRIQYAKTDSDIIAK 95
>pdb|2DNH|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 5
Rna Binding Protein
Length = 105
Score = 32.0 bits (71), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 30/66 (45%), Gaps = 1/66 (1%)
Query: 211 DNVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAY 270
D LFV LN +ED+ +F FG + +LR G S AFV+F + A
Sbjct: 15 DRKLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRG-PDGSSKGCAFVKFSSHTEAQAAI 73
Query: 271 FKMNNA 276
++ +
Sbjct: 74 HALHGS 79
>pdb|2DNG|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 4h
Length = 103
Score = 31.6 bits (70), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 41/81 (50%), Gaps = 2/81 (2%)
Query: 210 PDNVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQA 269
P +V L T D+ IF ++ S ++RD T + + +VEF++ ++ ++A
Sbjct: 14 PPYTAYVGNLPFNTVQGDIDAIFKDL-SIRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEA 72
Query: 270 YFKMNNALIDDRRICVDFSQS 290
+ AL+ DR + VD ++
Sbjct: 73 -LTYDGALLGDRSLRVDIAEG 92
>pdb|3NMR|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
pdb|3NNA|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 31.6 bits (70), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 27/59 (45%), Gaps = 1/59 (1%)
Query: 211 DNVLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQA 269
D LF+ ++ + D+ V FS FG + ILR G S AFV F R + A
Sbjct: 95 DRKLFIGXISKKCTENDIRVXFSSFGQIEECRILRG-PDGLSRGCAFVTFTTRAXAQTA 152
Score = 31.6 bits (70), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 32/66 (48%), Gaps = 2/66 (3%)
Query: 215 FVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTG--ESLCYAFVEFEKREACEQAYFK 272
FV Q+ ++DL +F Q+G V +LRD +S FV F R+A +A
Sbjct: 7 FVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQNA 66
Query: 273 MNNALI 278
++N +
Sbjct: 67 LHNXKV 72
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain Of
Mouse Musashi1
Length = 77
Score = 31.6 bits (70), Expect = 0.62, Method: Composition-based stats.
Identities = 20/72 (27%), Positives = 34/72 (47%), Gaps = 4/72 (5%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACE----QA 269
+F+ L+ T E L F QFG V ++RD T S + FV F + + Q+
Sbjct: 3 MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQS 62
Query: 270 YFKMNNALIDDR 281
++++ ID +
Sbjct: 63 RHELDSKTIDPK 74
>pdb|2YTC|A Chain A, Solution Structure Of Rna Binding Domain In Pre-Mrna-
Splicing Factor Rbm22
Length = 85
Score = 31.2 bits (69), Expect = 0.66, Method: Composition-based stats.
Identities = 23/77 (29%), Positives = 38/77 (49%), Gaps = 7/77 (9%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKM 273
L+V L + DL F QFG + + +++ + AF++F R+A E A K
Sbjct: 15 LYVGGLGDTITETDLRNHFYQFGEIRTITVVQRQQC------AFIQFATRQAAEVAAEKS 68
Query: 274 NNALI-DDRRICVDFSQ 289
N LI + RR+ V + +
Sbjct: 69 FNKLIVNGRRLNVKWGR 85
>pdb|1U6B|A Chain A, Crystal Structure Of A Self-Splicing Group I Intron With
Both Exons
pdb|1ZZN|A Chain A, Crystal Structure Of A Group I IntronTWO EXON COMPLEX THAT
Includes All Catalytic Metal Ion Ligands.
pdb|3G8S|A Chain A, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8S|B Chain B, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8S|C Chain C, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8S|D Chain D, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8T|A Chain A, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G8T|B Chain B, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G8T|C Chain C, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G8T|D Chain D, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G96|A Chain A, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G96|B Chain B, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G96|C Chain C, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G96|D Chain D, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G9C|A Chain A, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3G9C|B Chain B, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3G9C|C Chain C, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3G9C|D Chain D, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3IRW|P Chain P, Structure Of A C-Di-Gmp Riboswitch From V. Cholerae
pdb|3MUM|P Chain P, Crystal Structure Of The G20a Mutant C-Di-Gmp Riboswith
Bound To C-Di- Gmp
pdb|3MUR|P Chain P, Crystal Structure Of The C92u Mutant C-Di-Gmp Riboswith
Bound To C-Di- Gmp
pdb|3MUT|P Chain P, Crystal Structure Of The G20aC92U MUTANT C-Di-Gmp
Riboswith Bound To C-Di-Gmp
pdb|3MUV|P Chain P, Crystal Structure Of The G20aC92U MUTANT C-Di-Gmp
Riboswith Bound To C-Di-Amp
pdb|3MXH|P Chain P, Native Structure Of A C-Di-Gmp Riboswitch From V. Cholerae
pdb|3P49|B Chain B, Crystal Structure Of A Glycine Riboswitch From
Fusobacterium Nucleatum
pdb|3R1H|A Chain A, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Ca2+ Bound
pdb|3R1H|D Chain D, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Ca2+ Bound
pdb|3R1L|A Chain A, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Mg2+ Bound
pdb|3R1L|D Chain D, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Mg2+ Bound
pdb|3UCU|P Chain P, The C-Di-Gmp-I Riboswitch Bound To Pgpg
pdb|3UCZ|P Chain P, The C-Di-Gmp-I Riboswitch Bound To Gpg
pdb|3UD3|P Chain P, The C92u Mutant C-Di-Gmp-I Riboswitch Bound To Pgpa
pdb|3UD4|P Chain P, The C92u Mutant C-Di-Gmp-I Riboswitch Bound To Gpa
Length = 98
Score = 30.8 bits (68), Expect = 0.90, Method: Composition-based stats.
Identities = 23/92 (25%), Positives = 45/92 (48%), Gaps = 7/92 (7%)
Query: 210 PDNVLFVCQLN-PVTEDE---DLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREA 265
P++ +++ LN + +DE LH IFS+FG ++ + R + AFV F++ +
Sbjct: 8 PNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQ---AFVIFKEVSS 64
Query: 266 CEQAYFKMNNALIDDRRICVDFSQSVSKIWKK 297
A M D+ + + ++++ S I K
Sbjct: 65 ATNALRSMQGFPFYDKPMRIQYAKTDSDIIAK 96
>pdb|3IWN|C Chain C, Co-Crystal Structure Of A Bacterial C-Di-Gmp Riboswitch
pdb|3IWN|D Chain D, Co-Crystal Structure Of A Bacterial C-Di-Gmp Riboswitch
Length = 91
Score = 30.8 bits (68), Expect = 0.95, Method: Composition-based stats.
Identities = 23/92 (25%), Positives = 45/92 (48%), Gaps = 7/92 (7%)
Query: 210 PDNVLFVCQLN-PVTEDE---DLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREA 265
P++ +++ LN + +DE LH IFS+FG ++ + R + AFV F++ +
Sbjct: 3 PNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQ---AFVIFKEVSS 59
Query: 266 CEQAYFKMNNALIDDRRICVDFSQSVSKIWKK 297
A M D+ + + ++++ S I K
Sbjct: 60 ATNALRSMQGFPFYDKPMRIQYAKTDSDIIAK 91
>pdb|1URN|A Chain A, U1a MutantRNA COMPLEX + GLYCEROL
pdb|1URN|B Chain B, U1a MutantRNA COMPLEX + GLYCEROL
pdb|1URN|C Chain C, U1a MutantRNA COMPLEX + GLYCEROL
pdb|1NU4|A Chain A, U1a Rna Binding Domain At 1.8 Angstrom Resolution Reveals
A Pre- Organized C-Terminal Helix
pdb|1NU4|B Chain B, U1a Rna Binding Domain At 1.8 Angstrom Resolution Reveals
A Pre- Organized C-Terminal Helix
pdb|3HHN|B Chain B, Crystal Structure Of Class I Ligase Ribozyme Self-Ligation
Product, In Complex With U1a Rbd
pdb|3HHN|D Chain D, Crystal Structure Of Class I Ligase Ribozyme Self-Ligation
Product, In Complex With U1a Rbd
Length = 97
Score = 30.8 bits (68), Expect = 0.98, Method: Composition-based stats.
Identities = 23/92 (25%), Positives = 45/92 (48%), Gaps = 7/92 (7%)
Query: 210 PDNVLFVCQLN-PVTEDE---DLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREA 265
P++ +++ LN + +DE LH IFS+FG ++ + R + AFV F++ +
Sbjct: 7 PNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQ---AFVIFKEVSS 63
Query: 266 CEQAYFKMNNALIDDRRICVDFSQSVSKIWKK 297
A M D+ + + ++++ S I K
Sbjct: 64 ATNALRSMQGFPFYDKPMRIQYAKTDSDIIAK 95
>pdb|1FHT|A Chain A, Rna-Binding Domain Of The U1a Spliceosomal Protein U1a117,
Nmr, 43 Structures
Length = 116
Score = 30.8 bits (68), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 23/92 (25%), Positives = 45/92 (48%), Gaps = 7/92 (7%)
Query: 210 PDNVLFVCQLN-PVTEDE---DLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREA 265
P++ +++ LN + +DE L+ IFSQFG ++ + R + AFV F++ +
Sbjct: 7 PNHTIYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSRSLKMR---GQAFVIFKEVSS 63
Query: 266 CEQAYFKMNNALIDDRRICVDFSQSVSKIWKK 297
A M D+ + + ++++ S I K
Sbjct: 64 ATNALRSMQGFPFYDKPMRIQYAKTDSDIIAK 95
>pdb|3L3C|A Chain A, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
pdb|3L3C|B Chain B, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
pdb|3L3C|C Chain C, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
pdb|3L3C|D Chain D, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
Length = 90
Score = 30.8 bits (68), Expect = 0.99, Method: Composition-based stats.
Identities = 23/92 (25%), Positives = 45/92 (48%), Gaps = 7/92 (7%)
Query: 210 PDNVLFVCQLN-PVTEDE---DLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREA 265
P++ +++ LN + +DE LH IFS+FG ++ + R + AFV F++ +
Sbjct: 2 PNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQ---AFVIFKEVSS 58
Query: 266 CEQAYFKMNNALIDDRRICVDFSQSVSKIWKK 297
A M D+ + + ++++ S I K
Sbjct: 59 ATNALRSMQGFPFYDKPMRIQYAKTDSDIIAK 90
>pdb|3K0J|A Chain A, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
pdb|3K0J|B Chain B, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
pdb|3K0J|C Chain C, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
pdb|3K0J|D Chain D, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
Length = 96
Score = 30.8 bits (68), Expect = 0.99, Method: Composition-based stats.
Identities = 23/92 (25%), Positives = 45/92 (48%), Gaps = 7/92 (7%)
Query: 210 PDNVLFVCQLN-PVTEDE---DLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREA 265
P++ +++ LN + +DE LH IFS+FG ++ + R + AFV F++ +
Sbjct: 7 PNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQ---AFVIFKEVSS 63
Query: 266 CEQAYFKMNNALIDDRRICVDFSQSVSKIWKK 297
A M D+ + + ++++ S I K
Sbjct: 64 ATNALRSMQGFPFYDKPMRIQYAKTDSDIIAK 95
>pdb|2NZ4|A Chain A, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
pdb|2NZ4|B Chain B, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
pdb|2NZ4|C Chain C, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
pdb|2NZ4|D Chain D, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
Length = 94
Score = 30.8 bits (68), Expect = 1.0, Method: Composition-based stats.
Identities = 23/92 (25%), Positives = 45/92 (48%), Gaps = 7/92 (7%)
Query: 210 PDNVLFVCQLN-PVTEDE---DLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREA 265
P++ +++ LN + +DE LH IFS+FG ++ + R + AFV F++ +
Sbjct: 4 PNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQ---AFVIFKEVSS 60
Query: 266 CEQAYFKMNNALIDDRRICVDFSQSVSKIWKK 297
A M D+ + + ++++ S I K
Sbjct: 61 ATNALRSMQGFPFYDKPMRIQYAKTDSDIIAK 92
>pdb|3BO2|A Chain A, A Relaxed Active Site Following Exon Ligation By A Group I
Intron
pdb|3BO3|A Chain A, A Relaxed Active Site Following Exon Ligation By A Group I
Intron
pdb|3BO4|A Chain A, A Relaxed Active Site Following Exon Ligation By A Group I
Intron
pdb|3IIN|A Chain A, Plasticity Of The Kink Turn Structural Motif
Length = 95
Score = 30.4 bits (67), Expect = 1.1, Method: Composition-based stats.
Identities = 23/92 (25%), Positives = 45/92 (48%), Gaps = 7/92 (7%)
Query: 210 PDNVLFVCQLN-PVTEDE---DLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREA 265
P++ +++ LN + +DE LH IFS+FG ++ + R + AFV F++ +
Sbjct: 5 PNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQ---AFVIFKEVSS 61
Query: 266 CEQAYFKMNNALIDDRRICVDFSQSVSKIWKK 297
A M D+ + + ++++ S I K
Sbjct: 62 ATNALRSMQGFPFYDKPMRIQYAKTDSDIIAK 93
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 30/63 (47%), Gaps = 2/63 (3%)
Query: 208 KPPDN-VLFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREAC 266
+PP + LFV LN ++D+ +F FG + ILR G S AFV++
Sbjct: 11 QPPSHRKLFVGMLNKQQSEDDVRRLFEAFGNIEECTILRGP-DGNSKGCAFVKYSSHAEA 69
Query: 267 EQA 269
+ A
Sbjct: 70 QAA 72
>pdb|1FJE|B Chain B, Solution Structure Of Nucleolin Rbd12 In Complex With Snre
Rna
pdb|1RKJ|A Chain A, Solution Structure Of The Complex Formed By The Two N-
Terminal Rna-Binding Domains Of Nucleolin And A Pre-Rrna
Target
Length = 175
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 28/56 (50%), Gaps = 1/56 (1%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQA 269
LF+ LNP +L V S+ ++ D RTG + + +V+FE E E+A
Sbjct: 16 LFIGNLNPNKSVAELKVAISELFAKNDLAVV-DVRTGTNRKFGYVDFESAEDLEKA 70
>pdb|1FJ7|A Chain A, Solution Structure Of Nucleolin Rbd1
Length = 101
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 28/56 (50%), Gaps = 1/56 (1%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQA 269
LF+ LNP +L V S+ ++ D RTG + + +V+FE E E+A
Sbjct: 20 LFIGNLNPNKSVAELKVAISELFAKNDLAVV-DVRTGTNRKFGYVDFESAEDLEKA 74
>pdb|2JVO|A Chain A, Segmental Isotope Labeling Of Npl3
Length = 108
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 42/83 (50%), Gaps = 8/83 (9%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREACEQAYFKM 273
LFV ++ +L+ IF FG + +IL + AFVEFE+ E+ +A ++
Sbjct: 34 LFVRPFPLDVQESELNEIFGPFGPMKEVKILNGF--------AFVEFEEAESAAKAIEEV 85
Query: 274 NNALIDDRRICVDFSQSVSKIWK 296
+ ++ + V +S+ +K ++
Sbjct: 86 HGKSFANQPLEVVYSKLPAKRYR 108
>pdb|1X4B|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleaoproteins A2B1
Length = 116
Score = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 24/47 (51%)
Query: 214 LFVCQLNPVTEDEDLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEF 260
LF+ L+ T +E L + Q+G + ++RD + S + FV F
Sbjct: 30 LFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTF 76
>pdb|1OIA|A Chain A, U1a Rnp Domain 1-95
pdb|1OIA|B Chain B, U1a Rnp Domain 1-95
Length = 95
Score = 29.6 bits (65), Expect = 2.2, Method: Composition-based stats.
Identities = 22/89 (24%), Positives = 44/89 (49%), Gaps = 7/89 (7%)
Query: 210 PDNVLFVCQLN-PVTEDE---DLHVIFSQFGTVVSAEILRDYRTGESLCYAFVEFEKREA 265
P++ +++ LN + +DE L+ IFSQFG ++ + R + AFV F++ +
Sbjct: 8 PNHTIYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSRSLKMRGQ---AFVIFKEVSS 64
Query: 266 CEQAYFKMNNALIDDRRICVDFSQSVSKI 294
A M D+ + + ++++ S I
Sbjct: 65 ATNALRSMQGFPFYDKPMRIQYAKTDSDI 93
>pdb|2K3K|A Chain A, Solution Structure Of Drosophila Melanogaster Snf Rbd1
Length = 104
Score = 28.9 bits (63), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 25/93 (26%), Positives = 44/93 (47%), Gaps = 9/93 (9%)
Query: 210 PDNVLFVCQLNPVTEDE----DLHVIFSQFGTVVSAEILRDYRT-GESLCYAFVEFEKRE 264
P+ +++ LN + E L+ IFSQFG ++ L+ + G+ AFV F++
Sbjct: 5 PNQTIYINNLNEKIKKEELKKSLYAIFSQFGQILDIVALKTLKMRGQ----AFVIFKEIG 60
Query: 265 ACEQAYFKMNNALIDDRRICVDFSQSVSKIWKK 297
+ A M D+ + + +S+S S I K
Sbjct: 61 SASNALRTMQGFPFYDKPMQIAYSKSDSDIVAK 93
>pdb|1DRZ|A Chain A, U1a Spliceosomal ProteinHEPATITIS DELTA VIRUS GENOMIC
Ribozyme Complex
Length = 97
Score = 28.5 bits (62), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 35/65 (53%), Gaps = 9/65 (13%)
Query: 210 PDNVLFVCQLN-PVTEDE---DLHVIFSQFGTVVSAEILRDYRT-GESLCYAFVEFEKRE 264
P++ +++ LN + +DE LH IFS+FG ++ + R + G+ AFV F++
Sbjct: 7 PNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKXRGQ----AFVIFKEVS 62
Query: 265 ACEQA 269
+ A
Sbjct: 63 SATNA 67
>pdb|3CUL|A Chain A, Aminoacyl-Trna Synthetase Ribozyme
pdb|3CUL|B Chain B, Aminoacyl-Trna Synthetase Ribozyme
pdb|3CUN|A Chain A, Aminoacyl-Trna Synthetase Ribozyme
pdb|3CUN|B Chain B, Aminoacyl-Trna Synthetase Ribozyme
pdb|3EGZ|A Chain A, Crystal Structure Of An In Vitro Evolved Tetracycline
Aptamer And Artificial Riboswitch
Length = 98
Score = 28.5 bits (62), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 35/65 (53%), Gaps = 9/65 (13%)
Query: 210 PDNVLFVCQLN-PVTEDE---DLHVIFSQFGTVVSAEILRDYRT-GESLCYAFVEFEKRE 264
P++ +++ LN + +DE LH IFS+FG ++ + R + G+ AFV F++
Sbjct: 8 PNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKXRGQ----AFVIFKEVS 63
Query: 265 ACEQA 269
+ A
Sbjct: 64 SATNA 68
>pdb|1CX0|A Chain A, Hepatitis Delta Virus Ribozyme
Length = 95
Score = 28.5 bits (62), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 35/65 (53%), Gaps = 9/65 (13%)
Query: 210 PDNVLFVCQLN-PVTEDE---DLHVIFSQFGTVVSAEILRDYRT-GESLCYAFVEFEKRE 264
P++ +++ LN + +DE LH IFS+FG ++ + R + G+ AFV F++
Sbjct: 5 PNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKXRGQ----AFVIFKEVS 60
Query: 265 ACEQA 269
+ A
Sbjct: 61 SATNA 65
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 28.1 bits (61), Expect = 6.1, Method: Composition-based stats.
Identities = 20/63 (31%), Positives = 32/63 (50%), Gaps = 2/63 (3%)
Query: 222 VTEDEDLHVIFSQFGTVVSAEI-LRDYRTGESLCYAFVEFEKREACEQAYFKMNNALIDD 280
VT+D + IFS +G + ++ + S YA+VEFE + E+A M+ ID
Sbjct: 16 VTKDHIME-IFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALKHMDGGQIDG 74
Query: 281 RRI 283
+ I
Sbjct: 75 QEI 77
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.320 0.137 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,751,061
Number of Sequences: 62578
Number of extensions: 357000
Number of successful extensions: 1292
Number of sequences better than 100.0: 229
Number of HSP's better than 100.0 without gapping: 179
Number of HSP's successfully gapped in prelim test: 50
Number of HSP's that attempted gapping in prelim test: 920
Number of HSP's gapped (non-prelim): 256
length of query: 299
length of database: 14,973,337
effective HSP length: 98
effective length of query: 201
effective length of database: 8,840,693
effective search space: 1776979293
effective search space used: 1776979293
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (24.3 bits)