RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10327
(289 letters)
>1z81_A Cyclophilin; structural genomics, structural genomics consortium,
SGC, isomerase; 2.80A {Plasmodium yoelii yoelii} SCOP:
b.62.1.1
Length = 229
Score = 282 bits (723), Expect = 2e-96
Identities = 74/180 (41%), Positives = 96/180 (53%), Gaps = 19/180 (10%)
Query: 127 SSKPVWASDTWLQKHAGETLDP--------------ENQIDPAEKLAASIDPKTKKNPQV 172
SS + L + +N + S NP V
Sbjct: 3 SSHHHHHHSSGLVPRGSMKSNSKDSENKKVENLVLDDNDENTIIPYYLSNLLTNPSNPVV 62
Query: 173 YMDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEKGF-----GYQGSSFHRIIPDFM 227
+MDI +G +G+ +L ++VP+T+ENFR CT E GY+ + FHR+I +FM
Sbjct: 63 FMDINLGNNFLGKFKFELFQNIVPKTSENFRQFCTGEYKVNNLPVGYKNTIFHRVIKEFM 122
Query: 228 CQGGDFTNHNGTGGKSIYGNKFEDENFILKHTGPGVLSMANSGPNTNGSQFFLCTTKTEW 287
QGGDF NHNG+G SIYG KF+DENF +KH G+LSMANSGPNTNG QFF+ T K EW
Sbjct: 123 IQGGDFINHNGSGSLSIYGEKFDDENFDIKHDKEGLLSMANSGPNTNGCQFFITTKKCEW 182
Score = 99.8 bits (249), Expect = 3e-25
Identities = 23/58 (39%), Positives = 35/58 (60%), Gaps = 5/58 (8%)
Query: 1 MDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEKGF-----GYQGSSFHRIIPDF 53
MDI +G +G+ +L ++VP+T+ENFR CT E GY+ + FHR+I +F
Sbjct: 64 MDINLGNNFLGKFKFELFQNIVPKTSENFRQFCTGEYKVNNLPVGYKNTIFHRVIKEF 121
>2r99_A Peptidyl-prolyl CIS-trans isomerase E; CIS-trans isomerization,
structural genomics consortium, SGC, alternative
splicing, mRNA processing; 1.61A {Homo sapiens} SCOP:
b.62.1.1 PDB: 3uch_A 1zmf_A
Length = 173
Score = 277 bits (712), Expect = 2e-95
Identities = 101/129 (78%), Positives = 111/129 (86%)
Query: 159 AASIDPKTKKNPQVYMDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEKGFGYQGSS 218
+ I K + NPQVYMDIKIG + GRI + LR D+VP TAENFRCLCTHEKGFG++GSS
Sbjct: 1 GSPIAKKARSNPQVYMDIKIGNKPAGRIQMLLRSDVVPMTAENFRCLCTHEKGFGFKGSS 60
Query: 219 FHRIIPDFMCQGGDFTNHNGTGGKSIYGNKFEDENFILKHTGPGVLSMANSGPNTNGSQF 278
FHRIIP FMCQGGDFTNHNGTGGKSIYG KF+DENFILKHTGPG+LSMANSGPNTNGSQF
Sbjct: 61 FHRIIPQFMCQGGDFTNHNGTGGKSIYGKKFDDENFILKHTGPGLLSMANSGPNTNGSQF 120
Query: 279 FLCTTKTEW 287
FL KT+W
Sbjct: 121 FLTCDKTDW 129
Score = 104 bits (261), Expect = 1e-27
Identities = 40/53 (75%), Positives = 45/53 (84%)
Query: 1 MDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEKGFGYQGSSFHRIIPDF 53
MDIKIG + GRI + LR D+VP TAENFRCLCTHEKGFG++GSSFHRIIP F
Sbjct: 16 MDIKIGNKPAGRIQMLLRSDVVPMTAENFRCLCTHEKGFGFKGSSFHRIIPQF 68
>2cmt_A Peptidyl-prolyl CIS-trans isomerase E; rotamase activity, rotamase,
RNA-binding, cyclosporin, cyclophilin, beta-barrel;
1.50A {Schistosoma mansoni} PDB: 2ck1_A
Length = 172
Score = 276 bits (708), Expect = 7e-95
Identities = 83/127 (65%), Positives = 99/127 (77%)
Query: 161 SIDPKTKKNPQVYMDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEKGFGYQGSSFH 220
+ + P+V+ DI+IG + GRI ++LR D+VPRTAENFR LCT E+GFGY FH
Sbjct: 2 RTKKQKRNLPRVFFDIRIGNGDAGRIVMELRSDIVPRTAENFRALCTGERGFGYHNCCFH 61
Query: 221 RIIPDFMCQGGDFTNHNGTGGKSIYGNKFEDENFILKHTGPGVLSMANSGPNTNGSQFFL 280
R+IP FMCQGGDF +GTGGKSIYG KF+DENF L+H G GVLSMANSGPNTNGSQFF+
Sbjct: 62 RVIPQFMCQGGDFVKGDGTGGKSIYGRKFDDENFQLRHEGFGVLSMANSGPNTNGSQFFI 121
Query: 281 CTTKTEW 287
CTTK +W
Sbjct: 122 CTTKCDW 128
Score = 104 bits (262), Expect = 8e-28
Identities = 33/53 (62%), Positives = 40/53 (75%)
Query: 1 MDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEKGFGYQGSSFHRIIPDF 53
DI+IG + GRI ++LR D+VPRTAENFR LCT E+GFGY FHR+IP F
Sbjct: 15 FDIRIGNGDAGRIVMELRSDIVPRTAENFRALCTGERGFGYHNCCFHRVIPQF 67
>3ich_A Peptidyl-prolyl CIS-trans isomerase B; beta sandwich, cyclosporin,
endoplasmic reticulum, glycoprot isomerase, rotamase;
1.20A {Homo sapiens} PDB: 3ici_A* 1cyn_A* 2esl_A*
2rmc_A* 1h0p_A 1xo7_A 1xq7_A*
Length = 188
Score = 275 bits (705), Expect = 4e-94
Identities = 75/134 (55%), Positives = 91/134 (67%), Gaps = 2/134 (1%)
Query: 154 PAEKLAASIDPKTKKNPQVYMDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEKGFG 213
P PK +VY D++IG ++VGR+ L VP+T +NF L T EKGFG
Sbjct: 2 PLGSDEKKKGPKV--TVKVYFDLRIGDEDVGRVIFGLFGKTVPKTVDNFVALATGEKGFG 59
Query: 214 YQGSSFHRIIPDFMCQGGDFTNHNGTGGKSIYGNKFEDENFILKHTGPGVLSMANSGPNT 273
Y+ S FHR+I DFM QGGDFT +GTGGKSIYG +F DENF LKH GPG +SMAN+G +T
Sbjct: 60 YKNSKFHRVIKDFMIQGGDFTRGDGTGGKSIYGERFPDENFKLKHYGPGWVSMANAGKDT 119
Query: 274 NGSQFFLCTTKTEW 287
NGSQFF+ T KT W
Sbjct: 120 NGSQFFITTVKTAW 133
Score = 104 bits (262), Expect = 1e-27
Identities = 27/53 (50%), Positives = 36/53 (67%)
Query: 1 MDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEKGFGYQGSSFHRIIPDF 53
D++IG ++VGR+ L VP+T +NF L T EKGFGY+ S FHR+I DF
Sbjct: 20 FDLRIGDEDVGRVIFGLFGKTVPKTVDNFVALATGEKGFGYKNSKFHRVIKDF 72
>3rdd_A Peptidyl-prolyl CIS-trans isomerase A; beta barrel, cytosolic,
inhibito isomerase-isomerase inhibitor complex; HET:
EA4; 2.14A {Homo sapiens}
Length = 184
Score = 274 bits (703), Expect = 5e-94
Identities = 89/134 (66%), Positives = 104/134 (77%)
Query: 154 PAEKLAASIDPKTKKNPQVYMDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEKGFG 213
++ + NP V+ DI + + +GR++ +L D VP+TAENFR L T EKGFG
Sbjct: 7 HHSSGRENLYFQGMVNPTVFFDIAVDGEPLGRVSFELFADKVPKTAENFRALSTGEKGFG 66
Query: 214 YQGSSFHRIIPDFMCQGGDFTNHNGTGGKSIYGNKFEDENFILKHTGPGVLSMANSGPNT 273
Y+GS FHRIIP FMCQGGDFT HNGTGGKSIYG KFEDENFILKHTGPG+LSMAN+GPNT
Sbjct: 67 YKGSCFHRIIPGFMCQGGDFTRHNGTGGKSIYGEKFEDENFILKHTGPGILSMANAGPNT 126
Query: 274 NGSQFFLCTTKTEW 287
NGSQFF+CT KTEW
Sbjct: 127 NGSQFFICTAKTEW 140
Score = 103 bits (260), Expect = 3e-27
Identities = 31/53 (58%), Positives = 39/53 (73%)
Query: 1 MDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEKGFGYQGSSFHRIIPDF 53
DI + + +GR++ +L D VP+TAENFR L T EKGFGY+GS FHRIIP F
Sbjct: 27 FDIAVDGEPLGRVSFELFADKVPKTAENFRALSTGEKGFGYKGSCFHRIIPGF 79
>3k2c_A Peptidyl-prolyl CIS-trans isomerase; ssgcid, NIH, niaid, SBRI, UW,
decode, cytoplasm, rotamase, structural genomics; HET:
PG5; 1.95A {Encephalitozoon cuniculi}
Length = 193
Score = 274 bits (702), Expect = 1e-93
Identities = 73/133 (54%), Positives = 93/133 (69%)
Query: 155 AEKLAASIDPKTKKNPQVYMDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEKGFGY 214
+ + + VY D+ ++ +GRI ++L D+VP+TA+NFR LC KG GY
Sbjct: 13 EAQTQGPGSMAKEASGNVYFDVYANEESLGRIVMKLEDDIVPKTAKNFRTLCERPKGEGY 72
Query: 215 QGSSFHRIIPDFMCQGGDFTNHNGTGGKSIYGNKFEDENFILKHTGPGVLSMANSGPNTN 274
+GS+FHRIIP FM QGGD+T HNGTGG+SIYG KF DENF LKHT G+LSMAN G +TN
Sbjct: 73 KGSTFHRIIPGFMVQGGDYTAHNGTGGRSIYGEKFPDENFELKHTKEGILSMANCGAHTN 132
Query: 275 GSQFFLCTTKTEW 287
GSQFF+ KT+W
Sbjct: 133 GSQFFITLGKTQW 145
Score = 103 bits (260), Expect = 3e-27
Identities = 28/53 (52%), Positives = 39/53 (73%)
Query: 1 MDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEKGFGYQGSSFHRIIPDF 53
D+ ++ +GRI ++L D+VP+TA+NFR LC KG GY+GS+FHRIIP F
Sbjct: 32 FDVYANEESLGRIVMKLEDDIVPKTAKNFRTLCERPKGEGYKGSTFHRIIPGF 84
>2z6w_A Peptidyl-prolyl CIS-trans isomerase; isomerase-immunosuppressant
complex, immunosuppressant, cyclophilin D; HET: BMT MLE
CIT; 0.96A {Homo sapiens} SCOP: b.62.1.1 PDB: 3rcg_A*
3r49_A* 3r54_A 3r56_A* 3r57_A* 3r59_A* 3rcf_A* 3r4g_A*
3rci_X* 3rck_X* 3rcl_A* 3rd9_X* 3rda_X* 3rdb_A* 3rdc_A*
2bit_X 2biu_X 3qyu_A 3k0m_A 1ak4_A* ...
Length = 165
Score = 272 bits (699), Expect = 1e-93
Identities = 85/119 (71%), Positives = 103/119 (86%)
Query: 169 NPQVYMDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEKGFGYQGSSFHRIIPDFMC 228
NP VY+D+ + +GR+ ++L+ D+VP+TAENFR LCT EKGFGY+GS+FHR+IP FMC
Sbjct: 3 NPLVYLDVDANGKPLGRVVLELKADVVPKTAENFRALCTGEKGFGYKGSTFHRVIPSFMC 62
Query: 229 QGGDFTNHNGTGGKSIYGNKFEDENFILKHTGPGVLSMANSGPNTNGSQFFLCTTKTEW 287
Q GDFTNHNGTGGKSIYG++F DENF LKH GPGVLSMAN+GPNTNGSQFF+CT KT+W
Sbjct: 63 QAGDFTNHNGTGGKSIYGSRFPDENFTLKHVGPGVLSMANAGPNTNGSQFFICTIKTDW 121
Score = 103 bits (259), Expect = 2e-27
Identities = 30/53 (56%), Positives = 43/53 (81%)
Query: 1 MDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEKGFGYQGSSFHRIIPDF 53
+D+ + +GR+ ++L+ D+VP+TAENFR LCT EKGFGY+GS+FHR+IP F
Sbjct: 8 LDVDANGKPLGRVVLELKADVVPKTAENFRALCTGEKGFGYKGSTFHRVIPSF 60
>3pmp_A Cyclophilin A; peptidyl prolyl isomerase,
isomerase-immunosuppressant compl; HET: BMT; 1.47A
{Moniliophthora perniciosa} PDB: 3o7t_A
Length = 164
Score = 271 bits (696), Expect = 3e-93
Identities = 73/119 (61%), Positives = 87/119 (73%)
Query: 169 NPQVYMDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEKGFGYQGSSFHRIIPDFMC 228
V+ +I I + GRI +L + VP+TA+NFR L T + GFGY+ S FHR+IP FM
Sbjct: 2 MANVFFNISINDKPEGRIVFKLYDEAVPKTAKNFRELATGQHGFGYKDSIFHRVIPQFML 61
Query: 229 QGGDFTNHNGTGGKSIYGNKFEDENFILKHTGPGVLSMANSGPNTNGSQFFLCTTKTEW 287
QGGDFT HNGTGGKSIYG KF DENF +KHT PG+LSMAN+G NTNGSQFF+ T T W
Sbjct: 62 QGGDFTRHNGTGGKSIYGEKFADENFQVKHTKPGLLSMANAGANTNGSQFFITTVPTSW 120
Score = 102 bits (258), Expect = 3e-27
Identities = 26/53 (49%), Positives = 35/53 (66%)
Query: 1 MDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEKGFGYQGSSFHRIIPDF 53
+I I + GRI +L + VP+TA+NFR L T + GFGY+ S FHR+IP F
Sbjct: 7 FNISINDKPEGRIVFKLYDEAVPKTAKNFRELATGQHGFGYKDSIFHRVIPQF 59
>2poy_A Peptidyl-prolyl CIS-trans isomerase; isomerase-immunosuppressant
complex, immunosuppressant, cyclophilin, isomerase, S
genomics, structural genomics consortium; HET: BMT;
1.80A {Cryptosporidium parvum iowa II} PDB: 2plu_A*
Length = 186
Score = 271 bits (695), Expect = 9e-93
Identities = 79/139 (56%), Positives = 92/139 (66%), Gaps = 7/139 (5%)
Query: 156 EKLAASIDPKTKKNPQVYMDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEKGFG-- 213
+ + + NP VY DI IG+ GRIT++L D VP TAENFR LCT EKG G
Sbjct: 6 HHSSGRENLYFQGNPVVYFDISIGQTPAGRITMELFADKVPITAENFRALCTGEKGMGQS 65
Query: 214 -----YQGSSFHRIIPDFMCQGGDFTNHNGTGGKSIYGNKFEDENFILKHTGPGVLSMAN 268
Y GS FHRIIP FM QGGDFT +GTGG+SIYG+KF DENF+ H P +LSMAN
Sbjct: 66 GKPLCYTGSFFHRIIPQFMIQGGDFTRGDGTGGESIYGSKFRDENFVYTHDAPFLLSMAN 125
Query: 269 SGPNTNGSQFFLCTTKTEW 287
+GPNTNGSQFF+ T W
Sbjct: 126 AGPNTNGSQFFITTVPCPW 144
Score = 98.8 bits (247), Expect = 2e-25
Identities = 35/60 (58%), Positives = 38/60 (63%), Gaps = 7/60 (11%)
Query: 1 MDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEKGFG-------YQGSSFHRIIPDF 53
DI IG+ GRIT++L D VP TAENFR LCT EKG G Y GS FHRIIP F
Sbjct: 24 FDISIGQTPAGRITMELFADKVPITAENFRALCTGEKGMGQSGKPLCYTGSFFHRIIPQF 83
>1mzw_A Cyclophilin H, U-snRNP-ASSOCIATED cyclophilin; cyclophilin,
peptidyl-prolyl-CIS/trans isomerase, spliceosome,
U4/U6-60K protein, WD protein; 2.00A {Homo sapiens}
SCOP: b.62.1.1 PDB: 1qoi_A
Length = 177
Score = 269 bits (691), Expect = 4e-92
Identities = 73/132 (55%), Positives = 93/132 (70%), Gaps = 5/132 (3%)
Query: 161 SIDPKTKKNPQVYMDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHE-----KGFGYQ 215
++ + NP V+ D+ IG QEVGR+ I+L D+VP+TAENFR CT E GY+
Sbjct: 2 AVANSSPVNPVVFFDVSIGGQEVGRMKIELFADVVPKTAENFRQFCTGEFRKDGVPIGYK 61
Query: 216 GSSFHRIIPDFMCQGGDFTNHNGTGGKSIYGNKFEDENFILKHTGPGVLSMANSGPNTNG 275
GS+FHR+I DFM QGGDF N +GTG SIY F DENF L+H+ PG+LSMANSGP+TNG
Sbjct: 62 GSTFHRVIKDFMIQGGDFVNGDGTGVASIYRGPFADENFKLRHSAPGLLSMANSGPSTNG 121
Query: 276 SQFFLCTTKTEW 287
QFF+ +K +W
Sbjct: 122 CQFFITCSKCDW 133
Score = 100 bits (251), Expect = 5e-26
Identities = 32/59 (54%), Positives = 41/59 (69%), Gaps = 5/59 (8%)
Query: 1 MDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHE-----KGFGYQGSSFHRIIPDFV 54
D+ IG QEVGR+ I+L D+VP+TAENFR CT E GY+GS+FHR+I DF+
Sbjct: 15 FDVSIGGQEVGRMKIELFADVVPKTAENFRQFCTGEFRKDGVPIGYKGSTFHRVIKDFM 73
>1qng_A Peptidyl-prolyl CIS-trans isomerase; isomerase-immunosuppressant
complex, cyclophilin-cyclosporin complex,
immunosuppressant, cyclophilin; HET: BMT; 2.1A
{Plasmodium falciparum} SCOP: b.62.1.1 PDB: 1qnh_A*
Length = 170
Score = 268 bits (689), Expect = 6e-92
Identities = 71/126 (56%), Positives = 82/126 (65%), Gaps = 6/126 (4%)
Query: 168 KNPQVYMDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEK------GFGYQGSSFHR 221
K +V+ DI I GRI +L D+ PRT ENFR LCT EK Y+ S FHR
Sbjct: 2 KRSKVFFDISIDNSNAGRIIFELFSDITPRTCENFRALCTGEKIGSRGKNLHYKNSIFHR 61
Query: 222 IIPDFMCQGGDFTNHNGTGGKSIYGNKFEDENFILKHTGPGVLSMANSGPNTNGSQFFLC 281
IIP FMCQGGD TN NG+GG+SIYG F DENF +KH PG+LSMAN+GPNTN SQFF+
Sbjct: 62 IIPQFMCQGGDITNGNGSGGESIYGRSFTDENFNMKHDQPGLLSMANAGPNTNSSQFFIT 121
Query: 282 TTKTEW 287
W
Sbjct: 122 LVPCPW 127
Score = 98.0 bits (245), Expect = 2e-25
Identities = 29/59 (49%), Positives = 32/59 (54%), Gaps = 6/59 (10%)
Query: 1 MDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEK------GFGYQGSSFHRIIPDF 53
DI I GRI +L D+ PRT ENFR LCT EK Y+ S FHRIIP F
Sbjct: 8 FDISIDNSNAGRIIFELFSDITPRTCENFRALCTGEKIGSRGKNLHYKNSIFHRIIPQF 66
>2igv_A Peptidyl-prolyl CIS-trans isomerase 3; rotamase; 1.67A
{Caenorhabditis elegans} SCOP: b.62.1.1 PDB: 1e3b_A
1e8k_A 1dyw_A 2igw_A 2hqj_A
Length = 173
Score = 267 bits (686), Expect = 2e-91
Identities = 83/126 (65%), Positives = 95/126 (75%), Gaps = 7/126 (5%)
Query: 169 NPQVYMDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEKGFG-------YQGSSFHR 221
+V+ DI IG + GRI ++L D+VP+TA NFR LCT E G G ++GS FHR
Sbjct: 3 RSKVFFDITIGGKASGRIVMELYDDVVPKTAGNFRALCTGENGIGKSGKPLHFKGSKFHR 62
Query: 222 IIPDFMCQGGDFTNHNGTGGKSIYGNKFEDENFILKHTGPGVLSMANSGPNTNGSQFFLC 281
IIP+FM QGGDFT NGTGG+SIYG KF DENF KHTGPGVLSMAN+GPNTNGSQFFLC
Sbjct: 63 IIPNFMIQGGDFTRGNGTGGESIYGEKFPDENFKEKHTGPGVLSMANAGPNTNGSQFFLC 122
Query: 282 TTKTEW 287
T KTEW
Sbjct: 123 TVKTEW 128
Score = 98.7 bits (247), Expect = 1e-25
Identities = 31/60 (51%), Positives = 39/60 (65%), Gaps = 7/60 (11%)
Query: 1 MDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEKGFG-------YQGSSFHRIIPDF 53
DI IG + GRI ++L D+VP+TA NFR LCT E G G ++GS FHRIIP+F
Sbjct: 8 FDITIGGKASGRIVMELYDDVVPKTAGNFRALCTGENGIGKSGKPLHFKGSKFHRIIPNF 67
>2he9_A NK-tumor recognition protein; cyclosporin, isomerase, membrane,
repeat, rotamase, peptidylprolyl isomerase, structural
genomics; 2.00A {Homo sapiens}
Length = 192
Score = 267 bits (686), Expect = 3e-91
Identities = 68/143 (47%), Positives = 89/143 (62%), Gaps = 8/143 (5%)
Query: 153 DPAEKLAASIDPKTKKNPQVYMDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEKGF 212
S + +PQ + DI+I ++ VGRI QL D+ P+T +NF CLC+ EKG
Sbjct: 3 SSHHHHHHSSGLVPRGSPQCHFDIEINREPVGRIMFQLFSDICPKTCKNFLCLCSGEKGL 62
Query: 213 G--------YQGSSFHRIIPDFMCQGGDFTNHNGTGGKSIYGNKFEDENFILKHTGPGVL 264
G Y+GS+FHR++ +FM QGGDF+ NG GG+SIYG F+DENFILKH +L
Sbjct: 63 GKTTGKKLCYKGSTFHRVVKNFMIQGGDFSEGNGKGGESIYGGYFKDENFILKHDRAFLL 122
Query: 265 SMANSGPNTNGSQFFLCTTKTEW 287
SMAN G +TNGSQFF+ T
Sbjct: 123 SMANRGKHTNGSQFFITTKPAPH 145
Score = 100 bits (252), Expect = 4e-26
Identities = 28/61 (45%), Positives = 40/61 (65%), Gaps = 8/61 (13%)
Query: 1 MDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEKGFG--------YQGSSFHRIIPD 52
DI+I ++ VGRI QL D+ P+T +NF CLC+ EKG G Y+GS+FHR++ +
Sbjct: 24 FDIEINREPVGRIMFQLFSDICPKTCKNFLCLCSGEKGLGKTTGKKLCYKGSTFHRVVKN 83
Query: 53 F 53
F
Sbjct: 84 F 84
>2c3b_A Ppiase, cyclophilin; isomerase, 3D domain swapping, misfolding, Asp
F 11, allergen, rotamase; 1.85A {Aspergillus fumigatus}
SCOP: b.62.1.1
Length = 172
Score = 267 bits (684), Expect = 3e-91
Identities = 71/124 (57%), Positives = 86/124 (69%), Gaps = 5/124 (4%)
Query: 169 NPQVYMDIK-----IGKQEVGRITIQLRYDLVPRTAENFRCLCTHEKGFGYQGSSFHRII 223
QV+ D++ + +VGRI L VP+TA+NFR LC G GY+ S+FHRII
Sbjct: 2 MSQVFFDVEYAPVGTAETKVGRIVFNLFDKDVPKTAKNFRELCKRPAGEGYRESTFHRII 61
Query: 224 PDFMCQGGDFTNHNGTGGKSIYGNKFEDENFILKHTGPGVLSMANSGPNTNGSQFFLCTT 283
P+FM QGGDFT NGTGG+SIYG+KF DENF KH G+LSMAN+GPNTNGSQFF+ T
Sbjct: 62 PNFMIQGGDFTRGNGTGGRSIYGDKFADENFSRKHDKKGILSMANAGPNTNGSQFFITTA 121
Query: 284 KTEW 287
T W
Sbjct: 122 VTSW 125
Score = 98.8 bits (247), Expect = 1e-25
Identities = 25/52 (48%), Positives = 33/52 (63%)
Query: 2 DIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEKGFGYQGSSFHRIIPDF 53
+ + +VGRI L VP+TA+NFR LC G GY+ S+FHRIIP+F
Sbjct: 13 PVGTAETKVGRIVFNLFDKDVPKTAKNFRELCKRPAGEGYRESTFHRIIPNF 64
>2haq_A Cyclophilin; rotamase, proline, isomerase, CIS-trans, protozoa,
KAla-AZAR.; 1.97A {Leishmania donovani} PDB: 3eov_A*
3bt8_A
Length = 172
Score = 266 bits (683), Expect = 4e-91
Identities = 73/124 (58%), Positives = 86/124 (69%), Gaps = 1/124 (0%)
Query: 164 PKTKKNPQVYMDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEKGFGYQGSSFHRII 223
+ + +VY D+ I + +GRITI L P T ENFR LCT E GFGY+ S FHR+I
Sbjct: 6 HEPEVTAKVYFDVMIDSEPLGRITIGLFGKDAPLTTENFRQLCTGEHGFGYKDSIFHRVI 65
Query: 224 PDFMCQGGDFTNHNGTGGKSIYGNKFEDENFILKHTGPGVLSMANSGPNTNGSQFFLCTT 283
+FM QGGDFTN +GTGGKSIYG KF DEN +KH G LSMAN+GPNTNGSQFF+ T
Sbjct: 66 QNFMIQGGDFTNFDGTGGKSIYGEKFADENLNVKHF-VGALSMANAGPNTNGSQFFITTA 124
Query: 284 KTEW 287
T W
Sbjct: 125 PTPW 128
Score = 104 bits (262), Expect = 9e-28
Identities = 28/53 (52%), Positives = 34/53 (64%)
Query: 1 MDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEKGFGYQGSSFHRIIPDF 53
D+ I + +GRITI L P T ENFR LCT E GFGY+ S FHR+I +F
Sbjct: 16 FDVMIDSEPLGRITIGLFGKDAPLTTENFRQLCTGEHGFGYKDSIFHRVIQNF 68
>1a58_A Cyclophilin; isomerase, ppiase; 1.95A {Brugia malayi} SCOP:
b.62.1.1 PDB: 1a33_A 1c5f_A*
Length = 177
Score = 265 bits (679), Expect = 2e-90
Identities = 66/129 (51%), Positives = 84/129 (65%), Gaps = 8/129 (6%)
Query: 167 KKNPQVYMDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEKGFG--------YQGSS 218
K +V++D+ I GRI ++L D+ PRT NF LCT G G Y+GS+
Sbjct: 4 KDRRRVFLDVTIDGNLAGRIVMELYNDIAPRTCNNFLMLCTGMAGTGKISGKPLHYKGST 63
Query: 219 FHRIIPDFMCQGGDFTNHNGTGGKSIYGNKFEDENFILKHTGPGVLSMANSGPNTNGSQF 278
FHR+I +FM QGGDFT +GTGG+SIYG F+DE F++KH P V+SMAN GPNTNGSQF
Sbjct: 64 FHRVIKNFMIQGGDFTKGDGTGGESIYGGMFDDEEFVMKHDEPFVVSMANKGPNTNGSQF 123
Query: 279 FLCTTKTEW 287
F+ TT
Sbjct: 124 FITTTPAPH 132
Score = 100 bits (251), Expect = 4e-26
Identities = 25/61 (40%), Positives = 34/61 (55%), Gaps = 8/61 (13%)
Query: 1 MDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEKGFG--------YQGSSFHRIIPD 52
+D+ I GRI ++L D+ PRT NF LCT G G Y+GS+FHR+I +
Sbjct: 11 LDVTIDGNLAGRIVMELYNDIAPRTCNNFLMLCTGMAGTGKISGKPLHYKGSTFHRVIKN 70
Query: 53 F 53
F
Sbjct: 71 F 71
>2wfi_A Peptidyl-prolyl CIS-trans isomerase G; phosphoprotein, PRE-mRNA
splicing, alternative splicing, nucleus, rotamase,
cyclosporin; HET: OCS; 0.75A {Homo sapiens} PDB: 2wfj_A*
2gw2_A
Length = 179
Score = 264 bits (678), Expect = 3e-90
Identities = 65/132 (49%), Positives = 82/132 (62%), Gaps = 8/132 (6%)
Query: 164 PKTKKNPQVYMDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEKGFG--------YQ 215
+ P+ + DI I Q GR+ +L D+ P+T ENFRCLCT EKG G Y+
Sbjct: 4 GIKVQRPRCFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGEKGTGKSTQKPLHYK 63
Query: 216 GSSFHRIIPDFMCQGGDFTNHNGTGGKSIYGNKFEDENFILKHTGPGVLSMANSGPNTNG 275
FHR++ DFM QGGDF+ NG GG+SIYG FEDE+F +KH +LSMAN G +TNG
Sbjct: 64 SCLFHRVVKDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNKEFLLSMANRGKDTNG 123
Query: 276 SQFFLCTTKTEW 287
SQFF+ T T
Sbjct: 124 SQFFITTKPTPH 135
Score = 100 bits (252), Expect = 3e-26
Identities = 28/61 (45%), Positives = 35/61 (57%), Gaps = 8/61 (13%)
Query: 1 MDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEKGFG--------YQGSSFHRIIPD 52
DI I Q GR+ +L D+ P+T ENFRCLCT EKG G Y+ FHR++ D
Sbjct: 14 FDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGEKGTGKSTQKPLHYKSCLFHRVVKD 73
Query: 53 F 53
F
Sbjct: 74 F 74
>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase;
1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A
Length = 370
Score = 260 bits (666), Expect = 7e-86
Identities = 77/137 (56%), Positives = 93/137 (67%), Gaps = 8/137 (5%)
Query: 159 AASIDPKTKKNPQVYMDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEKGFG----- 213
+ P NP+V+ D+ IG + VGRI ++L D+VP+TAENFR LCT EKG G
Sbjct: 5 SPQAKPSNPSNPRVFFDVDIGGERVGRIVLELFADIVPKTAENFRALCTGEKGIGPTTGK 64
Query: 214 ---YQGSSFHRIIPDFMCQGGDFTNHNGTGGKSIYGNKFEDENFILKHTGPGVLSMANSG 270
++G FHRII FM QGGDF+N NGTGG+SIYG KFEDENF KH G+LSMAN+G
Sbjct: 65 PLHFKGCPFHRIIKKFMIQGGDFSNQNGTGGESIYGEKFEDENFHYKHDKEGLLSMANAG 124
Query: 271 PNTNGSQFFLCTTKTEW 287
NTNGSQFF+ T T
Sbjct: 125 SNTNGSQFFITTVPTPH 141
Score = 100 bits (252), Expect = 9e-25
Identities = 31/62 (50%), Positives = 40/62 (64%), Gaps = 8/62 (12%)
Query: 1 MDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEKGFG--------YQGSSFHRIIPD 52
D+ IG + VGRI ++L D+VP+TAENFR LCT EKG G ++G FHRII
Sbjct: 20 FDVDIGGERVGRIVLELFADIVPKTAENFRALCTGEKGIGPTTGKPLHFKGCPFHRIIKK 79
Query: 53 FV 54
F+
Sbjct: 80 FM 81
>2ose_A Probable peptidyl-prolyl CIS-trans isomerase; cyclophilin; 2.04A
{Mimivirus}
Length = 234
Score = 240 bits (613), Expect = 1e-79
Identities = 37/154 (24%), Positives = 61/154 (39%), Gaps = 30/154 (19%)
Query: 164 PKTKKNPQVYMDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEKG------------ 211
P + KNP+VYMDI + + +GR+ I+L D P ENF L +
Sbjct: 9 PNSGKNPRVYMDIVLNNEIIGRLQIKLFRDAFPAGVENFVQLTNGKTYRVNSNGTGKYKY 68
Query: 212 -----FGYQGSSFHRIIPDFMCQGGDFTNHNGTGGKSIYGNKFED---ENFILKHTGPGV 263
Y+G FH ++ + GD N NG+ ++Y ++ ++ H G+
Sbjct: 69 NRHINRTYEGCKFHNVLHNNYIVSGDIYNSNGSSAGTVYCDEPIPPVFGDYFYPHESKGL 128
Query: 264 LSMA----NSGPNTNGSQFFLC------TTKTEW 287
LS+ SG S F + + +
Sbjct: 129 LSLVPYTDESGNRYYDSTFMITLDDIRPSNVLDE 162
Score = 92.9 bits (231), Expect = 9e-23
Identities = 17/70 (24%), Positives = 27/70 (38%), Gaps = 17/70 (24%)
Query: 1 MDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEKG-----------------FGYQG 43
MDI + + +GR+ I+L D P ENF L + Y+G
Sbjct: 19 MDIVLNNEIIGRLQIKLFRDAFPAGVENFVQLTNGKTYRVNSNGTGKYKYNRHINRTYEG 78
Query: 44 SSFHRIIPDF 53
FH ++ +
Sbjct: 79 CKFHNVLHNN 88
>2a2n_A Peptidylprolyl isomerase domain and WD repeat CON; CIS-trans
isomerization, protein-folding, peptidylprolyl ISO
structural genomics; 1.65A {Homo sapiens} SCOP: b.62.1.1
Length = 176
Score = 174 bits (443), Expect = 1e-54
Identities = 54/123 (43%), Positives = 68/123 (55%), Gaps = 5/123 (4%)
Query: 166 TKKNPQVYMDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEKGFGYQGSSFHRIIPD 225
+ P+ D I +G I +L P+T ENF G+ Y G +FHRII
Sbjct: 13 QAEGPKRVSDSAIIHTSMGDIHTKLFPVECPKTVENFCVHS--RNGY-YNGHTFHRIIKG 69
Query: 226 FMCQGGDFTNHNGTGGKSIYGNKFEDE-NFILKHTGPGVLSMANSGPNTNGSQFFLCTTK 284
FM Q GD T G GG+SI+G +FEDE + L+H P LSMAN+G NTNGSQFF+
Sbjct: 70 FMIQTGDPTG-TGMGGESIWGGEFEDEFHSTLRHDRPYTLSMANAGSNTNGSQFFITVVP 128
Query: 285 TEW 287
T W
Sbjct: 129 TPW 131
Score = 60.0 bits (146), Expect = 3e-11
Identities = 19/52 (36%), Positives = 24/52 (46%), Gaps = 3/52 (5%)
Query: 2 DIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEKGFGYQGSSFHRIIPDF 53
D I +G I +L P+T ENF G+ Y G +FHRII F
Sbjct: 22 DSAIIHTSMGDIHTKLFPVECPKTVENFCVHS--RNGY-YNGHTFHRIIKGF 70
>2k7n_A Peptidyl-prolyl CIS-trans isomerase-like 1; beta barrel,
disorder-order transition, HOOK-like, mRNA processing,
mRNA splicing, rotamase; NMR {Homo sapiens}
Length = 203
Score = 174 bits (444), Expect = 1e-54
Identities = 61/129 (47%), Positives = 83/129 (64%), Gaps = 10/129 (7%)
Query: 160 ASIDPKTKKNPQVYMDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEKGFGYQGSSF 219
A+I P + + P VY++ +G I ++L + P+T +NF L +G+ Y G+ F
Sbjct: 2 AAIPPDSWQPPNVYLET-----SMGIIVLELYWKHAPKTCKNFAELA--RRGY-YNGTKF 53
Query: 220 HRIIPDFMCQGGDFTNHNGTGGKSIYGNKFEDE-NFILKHTGPGVLSMANSGPNTNGSQF 278
HRII DFM QGGD T G GG SIYG +FEDE + LK TG G+L+MAN+GP+TNGSQF
Sbjct: 54 HRIIKDFMIQGGDPTG-TGRGGASIYGKQFEDELHPDLKFTGAGILAMANAGPDTNGSQF 112
Query: 279 FLCTTKTEW 287
F+ T+W
Sbjct: 113 FVTLAPTQW 121
Score = 59.7 bits (145), Expect = 5e-11
Identities = 18/44 (40%), Positives = 27/44 (61%), Gaps = 3/44 (6%)
Query: 10 VGRITIQLRYDLVPRTAENFRCLCTHEKGFGYQGSSFHRIIPDF 53
+G I ++L + P+T +NF L +G+ Y G+ FHRII DF
Sbjct: 20 MGIIVLELYWKHAPKTCKNFAELA--RRGY-YNGTKFHRIIKDF 60
>2x7k_A Peptidyl-prolyl CIS-trans isomerase-like 1;
isomerase-immunosuppressant complex, immunosuppressant;
HET: MLE MVA BMT ABA SAR; 1.15A {Homo sapiens} PDB:
1xwn_A
Length = 166
Score = 172 bits (439), Expect = 3e-54
Identities = 61/129 (47%), Positives = 83/129 (64%), Gaps = 10/129 (7%)
Query: 160 ASIDPKTKKNPQVYMDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEKGFGYQGSSF 219
A+I P + + P VY++ +G I ++L + P+T +NF L +G+ Y G+ F
Sbjct: 2 AAIPPDSWQPPNVYLET-----SMGIIVLELYWKHAPKTCKNFAELA--RRGY-YNGTKF 53
Query: 220 HRIIPDFMCQGGDFTNHNGTGGKSIYGNKFEDE-NFILKHTGPGVLSMANSGPNTNGSQF 278
HRII DFM QGGD T G GG SIYG +FEDE + LK TG G+L+MAN+GP+TNGSQF
Sbjct: 54 HRIIKDFMIQGGDPTG-TGRGGASIYGKQFEDELHPDLKFTGAGILAMANAGPDTNGSQF 112
Query: 279 FLCTTKTEW 287
F+ T+W
Sbjct: 113 FVTLAPTQW 121
Score = 58.4 bits (142), Expect = 8e-11
Identities = 18/44 (40%), Positives = 27/44 (61%), Gaps = 3/44 (6%)
Query: 10 VGRITIQLRYDLVPRTAENFRCLCTHEKGFGYQGSSFHRIIPDF 53
+G I ++L + P+T +NF L +G+ Y G+ FHRII DF
Sbjct: 20 MGIIVLELYWKHAPKTCKNFAELA--RRGY-YNGTKFHRIIKDF 60
>2fu0_A Cyclophilin, putative; PFE0505W, cyclosporin-binding domain,
structura genomics, structural genomics consortium, SGC,
unknown FUNC; 1.80A {Plasmodium falciparum} SCOP:
b.62.1.1
Length = 160
Score = 168 bits (429), Expect = 7e-53
Identities = 51/106 (48%), Positives = 65/106 (61%), Gaps = 5/106 (4%)
Query: 183 VGRITIQLRYDLVPRTAENFRCLCTHEKGFGYQGSSFHRIIPDFMCQGGDFTNHNGTGGK 242
+G I I L Y +T +NF G+ Y FHR+I FM Q GD + +GTGG+
Sbjct: 14 MGDIHISLFYKECKKTVQNFSVHSI--NGY-YNNCIFHRVIKHFMVQTGDPSG-DGTGGE 69
Query: 243 SIYGNKFEDENF-ILKHTGPGVLSMANSGPNTNGSQFFLCTTKTEW 287
SI+GN+FEDE F L H+ P ++SMAN GPNTNGSQFF+ T W
Sbjct: 70 SIWGNEFEDEFFDHLNHSKPFMVSMANCGPNTNGSQFFITTVPCPW 115
Score = 58.7 bits (143), Expect = 5e-11
Identities = 15/44 (34%), Positives = 20/44 (45%), Gaps = 3/44 (6%)
Query: 10 VGRITIQLRYDLVPRTAENFRCLCTHEKGFGYQGSSFHRIIPDF 53
+G I I L Y +T +NF G+ Y FHR+I F
Sbjct: 14 MGDIHISLFYKECKKTVQNFSVHSI--NGY-YNNCIFHRVIKHF 54
>2b71_A Cyclophilin-like protein; structural genomics, structural genomics
consortium, SGC, isomerase; 2.50A {Plasmodium yoelii}
SCOP: b.62.1.1
Length = 196
Score = 164 bits (416), Expect = 2e-50
Identities = 55/106 (51%), Positives = 68/106 (64%), Gaps = 5/106 (4%)
Query: 183 VGRITIQLRYDLVPRTAENFRCLCTHEKGFGYQGSSFHRIIPDFMCQGGDFTNHNGTGGK 242
+G ++L + P+T NF LC E GF Y + FHR+IP+F+ QGGD T G GGK
Sbjct: 47 LGDFEVELYWYHSPKTCLNFYTLC--EMGF-YDNTIFHRVIPNFVIQGGDPTG-TGKGGK 102
Query: 243 SIYGNKFEDE-NFILKHTGPGVLSMANSGPNTNGSQFFLCTTKTEW 287
SIYG FEDE N LKHTG G+LSM+N+GPNTN SQFF+
Sbjct: 103 SIYGEYFEDEINKELKHTGAGILSMSNNGPNTNSSQFFITLAPLPH 148
Score = 58.1 bits (141), Expect = 2e-10
Identities = 18/44 (40%), Positives = 26/44 (59%), Gaps = 3/44 (6%)
Query: 10 VGRITIQLRYDLVPRTAENFRCLCTHEKGFGYQGSSFHRIIPDF 53
+G ++L + P+T NF LC E GF Y + FHR+IP+F
Sbjct: 47 LGDFEVELYWYHSPKTCLNFYTLC--EMGF-YDNTIFHRVIPNF 87
>2poe_A Cyclophilin-like protein, putative; cryptosporidium parvum
cyclophilin isomerase, structural genomics; 2.01A
{Cryptosporidium parvum iowa II} PDB: 2qer_A
Length = 185
Score = 153 bits (389), Expect = 1e-46
Identities = 45/128 (35%), Positives = 64/128 (50%), Gaps = 9/128 (7%)
Query: 165 KTKKNPQVYMDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEKGFGYQGSSFHRIIP 224
+ +Y G + +L P+ +NF L G+ Y+ + FH+ I
Sbjct: 7 HSSGRENLYFQGVRIITNYGDLKFELFCSQCPKACKNFLALS--ASGY-YKNTIFHKNIK 63
Query: 225 DFMCQGGDFTNHNGTGGKSIYGNKFEDENFI-LKHTGPGVLSMANSG----PNTNGSQFF 279
F+ QGGD T G GG+SIYG F+DE + LK+ G+LSMA+ G PNTNGSQFF
Sbjct: 64 GFIIQGGDPTG-TGKGGESIYGRYFDDEIYPELKYDRRGILSMASKGASKKPNTNGSQFF 122
Query: 280 LCTTKTEW 287
+ +
Sbjct: 123 ITYSSLPQ 130
Score = 55.4 bits (134), Expect = 2e-09
Identities = 12/44 (27%), Positives = 20/44 (45%), Gaps = 3/44 (6%)
Query: 10 VGRITIQLRYDLVPRTAENFRCLCTHEKGFGYQGSSFHRIIPDF 53
G + +L P+ +NF L G+ Y+ + FH+ I F
Sbjct: 25 YGDLKFELFCSQCPKACKNFLALS--ASGY-YKNTIFHKNIKGF 65
>2ok3_A Peptidyl-prolyl CIS-trans isomerase-like 3; beta-barrel, helix,
disulfide bridge; 2.00A {Homo sapiens} SCOP: b.62.1.1
PDB: 1xyh_A 2oju_A*
Length = 161
Score = 152 bits (387), Expect = 2e-46
Identities = 54/106 (50%), Positives = 64/106 (60%), Gaps = 5/106 (4%)
Query: 183 VGRITIQLRYDLVPRTAENFRCLCTHEKGFGYQGSSFHRIIPDFMCQGGDFTNHNGTGGK 242
VG I I++ + P+T ENF LC + Y G FHR I FM Q GD T G GG
Sbjct: 9 VGDIKIEVFCERTPKTCENFLALC--ASNY-YNGCIFHRNIKGFMVQTGDPTG-TGRGGN 64
Query: 243 SIYGNKFEDE-NFILKHTGPGVLSMANSGPNTNGSQFFLCTTKTEW 287
SI+G KFEDE + LKH GV+SMAN+GPNTNGSQFF+ K
Sbjct: 65 SIWGKKFEDEYSEYLKHNVRGVVSMANNGPNTNGSQFFITYGKQPH 110
Score = 54.1 bits (131), Expect = 3e-09
Identities = 18/44 (40%), Positives = 23/44 (52%), Gaps = 3/44 (6%)
Query: 10 VGRITIQLRYDLVPRTAENFRCLCTHEKGFGYQGSSFHRIIPDF 53
VG I I++ + P+T ENF LC + Y G FHR I F
Sbjct: 9 VGDIKIEVFCERTPKTCENFLALC--ASNY-YNGCIFHRNIKGF 49
>2hq6_A Serologically defined colon cancer antigen 10; protein folding,
peptidyl-prolyl CIS-trans isomerase, struct genomics;
1.75A {Homo sapiens}
Length = 185
Score = 151 bits (383), Expect = 1e-45
Identities = 45/133 (33%), Positives = 68/133 (51%), Gaps = 6/133 (4%)
Query: 156 EKLAASIDPKTKKNPQVYMDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEKGFGYQ 215
+S P + + K G I I+L P+ NF LC + + Y
Sbjct: 7 HHHHSSGLVPRGSEPPTNGKVLL-KTTAGDIDIELWSKEAPKACRNFIQLC--LEAY-YD 62
Query: 216 GSSFHRIIPDFMCQGGDFTNHNGTGGKSIYGNKFEDE-NFILKHTGPGVLSMANSGPNTN 274
+ FHR++P F+ QGGD T G+GG+SIYG F+DE + L+ G+++MAN+G + N
Sbjct: 63 NTIFHRVVPGFIVQGGDPTG-TGSGGESIYGAPFKDEFHSRLRFNRRGLVAMANAGSHDN 121
Query: 275 GSQFFLCTTKTEW 287
GSQFF + +
Sbjct: 122 GSQFFFTLGRADE 134
Score = 53.0 bits (128), Expect = 1e-08
Identities = 15/45 (33%), Positives = 23/45 (51%), Gaps = 3/45 (6%)
Query: 10 VGRITIQLRYDLVPRTAENFRCLCTHEKGFGYQGSSFHRIIPDFV 54
G I I+L P+ NF LC + + Y + FHR++P F+
Sbjct: 33 AGDIDIELWSKEAPKACRNFIQLC--LEAY-YDNTIFHRVVPGFI 74
>1zkc_A Peptidyl-prolyl CIS-trans isomerase like 2; CIS-trans
isomerization, peptidylprolyl isomerase, protein-
folding, structural genomics consortium; 1.65A {Homo
sapiens} SCOP: b.62.1.1
Length = 197
Score = 150 bits (382), Expect = 2e-45
Identities = 52/106 (49%), Positives = 68/106 (64%), Gaps = 5/106 (4%)
Query: 183 VGRITIQLRYDLVPRTAENFRCLCTHEKGFGYQGSSFHRIIPDFMCQGGDFTNHNGTGGK 242
G + ++L DL P+T ENF LC +K + Y G+ FHR I +F+ QGGD T GTGG+
Sbjct: 28 KGDLNLELHCDLTPKTCENFIRLC--KKHY-YDGTIFHRSIRNFVIQGGDPTG-TGTGGE 83
Query: 243 SIYGNKFEDE-NFILKHTGPGVLSMANSGPNTNGSQFFLCTTKTEW 287
S +G F+DE L HTG G+LSMANSGPN+N SQFF+ +
Sbjct: 84 SYWGKPFKDEFRPNLSHTGRGILSMANSGPNSNRSQFFITFRSCAY 129
Score = 54.7 bits (132), Expect = 3e-09
Identities = 19/44 (43%), Positives = 27/44 (61%), Gaps = 3/44 (6%)
Query: 10 VGRITIQLRYDLVPRTAENFRCLCTHEKGFGYQGSSFHRIIPDF 53
G + ++L DL P+T ENF LC +K + Y G+ FHR I +F
Sbjct: 28 KGDLNLELHCDLTPKTCENFIRLC--KKHY-YDGTIFHRSIRNF 68
>3bo7_A Peptidyl-prolyl CIS-trans isomerase cyclophilin-T;
isomerase-immunosuppressant complex, immunosuppressant,
cyclophilin, structural G structural genomics
consortium, SGC; HET: BMT; 2.35A {Toxoplasma gondii}
Length = 201
Score = 149 bits (377), Expect = 1e-44
Identities = 40/117 (34%), Positives = 55/117 (47%), Gaps = 15/117 (12%)
Query: 183 VGRITIQLRYDLVPRTAENFRCLCTHEKGFGYQGSSFHRIIPDFMCQGGDFTNH----NG 238
G + I+L D+ PR ++F LC + + + FHR I +FM QGG
Sbjct: 15 QGSLNIELHADMAPRACDSFLRLC--AVKY-FDDTIFHRCIRNFMIQGGRAELRQPSKKK 71
Query: 239 TGGKSIY-------GNKFEDE-NFILKHTGPGVLSMANSGPNTNGSQFFLCTTKTEW 287
+S G FEDE + L H G GVLSMAN G ++N S+FF+ E
Sbjct: 72 EVQQSPRSISGFPGGAPFEDEFDNRLVHQGIGVLSMANDGKHSNLSEFFITFKSCEH 128
Score = 58.5 bits (142), Expect = 2e-10
Identities = 14/44 (31%), Positives = 23/44 (52%), Gaps = 3/44 (6%)
Query: 10 VGRITIQLRYDLVPRTAENFRCLCTHEKGFGYQGSSFHRIIPDF 53
G + I+L D+ PR ++F LC + + + FHR I +F
Sbjct: 15 QGSLNIELHADMAPRACDSFLRLC--AVKY-FDDTIFHRCIRNF 55
>1w74_A Peptidyl-prolyl CIS-trans isomerase A; cyclophilin, ppiase, RV0009,
rotamase, structural proteomics in europe, spine; 2.6A
{Mycobacterium tuberculosis} SCOP: b.62.1.1
Length = 191
Score = 136 bits (345), Expect = 6e-40
Identities = 49/148 (33%), Positives = 63/148 (42%), Gaps = 22/148 (14%)
Query: 153 DPAEKLAASIDPKTKKNPQVYMDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEKGF 212
+ S+ + G I I L + P+T NF L K +
Sbjct: 7 HHSGADCDSVTNSPLATATATL-----HTNRGDIKIALFGNHAPKTVANFVGLAQGTKDY 61
Query: 213 G------------YQGSSFHRIIPDFMCQGGDFTNHNGTGGKSIYGNKFEDE-NFILKHT 259
Y G+ FHR+I FM QGGD T G GG G KF DE + L+
Sbjct: 62 STQNASGGPSGPFYDGAVFHRVIQGFMIQGGDPTG-TGRGGP---GYKFADEFHPELQFD 117
Query: 260 GPGVLSMANSGPNTNGSQFFLCTTKTEW 287
P +L+MAN+GP TNGSQFF+ KT
Sbjct: 118 KPYLLAMANAGPGTNGSQFFITVGKTPH 145
Score = 50.5 bits (121), Expect = 8e-08
Identities = 17/55 (30%), Positives = 22/55 (40%), Gaps = 12/55 (21%)
Query: 11 GRITIQLRYDLVPRTAENFRCLCTHEKGFG------------YQGSSFHRIIPDF 53
G I I L + P+T NF L K + Y G+ FHR+I F
Sbjct: 33 GDIKIALFGNHAPKTVANFVGLAQGTKDYSTQNASGGPSGPFYDGAVFHRVIQGF 87
>3bkp_A Cyclophilin; malaria, isomerase, structural GENO structural
genomics consortium, SGC; 1.80A {Toxoplasma gondii}
Length = 232
Score = 129 bits (327), Expect = 8e-37
Identities = 37/122 (30%), Positives = 58/122 (47%), Gaps = 21/122 (17%)
Query: 183 VGRITIQLRYDLVPRTAENFRCLCTHEKGFGYQGSSFHRIIPDFMCQGGDFTNHNGTGGK 242
+G + ++L P NF LC +G+ Y + FHR++ DF+ QGGD T G GG
Sbjct: 30 LGDLDVELWARECPLACRNFVQLC--LEGY-YVNTIFHRVVKDFIVQGGDPTG-TGRGGA 85
Query: 243 --SIYGNKFEDE-NFILKHTGPGVLSMANSGPN--------------TNGSQFFLCTTKT 285
+ G F+ E + LK G++ +AN G + TNG+QFF+ +
Sbjct: 86 DTTFDGKPFDVETHPRLKFRYRGLVGVANLGRSSKDAENDERGRSLGTNGNQFFITLARA 145
Query: 286 EW 287
+
Sbjct: 146 DV 147
Score = 52.1 bits (125), Expect = 4e-08
Identities = 14/45 (31%), Positives = 24/45 (53%), Gaps = 3/45 (6%)
Query: 10 VGRITIQLRYDLVPRTAENFRCLCTHEKGFGYQGSSFHRIIPDFV 54
+G + ++L P NF LC +G+ Y + FHR++ DF+
Sbjct: 30 LGDLDVELWARECPLACRNFVQLC--LEGY-YVNTIFHRVVKDFI 71
>3s6m_A Peptidyl-prolyl CIS-trans isomerase; seattle structural genomics
center for infectious disease; 1.65A {Burkholderia
pseudomallei} PDB: 3t1u_A*
Length = 167
Score = 102 bits (257), Expect = 5e-27
Identities = 33/114 (28%), Positives = 49/114 (42%), Gaps = 14/114 (12%)
Query: 168 KNPQVYMDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEKGFGYQGSSFHRIIPDFM 227
V + G I ++L P+T ENF +KG Y G+ FHR+I FM
Sbjct: 2 PGSMVEL-----HTNHGVIKLELDEAKAPKTVENFLNYV--KKGH-YDGTIFHRVINGFM 53
Query: 228 CQGGDFTNHNGTGGKSIYGNKFEDE-NFILKHTGPGVLSMA-NSGPNTNGSQFF 279
QGG F + +E N LK+ ++MA + P++ +QFF
Sbjct: 54 IQGGGFE-PGLKQKPT--DAPIANEANNGLKND-TYTIAMARTNDPHSATAQFF 103
Score = 50.2 bits (121), Expect = 6e-08
Identities = 17/44 (38%), Positives = 24/44 (54%), Gaps = 3/44 (6%)
Query: 11 GRITIQLRYDLVPRTAENFRCLCTHEKGFGYQGSSFHRIIPDFV 54
G I ++L P+T ENF +KG Y G+ FHR+I F+
Sbjct: 13 GVIKLELDEAKAPKTVENFLNYV--KKGH-YDGTIFHRVINGFM 53
>1lop_A Cyclophilin A; rotamase, isomerase-isomerase inhibitor complex;
HET: NIT; 1.80A {Escherichia coli} SCOP: b.62.1.1 PDB:
2nul_A 2rs4_A
Length = 164
Score = 100 bits (251), Expect = 3e-26
Identities = 35/99 (35%), Positives = 48/99 (48%), Gaps = 11/99 (11%)
Query: 184 GRITIQLRYDLVPRTAENFRCLCTHEKGFGYQGSSFHRIIPDFMCQGGDFTNHNGTGGKS 243
G I I+ D P T +NF C +GF Y + FHR+I FM QGG F +
Sbjct: 9 GDIVIKTFDDKAPETVKNFLDYC--REGF-YNNTIFHRVINGFMIQGGGFE---PGMKQK 62
Query: 244 IYGNKFEDE--NFILKHTGPGVLSMA-NSGPNTNGSQFF 279
++E N LK+T G L+MA P++ +QFF
Sbjct: 63 ATKEPIKNEANNG-LKNT-RGTLAMARTQAPHSATAQFF 99
Score = 50.2 bits (121), Expect = 7e-08
Identities = 17/44 (38%), Positives = 23/44 (52%), Gaps = 3/44 (6%)
Query: 11 GRITIQLRYDLVPRTAENFRCLCTHEKGFGYQGSSFHRIIPDFV 54
G I I+ D P T +NF C +GF Y + FHR+I F+
Sbjct: 9 GDIVIKTFDDKAPETVKNFLDYC--REGF-YNNTIFHRVINGFM 49
>1v9t_A Cyclophilin B; beta barrel, isomerase-isomerase inhibitor complex;
HET: NIT; 1.70A {Escherichia coli} SCOP: b.62.1.1 PDB:
1j2a_A* 1vai_A* 1clh_A
Length = 166
Score = 98.8 bits (247), Expect = 1e-25
Identities = 37/114 (32%), Positives = 54/114 (47%), Gaps = 12/114 (10%)
Query: 167 KKNPQVYMDIKIGKQEVGRITIQLRYDLVPRTAENFRCLCTHEKGFGYQGSSFHRIIPDF 226
K +P V + G I ++L P + +NF GF Y ++FHR+IP F
Sbjct: 2 KGDPHVLLTT-----SAGNIELELDKQKAPVSVQNFVDYV--NSGF-YNNTTFHRVIPGF 53
Query: 227 MCQGGDFTNHNGTGGKSIYGNKFEDENFILKHTGPGVLSMA-NSGPNTNGSQFF 279
M QGG FT K K E +N L++T G ++MA + ++ SQFF
Sbjct: 54 MIQGGGFTE-QMQQKKPNPPIKNEADNG-LRNT-RGTIAMARTADKDSATSQFF 104
Score = 49.9 bits (120), Expect = 8e-08
Identities = 15/44 (34%), Positives = 23/44 (52%), Gaps = 3/44 (6%)
Query: 11 GRITIQLRYDLVPRTAENFRCLCTHEKGFGYQGSSFHRIIPDFV 54
G I ++L P + +NF GF Y ++FHR+IP F+
Sbjct: 14 GNIELELDKQKAPVSVQNFVDYV--NSGF-YNNTTFHRVIPGFM 54
>3rfy_A Peptidyl-prolyl CIS-trans isomerase CYP38, chloro; cyclophilin,
peptidyl prolyl isomerase, ppiase, TLP,; 2.39A
{Arabidopsis thaliana}
Length = 369
Score = 99.0 bits (246), Expect = 5e-24
Identities = 36/171 (21%), Positives = 58/171 (33%), Gaps = 38/171 (22%)
Query: 145 TLDPENQIDPAEKLAASIDPKTKKNPQVYMDIKIGKQEVGRITIQLRYDLVPRTAENFRC 204
+ E + P K AS+D K K ++ I L P TA NF
Sbjct: 156 EVPEEYRNMPLLKGRASVDMKVKIKDNPNIED-------CVFRIVLDGYNAPVTAGNFVD 208
Query: 205 LCTHEKGFGYQGSSFHRIIPDFMCQGGD-------FTNHNGTGGKSI------------- 244
L E+ F Y G R F+ Q GD F + + +++
Sbjct: 209 LV--ERHF-YDGMEIQRS-DGFVVQTGDPEGPAEGFIDPSTEKTRTVPLEIMVTGEKTPF 264
Query: 245 YGNKFED-----ENFILKHTGPGVLSMANSG--PNTNGSQFFLCTTKTEWN 288
YG+ E+ ++ G ++MA ++ SQ F ++E
Sbjct: 265 YGSTLEELGLYKAQVVIPFNAFGTMAMAREEFENDSGSSQVFWLLKESELT 315
Score = 43.5 bits (102), Expect = 4e-05
Identities = 15/44 (34%), Positives = 16/44 (36%), Gaps = 4/44 (9%)
Query: 11 GRITIQLRYDLVPRTAENFRCLCTHEKGFGYQGSSFHRIIPDFV 54
I L P TA NF L E+ F Y G R FV
Sbjct: 188 CVFRIVLDGYNAPVTAGNFVDLV--ERHF-YDGMEIQR-SDGFV 227
>2cqb_A Peptidyl-prolyl CIS-trans isomerase E; RNA recognition motif,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 102
Score = 66.9 bits (164), Expect = 2e-14
Identities = 44/82 (53%), Positives = 53/82 (64%), Gaps = 24/82 (29%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEKHQ----------------------- 107
GGLAEEVDDKVL+AAFIPFGD+ DIQ+PLDYETEKH+
Sbjct: 18 GGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNES 77
Query: 108 -LFGRIIRVNLAKPQKVQQTSS 128
LFGR IRVNLAKP +++++
Sbjct: 78 ELFGRTIRVNLAKPMRIKESGP 99
>3mdf_A Peptidyl-prolyl CIS-trans isomerase E; RRM domain, PHD finger,
CYP33, MLL, RNA binding protein, ALT splicing, mRNA
processing, mRNA splicing; 1.85A {Homo sapiens} PDB:
2kyx_A 3lpy_A*
Length = 85
Score = 64.9 bits (159), Expect = 6e-14
Identities = 43/73 (58%), Positives = 47/73 (64%), Gaps = 24/73 (32%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEKHQ----------------------- 107
GGLAEEVDDKVL+AAFIPFGD+ DIQ+PLDYETEKH+
Sbjct: 13 GGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNES 72
Query: 108 -LFGRIIRVNLAK 119
LFGR IRVNLAK
Sbjct: 73 ELFGRTIRVNLAK 85
>2ku7_A MLL1 PHD3-CYP33 RRM chimeric protein; transcriptional regulation,
RRM domain, transcr; NMR {Homo sapiens}
Length = 140
Score = 64.4 bits (157), Expect = 4e-13
Identities = 42/72 (58%), Positives = 46/72 (63%), Gaps = 24/72 (33%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEKHQ----------------------- 107
GGLAEEVDDKVL+AAFIPFGD+ DIQ+PLDYETEKH+
Sbjct: 69 GGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNES 128
Query: 108 -LFGRIIRVNLA 118
LFGR IRVNLA
Sbjct: 129 ELFGRTIRVNLA 140
>1x5u_A Splicing factor 3B subunit 4 (spliceosome associated protein 49)
(SAP 49) (SF3B50)...; structure genomics,RRM
domain,splicing factor 3B; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 105
Score = 61.5 bits (150), Expect = 2e-12
Identities = 22/76 (28%), Positives = 31/76 (40%), Gaps = 24/76 (31%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEKHQ----------------------- 107
GGL E+V + +L F+ G +V+ MP D T +HQ
Sbjct: 21 GGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMI 80
Query: 108 -LFGRIIRVNLAKPQK 122
L+G+ IRVN A
Sbjct: 81 KLYGKPIRVNKASAHN 96
>2fy1_A RNA-binding motif protein, Y chromosome, family 1 member A1; RNA
binding protein, structure, protein-RNA complex, RNA
stem-loop, structural protein/RNA complex; NMR {Homo
sapiens}
Length = 116
Score = 48.9 bits (117), Expect = 7e-08
Identities = 19/92 (20%), Positives = 30/92 (32%), Gaps = 25/92 (27%)
Query: 64 KSRFSNL--GGLAEEVDDKVLNAAFIPFGDLVDIQMPLD------------YETEK---- 105
L GGL E ++K+L A F G + ++ + D +E
Sbjct: 4 ADHPGKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRTSKSRGFAFITFENPADAKN 63
Query: 106 -------HQLFGRIIRVNLAKPQKVQQTSSKP 130
L G+ I+V AK Q +
Sbjct: 64 AAKDMNGKSLHGKAIKVEQAKKPSFQSGGRRR 95
>1x5p_A Negative elongation factor E; structure genomics, RRM domain,
PARP14, structural genomics, NPPSFA; NMR {Homo sapiens}
SCOP: d.58.7.1
Length = 97
Score = 47.3 bits (113), Expect = 2e-07
Identities = 16/76 (21%), Positives = 31/76 (40%), Gaps = 20/76 (26%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLD-------YETEKH-----------QLFGRI 112
G ++ +L AF PFG+++D+ M YE + Q+
Sbjct: 21 YGE--DMTPTLLRGAFSPFGNIIDLSMDPPRNCAFVTYEKMESADQAVAELNGTQVESVQ 78
Query: 113 IRVNLAKPQKVQQTSS 128
++VN+A+ Q + +
Sbjct: 79 LKVNIARKQPMLDSGP 94
>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A {Homo
sapiens} SCOP: d.58.7.1
Length = 106
Score = 47.3 bits (113), Expect = 2e-07
Identities = 13/76 (17%), Positives = 26/76 (34%), Gaps = 24/76 (31%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEK------------------------H 106
G+ EE ++ ++ F +G++ +I + LD T
Sbjct: 29 TGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQ 88
Query: 107 QLFGRIIRVNLAKPQK 122
L G+ I V+ +
Sbjct: 89 DLMGQPISVDWCFVRG 104
>2dgu_A Heterogeneous nuclear ribonucleoprotein Q; RRM domain, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens} PDB: 2dk2_A
Length = 103
Score = 46.9 bits (112), Expect = 3e-07
Identities = 21/87 (24%), Positives = 31/87 (35%), Gaps = 18/87 (20%)
Query: 61 QSLKSRFSNL--GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDY----------------E 102
S ++ L LA V +++L AF FG L ++ DY E
Sbjct: 5 SSGMAKVKVLFVRNLANTVTEEILEKAFSQFGKLERVKKLKDYAFIHFDERDGAVKAMEE 64
Query: 103 TEKHQLFGRIIRVNLAKPQKVQQTSSK 129
L G I + AKP ++ K
Sbjct: 65 MNGKDLEGENIEIVFAKPPDQKRKERK 91
>2bz2_A Negative elongation factor E; NELF E, RNA recognition motif,
alternative splicing, nuclear protein, phosphorylation,
repeat, repressor; NMR {Homo sapiens} SCOP: d.58.7.1
PDB: 2jx2_A
Length = 121
Score = 47.1 bits (112), Expect = 3e-07
Identities = 16/78 (20%), Positives = 32/78 (41%), Gaps = 20/78 (25%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLD-------YETEKH-----------QLFGRI 112
G ++ +L AF PFG+++D+ M YE + Q+
Sbjct: 45 YGE--DMTPTLLRGAFSPFGNIIDLSMDPPRNCAFVTYEKMESADQAVAELNGTQVESVQ 102
Query: 113 IRVNLAKPQKVQQTSSKP 130
++VN+A+ Q + ++
Sbjct: 103 LKVNIARKQPMLDAATGK 120
>2dnm_A SRP46 splicing factor; RRM domain, RBD, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 103
Score = 46.4 bits (111), Expect = 4e-07
Identities = 13/76 (17%), Positives = 24/76 (31%), Gaps = 24/76 (31%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEK------------------------H 106
L L F +G + D+ +P + T+
Sbjct: 19 DNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAMDGA 78
Query: 107 QLFGRIIRVNLAKPQK 122
+L GR +RV +A+ +
Sbjct: 79 ELDGRELRVQVARYGR 94
>1rk8_A CG8781-PA, CG8781-PA protein; mRNA processing, RRM, RBD, NMD, oskar
mRNA localization, translation; 1.90A {Drosophila
melanogaster} SCOP: d.58.7.1 PDB: 1hl6_A 2x1g_A
Length = 165
Score = 47.9 bits (114), Expect = 5e-07
Identities = 11/76 (14%), Positives = 25/76 (32%), Gaps = 24/76 (31%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEKH------------------------ 106
+ EE + + F +G++ +I + LD T
Sbjct: 78 TSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGA 137
Query: 107 QLFGRIIRVNLAKPQK 122
++ G+ I+V+ +
Sbjct: 138 EIMGQTIQVDWCFVKG 153
>2cqi_A Nucleolysin TIAR; RNA recognition motif, RRM, RNA binding domain,
RBD, RNP, ST genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 103
Score = 46.5 bits (111), Expect = 5e-07
Identities = 11/78 (14%), Positives = 27/78 (34%), Gaps = 22/78 (28%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEK----------------------HQL 108
G L+ +V + ++ F G +M ++ + ++
Sbjct: 21 GNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAMNGRKI 80
Query: 109 FGRIIRVNLAKPQKVQQT 126
G+ ++VN A Q++
Sbjct: 81 LGKEVKVNWATTPSSQKS 98
>1oo0_B CG8781-PA, drosophila Y14; RNA recognition motif, splicing, protein
complex, EXON junct complex, signaling protein; 1.85A
{Drosophila melanogaster} SCOP: d.58.7.1 PDB: 2hyi_B*
2j0s_D* 2xb2_D*
Length = 110
Score = 46.1 bits (110), Expect = 7e-07
Identities = 11/76 (14%), Positives = 25/76 (32%), Gaps = 24/76 (31%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEK------------------------H 106
+ EE + + F +G++ +I + LD T
Sbjct: 32 TSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGA 91
Query: 107 QLFGRIIRVNLAKPQK 122
++ G+ I+V+ +
Sbjct: 92 EIMGQTIQVDWCFVKG 107
>2cq0_A Eukaryotic translation initiation factor 3 subunit 4; RRM domain,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 103
Score = 45.7 bits (109), Expect = 7e-07
Identities = 15/76 (19%), Positives = 22/76 (28%), Gaps = 24/76 (31%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEK------------------------H 106
L+E+ + L F PFG + I + D T +
Sbjct: 21 TNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSGF 80
Query: 107 QLFGRIIRVNLAKPQK 122
I+ V AKP
Sbjct: 81 GYDHLILNVEWAKPST 96
>2kxn_B Transformer-2 protein homolog beta; SR protein, RRM, splicing
factor, RNA protein complex, SMN, binding protein-RNA
complex; NMR {Homo sapiens} PDB: 2rra_A 2rrb_A
Length = 129
Score = 45.5 bits (108), Expect = 2e-06
Identities = 13/76 (17%), Positives = 28/76 (36%), Gaps = 24/76 (31%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEK------------------------H 106
GL+ ++ L F +G + D+ + D ++ +
Sbjct: 52 FGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGM 111
Query: 107 QLFGRIIRVNLAKPQK 122
+L GR IRV+ + ++
Sbjct: 112 ELDGRRIRVDFSITKR 127
>2dgs_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens}
Length = 99
Score = 44.5 bits (106), Expect = 2e-06
Identities = 14/81 (17%), Positives = 28/81 (34%), Gaps = 23/81 (28%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEK-----------------------HQ 107
GG+ + L F FG + ++ M D E ++ H
Sbjct: 16 GGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVNMHFHD 75
Query: 108 LFGRIIRVNLAKPQKVQQTSS 128
+ G+ + V A+P+ + +
Sbjct: 76 IMGKKVEVKRAEPRDSKSSGP 96
>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding
protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A
Length = 135
Score = 45.1 bits (107), Expect = 3e-06
Identities = 14/76 (18%), Positives = 24/76 (31%), Gaps = 24/76 (31%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEK------------------------H 106
L L F +G + D+ +P D T++
Sbjct: 53 DNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGA 112
Query: 107 QLFGRIIRVNLAKPQK 122
L GR +RV +A+ +
Sbjct: 113 VLDGRELRVQMARYGR 128
>4a8x_A RNA-binding protein with serine-rich domain 1; transcription,
splicing, RNA processing, nonsense mediated D NMD, HDAC,
histone deacetylation; 1.90A {Homo sapiens}
Length = 88
Score = 43.7 bits (104), Expect = 3e-06
Identities = 11/77 (14%), Positives = 18/77 (23%), Gaps = 25/77 (32%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLD-YETEKH----------------------- 106
G L V + F +G + I MP++
Sbjct: 10 GRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALKHMDG 69
Query: 107 -QLFGRIIRVNLAKPQK 122
Q+ G+ I
Sbjct: 70 GQIDGQEITATAVLAPW 86
>1x5s_A Cold-inducible RNA-binding protein; structure genomics, RRM domain,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 102
Score = 44.2 bits (105), Expect = 3e-06
Identities = 15/75 (20%), Positives = 27/75 (36%), Gaps = 24/75 (32%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYET------------------------EKH 106
GGL+ + +++ L F +G + ++ + D ET
Sbjct: 18 GGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGK 77
Query: 107 QLFGRIIRVNLAKPQ 121
+ GR IRV+ A
Sbjct: 78 SVDGRQIRVDQAGKS 92
>3ex7_B RNA-binding protein 8A; protein-RNA complex, mRNA processing, mRNA
splicing, mRNA transport, nonsense-mediated mRNA decay,
nucleus; HET: ADP; 2.30A {Homo sapiens} PDB: 2j0q_D*
Length = 126
Score = 44.7 bits (106), Expect = 3e-06
Identities = 13/76 (17%), Positives = 26/76 (34%), Gaps = 24/76 (31%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEK------------------------H 106
G+ EE ++ ++ F +G++ +I + LD T
Sbjct: 28 TGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQ 87
Query: 107 QLFGRIIRVNLAKPQK 122
L G+ I V+ +
Sbjct: 88 DLMGQPISVDWCFVRG 103
>2kn4_A Immunoglobulin G-binding protein G, splicing FACT
arginine/serine-rich 2, S35, splicing factor SC35,; RRM
domain, cell WALL; NMR {Streptococcus SP}
Length = 158
Score = 44.8 bits (106), Expect = 4e-06
Identities = 14/76 (18%), Positives = 24/76 (31%), Gaps = 24/76 (31%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEK------------------------H 106
L L F +G + D+ +P D T++
Sbjct: 76 DNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGA 135
Query: 107 QLFGRIIRVNLAKPQK 122
L GR +RV +A+ +
Sbjct: 136 VLDGRELRVQMARYGR 151
>1x4g_A Nucleolysin TIAR; structural genomics, RRM domain, TIA-1 related
protein, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 109
Score = 43.5 bits (103), Expect = 5e-06
Identities = 14/78 (17%), Positives = 31/78 (39%), Gaps = 20/78 (25%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLD-------YETEKH-----------QLFGRI 112
GG+A + D+++ F PFG +++I++ + + T + + G +
Sbjct: 31 GGIASGLTDQLMRQTFSPFGQIMEIRVFPEKGYSFVRFSTHESAAHAIVSVNGTTIEGHV 90
Query: 113 IRVNLAKPQ--KVQQTSS 128
++ K SS
Sbjct: 91 VKCYWGKESPDMTSGPSS 108
>2dnz_A Probable RNA-binding protein 23; RNA recognition motif, RRM, RNA
binding domain, RBD, RNP, structural genomics, NPPSFA;
NMR {Homo sapiens}
Length = 95
Score = 42.9 bits (102), Expect = 6e-06
Identities = 15/75 (20%), Positives = 26/75 (34%), Gaps = 24/75 (32%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEK------------------------H 106
G L + + +L F PFG + +I + D +T +
Sbjct: 11 GSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQLNGF 70
Query: 107 QLFGRIIRVNLAKPQ 121
+L GR +RV +
Sbjct: 71 ELAGRPMRVGHVTER 85
>2cqc_A Arginine/serine-rich splicing factor 10; RNA recognition motif,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 95
Score = 43.0 bits (102), Expect = 7e-06
Identities = 13/73 (17%), Positives = 25/73 (34%), Gaps = 24/73 (32%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEK------------------------H 106
GL+ ++ L F +G + D+ + D ++ +
Sbjct: 21 FGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGM 80
Query: 107 QLFGRIIRVNLAK 119
+L GR IRV+
Sbjct: 81 ELDGRRIRVSGPS 93
>2cq3_A RNA-binding protein 9; RRM domain, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 103
Score = 42.7 bits (101), Expect = 1e-05
Identities = 19/91 (20%), Positives = 29/91 (31%), Gaps = 26/91 (28%)
Query: 64 KSRFSNL--GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEK---------------- 105
KS L + D L F FG ++D+++ + K
Sbjct: 12 KSTPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRA 71
Query: 106 ------HQLFGRIIRVNLAKPQKVQQTSSKP 130
+ GR I VN A + T+S P
Sbjct: 72 REKLHGTVVEGRKIEVNNATAR--VMTNSGP 100
>2cpx_A Hypothetical protein FLJ11016; RRM domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 115
Score = 42.7 bits (101), Expect = 1e-05
Identities = 11/76 (14%), Positives = 24/76 (31%), Gaps = 24/76 (31%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEKH------------------------ 106
L+ V ++ L + F F + + T +
Sbjct: 31 KNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHLVNGY 90
Query: 107 QLFGRIIRVNLAKPQK 122
+L+G+I+ + K +K
Sbjct: 91 KLYGKILVIEFGKNKK 106
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 45.6 bits (107), Expect = 1e-05
Identities = 60/348 (17%), Positives = 98/348 (28%), Gaps = 104/348 (29%)
Query: 1 MDIKIGKQEVGRITIQLRY-DLVPRTAENFR--CLCTH----EKGFGYQGSSFHRII--P 51
MD + G+ Q +Y D++ + F C K II
Sbjct: 7 MDFETGEH-------QYQYKDILSVFEDAFVDNFDCKDVQDMPKSI-LSKEEIDHIIMSK 58
Query: 52 D--------FVSFMTKHQSLKSRFSNLGGLAEEVDDKVLNAAFI--PFGDLVDIQMPLD- 100
D F + ++K + + +F EEV N F+ P Q +
Sbjct: 59 DAVSGTLRLFWTLLSKQEEMVQKF------VEEVLRI--NYKFLMSPIKT-EQRQPSMMT 109
Query: 101 --YETEKHQLFG---RIIRVNLAKPQKVQQT--------------------SSKPVWASD 135
Y ++ +L+ + N+++ Q + S K A D
Sbjct: 110 RMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALD 169
Query: 136 T---------------WLQKHAGETLDPENQIDPAEKLAASIDPKTKKNPQVYMDIKI-- 178
WL + PE ++ +KL IDP +IK+
Sbjct: 170 VCLSYKVQCKMDFKIFWL--NLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRI 227
Query: 179 --GKQEVGRITIQLRYD---LV------PRTAE--NFRC---LCTHEKGFGYQGSSFHRI 222
+ E+ R+ Y+ LV + N C L T K S+
Sbjct: 228 HSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTT 287
Query: 223 IPDFMCQGGDFTNHNGTGGKSIYGNKFEDENFILKH----TGPGVLSM 266
T KS+ + L T P LS+
Sbjct: 288 HISLDHHSMTLTPDE---VKSLLLKYLDCRPQDLPREVLTTNPRRLSI 332
Score = 31.7 bits (71), Expect = 0.27
Identities = 18/131 (13%), Positives = 45/131 (34%), Gaps = 34/131 (25%)
Query: 1 MDIKI---GKQEVGRITIQLRYDLVPRTAENFRCLCTHEKG-----FGY---------QG 43
+++K+ + + R + Y++ P+T ++ + + G+ +
Sbjct: 433 LELKVKLENEYALHRSIVD-HYNI-PKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERM 490
Query: 44 SSFHRIIPDFVSFMTKHQSLKSRFSNLGGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYET 103
+ F + DF F+ + K R A +LN L ++ Y
Sbjct: 491 TLFRMVFLDF-RFLEQ----KIRHD---STAWNASGSILN-------TLQQLKFYKPYIC 535
Query: 104 EKHQLFGRIIR 114
+ + R++
Sbjct: 536 DNDPKYERLVN 546
Score = 27.1 bits (59), Expect = 8.7
Identities = 7/42 (16%), Positives = 19/42 (45%), Gaps = 11/42 (26%)
Query: 46 FHRIIPDFVSFMTKHQS--LKSRFSNL---------GGLAEE 76
+ R++ + F+ K + + S++++L + EE
Sbjct: 541 YERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEAIFEE 582
>1whw_A Hypothetical protein riken cDNA 1200009A02; RNA recognition motif,
RRM, RNA binding domain, RBD, RNP, structural genomics;
NMR {Mus musculus} SCOP: d.58.7.1
Length = 99
Score = 42.2 bits (100), Expect = 1e-05
Identities = 13/77 (16%), Positives = 26/77 (33%), Gaps = 24/77 (31%)
Query: 70 LGGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEK------------------------ 105
+ L+ ++ L F +G L ++ P+D T+K
Sbjct: 13 VRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDG 72
Query: 106 HQLFGRIIRVNLAKPQK 122
GR++ V + +K
Sbjct: 73 QVFQGRMLHVLPSTIKK 89
>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A
{Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A
Length = 216
Score = 43.8 bits (104), Expect = 2e-05
Identities = 16/93 (17%), Positives = 31/93 (33%), Gaps = 27/93 (29%)
Query: 65 SRFSNL--GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEKHQLFG------------ 110
F+ + + +++ D + + F FG + + D T KH+ +G
Sbjct: 123 RAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQD 182
Query: 111 ------------RIIRVNLA-KPQKVQQTSSKP 130
+ +RV A P T + P
Sbjct: 183 AVSSMNLFDLGGQYLRVGKAVTPPMPLLTPATP 215
Score = 42.7 bits (101), Expect = 5e-05
Identities = 19/88 (21%), Positives = 27/88 (30%), Gaps = 24/88 (27%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEKHQ----------------------- 107
G + E+ + + AF PFG + I M D T KH+
Sbjct: 34 GSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQMNSV 93
Query: 108 -LFGRIIRVNLAKPQKVQQTSSKPVWAS 134
L GR I+V Q +
Sbjct: 94 MLGGRNIKVGRPSNIGQAQPIIDQLAEE 121
>2la4_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNA
recognition, stress granules, nucleus, RNA-binding,
transcription; NMR {Saccharomyces cerevisiae}
Length = 101
Score = 41.9 bits (99), Expect = 2e-05
Identities = 12/69 (17%), Positives = 21/69 (30%), Gaps = 18/69 (26%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLD-------YETE-----------KHQLFGRI 112
G + + L F FG ++D + + Y+T GR
Sbjct: 33 GNIPHFATEADLIPLFQNFGFILDFKHYPEKGCCFIKYDTHEQAAVCIVALANFPFQGRN 92
Query: 113 IRVNLAKPQ 121
+R K +
Sbjct: 93 LRTGWGKER 101
>2e5h_A Zinc finger CCHC-type and RNA-binding motif- containing protein 1;
RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 94
Score = 41.1 bits (97), Expect = 3e-05
Identities = 15/72 (20%), Positives = 26/72 (36%), Gaps = 24/72 (33%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEK------------------------H 106
L + + L F +G +V + + D +T K
Sbjct: 22 SNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRAINNK 81
Query: 107 QLFGRIIRVNLA 118
QLFGR+I+ ++A
Sbjct: 82 QLFGRVIKASIA 93
>2cjk_A Nuclear polyadenylated RNA-binding protein 4; HRP1, RNA-binding,
RNA processing, mRNA processing, nonsense-mediated mRNA
decay, cleavage; NMR {Saccharomyces cerevisiae} PDB:
2km8_C
Length = 167
Score = 42.1 bits (100), Expect = 4e-05
Identities = 17/81 (20%), Positives = 29/81 (35%), Gaps = 22/81 (27%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYET----------------------EKHQL 108
GGL + + L F +G + D+++ D T +H L
Sbjct: 9 GGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKTQHIL 68
Query: 109 FGRIIRVNLAKPQKVQQTSSK 129
G++I A P+ Q + K
Sbjct: 69 DGKVIDPKRAIPRDEQDKTGK 89
Score = 40.2 bits (95), Expect = 2e-04
Identities = 15/73 (20%), Positives = 25/73 (34%), Gaps = 23/73 (31%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEK-----------------------HQ 107
GG+ +V K F +G ++D Q+ LD +T +
Sbjct: 93 GGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRVCQNKFID 152
Query: 108 LFGRIIRVNLAKP 120
R I + A+P
Sbjct: 153 FKDRKIEIKRAEP 165
>2cqh_A IGF-II mRNA-binding protein 2 isoform A; RNA recognition motif,
RRM, RNA binding domain, RBD, RNP, structural genomics,
NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 93
Score = 40.7 bits (96), Expect = 4e-05
Identities = 15/79 (18%), Positives = 24/79 (30%), Gaps = 21/79 (26%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVD-----------IQMPLDYETE--------KHQLFGR 111
G L+ V L F + + P K +L G+
Sbjct: 14 GNLSPAVTADDLRQLFGDRKLPLAGQVLLKSGYAFVDYPDQNWAIRAIETLSGKVELHGK 73
Query: 112 IIRVNLAKPQKVQQTSSKP 130
I+ V+ + +K SS P
Sbjct: 74 IMEVDYSVSKK--LRSSGP 90
>1h2v_Z 20 kDa nuclear CAP binding protein; CAP-binding-complex, RNP
domain, MIF4G domain, RNA maturation, RNA export,
nuclear protein, RNA-binding; 2.0A {Homo sapiens} SCOP:
d.58.7.1 PDB: 1h2u_X* 1h2t_Z 1n52_B* 1n54_B 3fex_B
3fey_B 1h6k_X
Length = 156
Score = 42.1 bits (99), Expect = 4e-05
Identities = 15/76 (19%), Positives = 23/76 (30%), Gaps = 24/76 (31%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEK------------------------H 106
G L+ ++ + F GD+ I M LD +
Sbjct: 45 GNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGT 104
Query: 107 QLFGRIIRVNLAKPQK 122
+L RIIR + K
Sbjct: 105 RLDDRIIRTDWDAGFK 120
>3md1_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RBD,
RNP, poly(U) binding, nucleus, RNA-binding, binding
protein; 1.60A {Saccharomyces cerevisiae}
Length = 83
Score = 40.6 bits (96), Expect = 4e-05
Identities = 17/74 (22%), Positives = 23/74 (31%), Gaps = 24/74 (32%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEK------------------------H 106
G L VDD+ L AF F + + D +T
Sbjct: 7 GDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQ 66
Query: 107 QLFGRIIRVNLAKP 120
L GR +R+N A
Sbjct: 67 DLNGRPLRINWAAK 80
>2cpd_A Apobec-1 stimulating protein; RNA recognition motif, RRM, RNP,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 99
Score = 40.7 bits (96), Expect = 4e-05
Identities = 14/85 (16%), Positives = 22/85 (25%), Gaps = 20/85 (23%)
Query: 58 TKHQSLKSRFSNL--GGLAEEVDDKVLNAAFIPFGDL--VDIQMPLDY------------ 101
+ + S L L ++++ F ++ DY
Sbjct: 6 SGDEDTMSSVKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKKIRDYAFVHFSNREDAV 65
Query: 102 ----ETEKHQLFGRIIRVNLAKPQK 122
L G I V LAKP
Sbjct: 66 EAMKALNGKVLDGSPIEVTLAKPVD 90
>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing,
transcription, RNA binding protein, mRNA processing; NMR
{Homo sapiens} PDB: 2yh1_A
Length = 198
Score = 42.7 bits (101), Expect = 4e-05
Identities = 13/74 (17%), Positives = 19/74 (25%), Gaps = 24/74 (32%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEKH------------------------ 106
GGL ++D + FG L + D T
Sbjct: 120 GGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGM 179
Query: 107 QLFGRIIRVNLAKP 120
QL + + V A
Sbjct: 180 QLGDKKLLVQRASV 193
Score = 27.3 bits (61), Expect = 4.6
Identities = 6/86 (6%), Positives = 20/86 (23%), Gaps = 28/86 (32%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMP------------------LDYETE-------- 104
G + + ++ + F L + L++ +
Sbjct: 10 GNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMA 69
Query: 105 --KHQLFGRIIRVNLAKPQKVQQTSS 128
G+ +++ + S
Sbjct: 70 FDGIIFQGQSLKIRRPHDYQPLPGMS 95
>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding
protein; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 109
Score = 41.1 bits (97), Expect = 4e-05
Identities = 17/99 (17%), Positives = 28/99 (28%), Gaps = 24/99 (24%)
Query: 47 HRIIPDFVSFMTKHQSLKSRFSNL--GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETE 104
H + KS+ L + D L F FG ++D+++ +
Sbjct: 9 HHSSGLVPRGSHMNTENKSQPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGS 68
Query: 105 K----------------------HQLFGRIIRVNLAKPQ 121
K + GR I VN A +
Sbjct: 69 KGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNATAR 107
>2x1f_A MRNA 3'-END-processing protein RNA15; transcription-RNA complex,
mRNA processing; 1.60A {Saccharomyces cerevisiae} PDB:
2x1b_A 2x1a_A 2km8_B
Length = 96
Score = 40.7 bits (96), Expect = 5e-05
Identities = 9/83 (10%), Positives = 26/83 (31%), Gaps = 24/83 (28%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEKH------------------------ 106
G + + ++ + G +++++M D +T +
Sbjct: 8 GSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLNGY 67
Query: 107 QLFGRIIRVNLAKPQKVQQTSSK 129
QL R ++ + + S +
Sbjct: 68 QLGSRFLKCGYSSNSDISGVSLE 90
>2jrs_A RNA-binding protein 39; RNA binding motif of RBM39_human (caper),
RRM2 domain, solution structure, structural genomics,
PSI-2; NMR {Homo sapiens}
Length = 108
Score = 40.8 bits (96), Expect = 5e-05
Identities = 15/76 (19%), Positives = 27/76 (35%), Gaps = 24/76 (31%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEKHQLF--------------------- 109
G L + + +L F PFG + IQ+ +D ET + + +
Sbjct: 32 GSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQLNGF 91
Query: 110 ---GRIIRVNLAKPQK 122
GR ++V +
Sbjct: 92 ELAGRPMKVGHVTERT 107
>3d2w_A TAR DNA-binding protein 43; DP-43 proteinopathy, TDP-43 inclusions,
RNA recognition MOTI U, ALS, RRM; HET: DNA; 1.65A {Mus
musculus}
Length = 89
Score = 40.3 bits (95), Expect = 5e-05
Identities = 11/72 (15%), Positives = 28/72 (38%), Gaps = 17/72 (23%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLD--------YETE---------KHQLFGRII 113
G E++ + L F +G++VD+ +P + + + G +
Sbjct: 17 GRCTEDMTAEELQQFFCQYGEVVDVFIPKPFRAFAFVTFADDKVAQSLCGEDLIIKGISV 76
Query: 114 RVNLAKPQKVQQ 125
++ A+P+ +
Sbjct: 77 HISNAEPKHNKL 88
>2cqg_A TDP-43, TAR DNA-binding protein-43; RNA recognition motif, RRM, RNA
binding domain, RBD, RNP, structural genomics, NPPSFA;
NMR {Homo sapiens} SCOP: d.58.7.1
Length = 103
Score = 40.7 bits (96), Expect = 5e-05
Identities = 14/80 (17%), Positives = 29/80 (36%), Gaps = 22/80 (27%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYET----------------------EKHQL 108
GL + ++ L F FG+++ +Q+ D +T ++H +
Sbjct: 21 LGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQRHMI 80
Query: 109 FGRIIRVNLAKPQKVQQTSS 128
GR L ++ Q +
Sbjct: 81 DGRWCDCKLPNSKQSQDSGP 100
>2dgo_A Cytotoxic granule-associated RNA binding protein 1; RRM domain,
structural genomics, NPPSFA; NMR {Mus musculus} PDB:
2rne_A 2dh7_A
Length = 115
Score = 40.8 bits (96), Expect = 5e-05
Identities = 21/82 (25%), Positives = 30/82 (36%), Gaps = 24/82 (29%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEK------------------------H 106
G L+ E+ + + AAF PFG + D ++ D T K
Sbjct: 21 GDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQ 80
Query: 107 QLFGRIIRVNLAKPQKVQQTSS 128
L GR IR N A + S+
Sbjct: 81 WLGGRQIRTNWATRKPPAPKST 102
>2ywk_A Putative RNA-binding protein 11; RRM-domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; 1.54A {Homo sapiens}
Length = 95
Score = 40.3 bits (95), Expect = 6e-05
Identities = 13/71 (18%), Positives = 25/71 (35%), Gaps = 23/71 (32%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLD------------YETEK-----------HQ 107
G L V +++L F+ G L + + D ++ + +
Sbjct: 22 GNLEARVREEILYELFLQAGPLTKVTICKDREGKPKSFGFVCFKHPESVSYAIALLNGIR 81
Query: 108 LFGRIIRVNLA 118
L+GR I V+
Sbjct: 82 LYGRPINVSGP 92
>3bs9_A Nucleolysin TIA-1 isoform P40; RNA recognition motif, RRM, RNA
binding domain, RBD, RNA splicing, apoptosis,
phosphoprotein, RNA-binding; 1.95A {Homo sapiens}
Length = 87
Score = 39.8 bits (94), Expect = 6e-05
Identities = 20/74 (27%), Positives = 26/74 (35%), Gaps = 24/74 (32%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEK------------------------H 106
G L+ E+ + AAF PFG + D ++ D T K
Sbjct: 12 GDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQ 71
Query: 107 QLFGRIIRVNLAKP 120
L GR IR N A
Sbjct: 72 WLGGRQIRTNWATR 85
>3s8s_A Histone-lysine N-methyltransferase SETD1A; chromatin modification,
transcription regulation, structural genomics,
structural genomics consortium; 1.30A {Homo sapiens}
Length = 110
Score = 40.5 bits (95), Expect = 7e-05
Identities = 12/74 (16%), Positives = 22/74 (29%), Gaps = 24/74 (32%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEKH------------------------ 106
L + V + L +G++ ++++ L T KH
Sbjct: 12 ARLNDNVRETFLKDMCRKYGEVEEVEILLHPRTRKHLGLARVLFTSTRGAKETVKNLHLT 71
Query: 107 QLFGRIIRVNLAKP 120
+ G II L
Sbjct: 72 SVMGNIIHAQLDIK 85
>2cph_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP,
structural genomics, NPPSFA; NMR {Mus musculus} SCOP:
d.58.7.1
Length = 107
Score = 39.6 bits (93), Expect = 1e-04
Identities = 14/100 (14%), Positives = 30/100 (30%), Gaps = 28/100 (28%)
Query: 58 TKHQSLKSRFSNL--GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYE-TEKH-------- 106
+ K S + + + + + + F FG+L +++P T H
Sbjct: 6 SGQVPKKQTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDF 65
Query: 107 -----------------QLFGRIIRVNLAKPQKVQQTSSK 129
L+GR + + A + Q+
Sbjct: 66 ITKQDAKKAFNALCHSTHLYGRRLVLEWADSEVTVQSGPS 105
>2g4b_A Splicing factor U2AF 65 kDa subunit; protein-RNA complex, RNA
splicing factor, RNA recognition motif, RNA binding
protein/RNA complex; 2.50A {Homo sapiens} PDB: 2u2f_A
Length = 172
Score = 40.7 bits (96), Expect = 1e-04
Identities = 13/72 (18%), Positives = 19/72 (26%), Gaps = 24/72 (33%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEK------------------------H 106
GGL ++D + FG L + D T
Sbjct: 100 GGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGM 159
Query: 107 QLFGRIIRVNLA 118
QL + + V A
Sbjct: 160 QLGDKKLLVQRA 171
Score = 31.8 bits (73), Expect = 0.13
Identities = 6/87 (6%), Positives = 21/87 (24%), Gaps = 28/87 (32%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMP------------------LDYETEK------- 105
G + + ++ + F L + L++ +
Sbjct: 10 GNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMA 69
Query: 106 ---HQLFGRIIRVNLAKPQKVQQTSSK 129
G+ +++ + + K
Sbjct: 70 FDGIIFQGQSLKIRRPHDYQPLPGAHK 96
>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA
recognition motif, vincu alpha-actinin, nucleus, RNA
binding protein; 1.99A {Homo sapiens} PDB: 3h2u_B 3h2v_E
Length = 284
Score = 41.5 bits (98), Expect = 2e-04
Identities = 11/94 (11%), Positives = 21/94 (22%), Gaps = 26/94 (27%)
Query: 62 SLKSRFSNL--GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEKH------------- 106
L+ + L L + + PFG L + T +
Sbjct: 90 QLQPTDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDS 149
Query: 107 -----------QLFGRIIRVNLAKPQKVQQTSSK 129
L R + V+ ++
Sbjct: 150 AARAKSDLLGKPLGPRTLYVHWTDAGQLTPALLH 183
Score = 30.7 bits (70), Expect = 0.51
Identities = 18/102 (17%), Positives = 28/102 (27%), Gaps = 28/102 (27%)
Query: 53 FVSFMTKHQ----SLKSRFSNLGGLAEEVDD-KVLNAAFIPFGDLVDIQMPLD------- 100
+V + Q L SR + L +D L A Q+
Sbjct: 168 YVHWTDAGQLTPALLHSRCLCVDRLPPGFNDVDALCRALSAVHSPTFCQLACGQDGQLKG 227
Query: 101 -----YET-----------EKHQLFGRIIRVNLAKPQKVQQT 126
YET + L G +RV+ P ++
Sbjct: 228 FAVLEYETAEMAEEAQQQADGLSLGGSHLRVSFCAPGPPGRS 269
>2d9p_A Polyadenylate-binding protein 3; RRM domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 103
Score = 39.1 bits (92), Expect = 2e-04
Identities = 17/91 (18%), Positives = 32/91 (35%), Gaps = 24/91 (26%)
Query: 59 KHQSLKSRFSNL--GGLAEEVDDKVLNAAFIPFGDLVD---------------IQMPLDY 101
+ + + NL L + +DD+ L AF PFG + +
Sbjct: 7 GDRITRYQVVNLYVKNLDDGIDDERLRKAFSPFGTITSAKVMMEGGRSKGFGFVCFSSPE 66
Query: 102 ETEK-------HQLFGRIIRVNLAKPQKVQQ 125
E K + + + V LA+ ++ +Q
Sbjct: 67 EATKAVTEMNGRIVATKPLYVALAQRKEERQ 97
>1wf0_A TDP-43, TAR DNA-binding protein-43; structural genomics, RRM
domain, riken structural genomics/proteomics initiative
RSGI, RNA binding protein; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 88
Score = 38.4 bits (90), Expect = 2e-04
Identities = 10/75 (13%), Positives = 27/75 (36%), Gaps = 17/75 (22%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLD--------YETE---------KHQLFGRII 113
G ++ + L F +GD++D+ +P + + + G +
Sbjct: 11 GRCTGDMTEDELREFFSQYGDVMDVFIPKPFRAFAFVTFADDQIAQSLCGEDLIIKGISV 70
Query: 114 RVNLAKPQKVQQTSS 128
++ A+P+ +
Sbjct: 71 HISNAEPKHNSNSGP 85
>1l3k_A Heterogeneous nuclear ribonucleoprotein A1; nuclear protein hnRNP
A1, RNA-recognition motif, RNA- binding, UP1, RNA
binding protein; 1.10A {Homo sapiens} SCOP: d.58.7.1
d.58.7.1 PDB: 1u1k_A* 1u1l_A* 1u1m_A* 1u1n_A* 1u1o_A
1u1p_A* 1u1q_A 1u1r_A* 1pgz_A* 1ha1_A 1po6_A* 2up1_A*
1up1_A
Length = 196
Score = 40.4 bits (95), Expect = 2e-04
Identities = 14/83 (16%), Positives = 28/83 (33%), Gaps = 23/83 (27%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEK-----------------------HQ 107
GG+ E+ ++ L F +G + I++ D + K H
Sbjct: 110 GGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHT 169
Query: 108 LFGRIIRVNLAKPQKVQQTSSKP 130
+ G V A ++ ++S
Sbjct: 170 VNGHNCEVRKALSKQEMASASSS 192
Score = 36.9 bits (86), Expect = 0.003
Identities = 17/84 (20%), Positives = 31/84 (36%), Gaps = 23/84 (27%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEK-----------------------HQ 107
GGL+ E D+ L + F +G L D + D T++ H+
Sbjct: 19 GGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHK 78
Query: 108 LFGRIIRVNLAKPQKVQQTSSKPV 131
+ GR++ A ++ Q +
Sbjct: 79 VDGRVVEPKRAVSREDSQRPGAHL 102
>2rs2_A Musashi-1, RNA-binding protein musashi homolog 1; protein-RNA
complex, RRM, RBD, RNA binding protein- complex; NMR
{Mus musculus}
Length = 109
Score = 38.8 bits (91), Expect = 3e-04
Identities = 15/78 (19%), Positives = 28/78 (35%), Gaps = 23/78 (29%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYET-----------------------EKHQ 107
GGL+ + + L F FG++ + + D T +H+
Sbjct: 31 GGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSRHE 90
Query: 108 LFGRIIRVNLAKPQKVQQ 125
L + I +A P++ Q
Sbjct: 91 LDSKTIDPKVAFPRRAQP 108
>1iqt_A AUF1, heterogeneous nuclear ribonucleoprotein D0; RNA-binding
protein, hnRNP, telomere, DNA-binding protein, RNA
binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB:
1wtb_A 1x0f_A
Length = 75
Score = 37.5 bits (88), Expect = 3e-04
Identities = 12/40 (30%), Positives = 24/40 (60%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEKHQLFG 110
GGL+ + ++ + F FG++ I++P+D +T K + F
Sbjct: 5 GGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFC 44
>1x4h_A RNA-binding protein 28; structural genomics, RRM domain, NPPSFA,
national project on protein structural and functional
analyses; NMR {Mus musculus} SCOP: d.58.7.1
Length = 111
Score = 38.5 bits (90), Expect = 3e-04
Identities = 15/80 (18%), Positives = 28/80 (35%), Gaps = 30/80 (37%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEKH------------------------ 106
L+ + +++ L FGDL +++ L +TE
Sbjct: 21 RNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLE 80
Query: 107 ------QLFGRIIRVNLAKP 120
+L GR ++V+LA
Sbjct: 81 AEGGGLKLDGRQLKVDLAVT 100
>2mss_A Protein (musashi1); RNA-binding domain, RNA binding protein; NMR
{Mus musculus} SCOP: d.58.7.1 PDB: 2mst_A
Length = 75
Score = 37.4 bits (88), Expect = 4e-04
Identities = 11/71 (15%), Positives = 22/71 (30%), Gaps = 23/71 (32%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEK-----------------------HQ 107
GGL+ + + F FG + D + D T + H+
Sbjct: 5 GGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIHFHE 64
Query: 108 LFGRIIRVNLA 118
+ +++ A
Sbjct: 65 INNKMVECKKA 75
>2ki2_A SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA binding
proteins, RNA binding protein/SS-DNA binding protein
complex; NMR {Helicobacter pylori}
Length = 90
Score = 37.9 bits (89), Expect = 4e-04
Identities = 17/75 (22%), Positives = 26/75 (34%), Gaps = 23/75 (30%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEK-----------------------HQ 107
G L + + F FG + ++++ D ET+K
Sbjct: 7 GNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEESVSEAIAKLDNTD 66
Query: 108 LFGRIIRVNLAKPQK 122
GR IRV A P+K
Sbjct: 67 FMGRTIRVTEANPKK 81
>2do4_A Squamous cell carcinoma antigen recognized by T- cells 3; RRM
domaim, RDB, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 100
Score = 37.6 bits (88), Expect = 5e-04
Identities = 11/75 (14%), Positives = 21/75 (28%), Gaps = 23/75 (30%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLD------------YETEK-----------HQ 107
GL + L G + D+++ + YE E
Sbjct: 23 SGLPFSCTKEELEEICKAHGTVKDLRLVTNRAGKPKGLAYVEYENESQASQAVMKMDGMT 82
Query: 108 LFGRIIRVNLAKPQK 122
+ II+V ++
Sbjct: 83 IKENIIKVAISNSGP 97
>2dh8_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens}
Length = 105
Score = 38.0 bits (89), Expect = 5e-04
Identities = 17/81 (20%), Positives = 27/81 (33%), Gaps = 23/81 (28%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEK-----------------------HQ 107
GGL + L + F +G++VD + D T + H
Sbjct: 22 GGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLASRPHT 81
Query: 108 LFGRIIRVNLAKPQKVQQTSS 128
L GR I P+ +Q +
Sbjct: 82 LDGRNIDPKPCTPRGMQPSGP 102
>2cpj_A Non-POU domain-containing octamer-binding protein; RNA recognition
motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus
musculus} SCOP: d.58.7.1
Length = 99
Score = 37.6 bits (88), Expect = 5e-04
Identities = 12/68 (17%), Positives = 23/68 (33%), Gaps = 18/68 (26%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLD-------YETEKH-----------QLFGRI 112
G L ++ ++ + F +G ++ + D ET L G+
Sbjct: 21 GNLPPDITEEEMRKLFEKYGKAGEVFIHKDKGFGFIRLETRTLAEIAKVELDNMPLRGKQ 80
Query: 113 IRVNLAKP 120
+RV A
Sbjct: 81 LRVRFACH 88
>1p1t_A Cleavage stimulation factor, 64 kDa subunit; RNA recognition motif,
C-terminal helix, N-terminal helix, RNA binding protein;
NMR {Homo sapiens} SCOP: d.58.7.1
Length = 104
Score = 37.6 bits (88), Expect = 6e-04
Identities = 16/76 (21%), Positives = 26/76 (34%), Gaps = 24/76 (31%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEK------------------------H 106
G + E ++ L F G +V ++ D ET K
Sbjct: 14 GNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGR 73
Query: 107 QLFGRIIRVNLAKPQK 122
+ GR +RV+ A +K
Sbjct: 74 EFSGRALRVDNAASEK 89
>2jvo_A Nucleolar protein 3; nucleus, phosphorylation, ribonucleoprotein,
ribosome biogenesis, RNA-binding, rRNA processing; NMR
{Saccharomyces cerevisiae} PDB: 2osq_A
Length = 108
Score = 37.7 bits (88), Expect = 7e-04
Identities = 15/86 (17%), Positives = 29/86 (33%), Gaps = 18/86 (20%)
Query: 55 SFMTKHQSLKSRFSNL--GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDY---ETEKH--- 106
S M Q + + L +V + LN F PFG + ++++ + E E+
Sbjct: 19 SHMHHRQEGELSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKILNGFAFVEFEEAESA 78
Query: 107 ----------QLFGRIIRVNLAKPQK 122
+ + V +K
Sbjct: 79 AKAIEEVHGKSFANQPLEVVYSKLPA 104
>1b7f_A Protein (SXL-lethal protein), RNA
(5'-R(P*GP*UP*UP*GP*UP*UP*UP*UP*UP*UP*UP*U)-3; splicing
regulation, RNP domain, RNA complex; 2.60A {Drosophila
melanogaster} SCOP: d.58.7.1 d.58.7.1 PDB: 3sxl_A*
1sxl_A 2sxl_A
Length = 168
Score = 38.7 bits (91), Expect = 7e-04
Identities = 14/91 (15%), Positives = 31/91 (34%), Gaps = 26/91 (28%)
Query: 65 SRFSNL--GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEKHQ--------------- 107
+ +NL L +++ D+ L A F G + ++ DY+T
Sbjct: 1 ASNTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQR 60
Query: 108 ---------LFGRIIRVNLAKPQKVQQTSSK 129
+ + ++V+ A+P +
Sbjct: 61 AIKVLNGITVRNKRLKVSYARPGGESIKDTN 91
Score = 34.1 bits (79), Expect = 0.025
Identities = 12/53 (22%), Positives = 20/53 (37%), Gaps = 3/53 (5%)
Query: 53 FVSFMTKHQSLKSRFSNL--GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYET 103
VS+ + +NL L + D L+ F +G +V + D T
Sbjct: 76 KVSYARPGGE-SIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLT 127
>2xs2_A Deleted in azoospermia-like; RNA binding protein-RNA complex; 1.35A
{Mus musculus} PDB: 2xs7_A 2xs5_A 2xsf_A
Length = 102
Score = 37.2 bits (87), Expect = 7e-04
Identities = 11/95 (11%), Positives = 35/95 (36%), Gaps = 26/95 (27%)
Query: 64 KSRFSNL--GGLAEEVDDKVLNAAFIPFGDLVDIQMPLD------------YETE----- 104
K + + GG+ +D+ + + F +G + ++++ D + +
Sbjct: 6 KIMPNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDVDVQK 65
Query: 105 ----KHQLFGRIIRVNLAKPQKVQQT---SSKPVW 132
+ G+ +++ A ++ T +P+
Sbjct: 66 IVESQINFHGKKLKLGPAIRKQNLSTYHVQPRPLI 100
>2cqd_A RNA-binding region containing protein 1; RNA recognition motif,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 116
Score = 37.7 bits (88), Expect = 8e-04
Identities = 18/82 (21%), Positives = 25/82 (30%), Gaps = 23/82 (28%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEK-----------------------HQ 107
GGL D L F FGD+ + + D +T K
Sbjct: 23 GGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDPNPI 82
Query: 108 LFGRIIRVNLAKPQKVQQTSSK 129
+ GR VNLA ++
Sbjct: 83 IDGRKANVNLAYLGAKPRSLQT 104
>1fxl_A Paraneoplastic encephalomyelitis antigen HUD; protein-RNA complex,
AU-rich element, transcription/RNA complex; 1.80A {Homo
sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1g2e_A 1fnx_H
1d8z_A 1d9a_A 3hi9_A
Length = 167
Score = 37.9 bits (89), Expect = 0.001
Identities = 10/83 (12%), Positives = 24/83 (28%), Gaps = 24/83 (28%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEKHQ----------------------- 107
L + + + + F G++ ++ D T +
Sbjct: 8 NYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGL 67
Query: 108 -LFGRIIRVNLAKPQKVQQTSSK 129
L + I+V+ A+P +
Sbjct: 68 RLQTKTIKVSYARPSSASIRDAN 90
Score = 33.3 bits (77), Expect = 0.043
Identities = 13/52 (25%), Positives = 24/52 (46%), Gaps = 3/52 (5%)
Query: 54 VSFMTKHQSLKSRFSNL--GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYET 103
VS+ + R +NL GL + + K L F +G ++ ++ +D T
Sbjct: 76 VSYARPSSA-SIRDANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVT 126
>1x5t_A Splicing factor 3B subunit 4; structure genomics, RRM domain,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 96
Score = 36.8 bits (86), Expect = 0.001
Identities = 16/77 (20%), Positives = 26/77 (33%), Gaps = 25/77 (32%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVD-IQMPLDYETEK------------------------ 105
G L E+D+K+L F FG ++ ++ D +T
Sbjct: 11 GNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNG 70
Query: 106 HQLFGRIIRVNLAKPQK 122
L R I V+ A +
Sbjct: 71 QYLCNRPITVSYAFKKD 87
>2dnp_A RNA-binding protein 14; RRM domain, RBD, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 90
Score = 36.4 bits (85), Expect = 0.001
Identities = 12/68 (17%), Positives = 25/68 (36%), Gaps = 16/68 (23%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDY-----ETEK-----------HQLFGRIIR 114
G ++ + L + F G +++ + DY E E ++ G+ I
Sbjct: 15 GNVSAACTSQELRSLFERRGRVIECDVVKDYAFVHMEKEADAKAAIAQLNGKEVKGKRIN 74
Query: 115 VNLAKPQK 122
V L+ +
Sbjct: 75 VELSTKGQ 82
>4f25_A Polyadenylate-binding protein 1; RRM fold, translation initiation,
RNA-binding, EIF4G-binding translation; 1.90A {Homo
sapiens} PDB: 4f26_A 2k8g_A
Length = 115
Score = 36.8 bits (86), Expect = 0.001
Identities = 15/74 (20%), Positives = 28/74 (37%), Gaps = 22/74 (29%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLD-----------YETEK-----------HQL 108
L + +D+K L F FG+++ ++ D +ET++ L
Sbjct: 11 KNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLL 70
Query: 109 FGRIIRVNLAKPQK 122
R + V K +K
Sbjct: 71 NDRKVFVGRFKSRK 84
>3sde_A Paraspeckle component 1; RRM, anti parallel right handed
coiled-coil, NOPS, DBHS, RNA protein, RNA binding; 1.90A
{Homo sapiens} PDB: 3sde_B
Length = 261
Score = 38.5 bits (90), Expect = 0.001
Identities = 13/86 (15%), Positives = 29/86 (33%), Gaps = 20/86 (23%)
Query: 55 SFMTKHQSLKSRFSNL--GGLAEEVDDKVLNAAFIPFGDLVDIQMPLD-------YETEK 105
SF+ + ++ L G L ++ ++ F +G+ ++ + D E+
Sbjct: 10 SFLKPGEKTYTQRCRLFVGNLPTDITEEDFKRLFERYGEPSEVFINRDRGFGFIRLESRT 69
Query: 106 -----------HQLFGRIIRVNLAKP 120
L R +R+ A
Sbjct: 70 LAEIAKAELDGTILKSRPLRIRFATH 95
Score = 32.0 bits (73), Expect = 0.19
Identities = 10/48 (20%), Positives = 21/48 (43%), Gaps = 3/48 (6%)
Query: 65 SRFSNL--GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEKHQLFG 110
+ + L L+ V +++L AF FG + + +D + + G
Sbjct: 94 THGAALTVKNLSPVVSNELLEQAFSQFGPVEKAVVVVD-DRGRATGKG 140
>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 102
Score = 36.1 bits (84), Expect = 0.002
Identities = 13/75 (17%), Positives = 26/75 (34%), Gaps = 27/75 (36%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEK------------------------H 106
GL+E+ ++ L +F V ++ D ET
Sbjct: 21 KGLSEDTTEETLKESF---DGSVRARIVTDRETGSSKGFGFVDFNSEEDAKAAKEAMEDG 77
Query: 107 QLFGRIIRVNLAKPQ 121
++ G + ++ AKP+
Sbjct: 78 EIDGNKVTLDWAKPK 92
>1x4b_A Heterogeneous nuclear ribonucleoproteins A2/B1; structure genomics,
RRM domain, structural genomics, NPPSFA; NMR {Homo
sapiens} SCOP: d.58.7.1
Length = 116
Score = 36.5 bits (85), Expect = 0.002
Identities = 13/81 (16%), Positives = 28/81 (34%), Gaps = 23/81 (28%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEK-----------------------HQ 107
GGL+ E ++ L + +G L D + D +++ H
Sbjct: 33 GGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAARPHS 92
Query: 108 LFGRIIRVNLAKPQKVQQTSS 128
+ GR++ A ++ +
Sbjct: 93 IDGRVVEPKRAVAREESGSGP 113
>1x4d_A Matrin 3; structural genomics, RRM domain, NPPSFA, national project
on protein structural and functional analyses; NMR {Mus
musculus} SCOP: d.58.7.1
Length = 102
Score = 36.4 bits (84), Expect = 0.002
Identities = 14/91 (15%), Positives = 30/91 (32%), Gaps = 21/91 (23%)
Query: 59 KHQSLKSRFSNLGGLAEEVDDKV-LNAAFIPFGDLVDIQMPLD----------------- 100
K + R ++ + + L PFG + + +
Sbjct: 9 KGRVETRRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILNKINEAFIEMATTEDAQAA 68
Query: 101 ---YETEKHQLFGRIIRVNLAKPQKVQQTSS 128
Y T +FG+ +RV+L++ K ++
Sbjct: 69 VDYYTTTPALVFGKPVRVHLSQKYKRIKSGP 99
>1u6f_A Tcubp1, RNA-binding protein UBP1; trypanosome, mRNA-binding
protein, GU-rich RNA, structure; NMR {Trypanosoma cruzi}
SCOP: d.58.7.1
Length = 139
Score = 37.0 bits (86), Expect = 0.002
Identities = 11/76 (14%), Positives = 23/76 (30%), Gaps = 24/76 (31%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEK------------------------H 106
+ VD+ L F +G + +++ D ET +
Sbjct: 48 NYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGF 107
Query: 107 QLFGRIIRVNLAKPQK 122
+ + ++V LA
Sbjct: 108 NILNKRLKVALAASGH 123
>2cq4_A RNA binding motif protein 23; RRM domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 114
Score = 36.5 bits (85), Expect = 0.002
Identities = 12/75 (16%), Positives = 24/75 (32%), Gaps = 23/75 (30%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEK-----------------------HQ 107
LA + + L F G + D+++ D + + +
Sbjct: 31 MQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAIGLTGQR 90
Query: 108 LFGRIIRVNLAKPQK 122
L G I V ++ +K
Sbjct: 91 LLGVPIIVQASQAEK 105
>4f02_A Polyadenylate-binding protein 1; mRNA, eukaryotic initiation
factors PAIP1 and PAIP2, translation-RNA complex; 2.00A
{Homo sapiens} PDB: 1cvj_A*
Length = 213
Score = 37.6 bits (88), Expect = 0.002
Identities = 13/81 (16%), Positives = 28/81 (34%), Gaps = 24/81 (29%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEKHQ----------------------- 107
G L +V + +L F P G ++ I++ D T +
Sbjct: 21 GDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFD 80
Query: 108 -LFGRIIRVNLAKPQKVQQTS 127
+ G+ +R+ ++ + S
Sbjct: 81 VIKGKPVRIMWSQRDPSLRKS 101
Score = 37.3 bits (87), Expect = 0.002
Identities = 16/96 (16%), Positives = 35/96 (36%), Gaps = 26/96 (27%)
Query: 61 QSLKSRFSNL--GGLAEEVDDKVLNAAFIPFGDLVDIQMPLD-----------YETEK-- 105
KS N+ L + +D+K L F FG+++ ++ D +ET++
Sbjct: 97 SLRKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAA 156
Query: 106 ---------HQLFGRIIRVNLA--KPQKVQQTSSKP 130
L R + V + ++ + ++
Sbjct: 157 ERAIEKMNGMLLNDRKVFVGRFKSRKEREAELGARA 192
>1wex_A Hypothetical protein (riken cDNA 2810036L13); structural genomics,
RRM domain, riken structural genomics/proteomics
initiative, RSGI; NMR {Mus musculus} SCOP: d.58.7.1
Length = 104
Score = 35.9 bits (83), Expect = 0.002
Identities = 11/80 (13%), Positives = 23/80 (28%), Gaps = 20/80 (25%)
Query: 70 LGGLAEEVDDKVLNAAFIPFGDLVDIQMPLD--------------------YETEKHQLF 109
+ GL E V + L A FG + + M +
Sbjct: 20 VRGLCESVVEADLVEALEKFGTICYVMMMPFKRQALVEFENIDSAKECVTFAADVPVYIA 79
Query: 110 GRIIRVNLAKPQKVQQTSSK 129
G+ N + +++ + +
Sbjct: 80 GQQAFFNYSTSKRITRPGNS 99
>3ns6_A Eukaryotic translation initiation factor 3 subuni; 1.25A
{Saccharomyces cerevisiae} PDB: 3ns5_A
Length = 100
Score = 35.9 bits (83), Expect = 0.003
Identities = 10/36 (27%), Positives = 16/36 (44%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEKH 106
V K L + F G +V+++ P+D T K
Sbjct: 18 PSAKVPVLKKALTSLFSKAGKVVNMEFPIDEATGKT 53
>2e5g_A U6 snRNA-specific terminal uridylyltransferase 1; RRM domain, RBD,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 94
Score = 35.4 bits (82), Expect = 0.003
Identities = 20/87 (22%), Positives = 32/87 (36%), Gaps = 20/87 (22%)
Query: 61 QSLKSRFSNLGGLAEEVDDKVLNAAFIPFGDLVDIQMPLD--------YETE-------- 104
L+S F + G VD L+ F+ FG + + M D
Sbjct: 6 SGLRSVF--VSGFPRGVDSAQLSEYFLAFGPVASVVMDKDKGVFAIVEMGDVGAREAVLS 63
Query: 105 --KHQLFGRIIRVNLAKPQKVQQTSSK 129
+H L G +RV + ++ Q +SK
Sbjct: 64 QSQHSLGGHRLRVRPREQKEFQSPASK 90
>2cpz_A CUG triplet repeat RNA-binding protein 1; RRM domain, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens} SCOP:
d.58.7.1 PDB: 2rq4_A 2rqc_A
Length = 115
Score = 35.8 bits (83), Expect = 0.004
Identities = 17/95 (17%), Positives = 34/95 (35%), Gaps = 26/95 (27%)
Query: 57 MTKHQSLKSRFSNL--GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEK--------- 105
Q +NL L +E D+ L F+PFG++V ++ +D +T
Sbjct: 15 AAGSQKEGPEGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSY 74
Query: 106 ---------------HQLFGRIIRVNLAKPQKVQQ 125
Q+ + ++V L + + +
Sbjct: 75 DNPVSAQAAIQSMNGFQIGMKRLKVQLKRSKNDSK 109
>1x4a_A Splicing factor, arginine/serine-rich 1 (splicing factor 2,
alternate splicing factor)...; structure genomics, SURP
domain, splicing factor SF2; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 109
Score = 35.0 bits (81), Expect = 0.006
Identities = 11/71 (15%), Positives = 22/71 (30%), Gaps = 21/71 (29%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLD----------YETEK-----------HQLF 109
G L ++ K + F +G + DI + +E + +
Sbjct: 28 GNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRGGPPFAFVEFEDPRDAEDAVYGRDGYDYD 87
Query: 110 GRIIRVNLAKP 120
G +RV +
Sbjct: 88 GYRLRVEFPRS 98
>2dgt_A RNA-binding protein 30; RRM domain, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens}
Length = 92
Score = 34.5 bits (80), Expect = 0.006
Identities = 11/68 (16%), Positives = 26/68 (38%), Gaps = 16/68 (23%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDY-----ETEK-----------HQLFGRIIR 114
G ++ ++ L A F +G +++ + DY E + + G+ +
Sbjct: 16 GNISPTCTNQELRAKFEEYGPVIECDIVKDYAFVHMERAEDAVEAIRGLDNTEFQGKRMH 75
Query: 115 VNLAKPQK 122
V L+ +
Sbjct: 76 VQLSTSRL 83
>1uaw_A Mouse-musashi-1; RNP-type structure, RNA binding protein; NMR {Mus
musculus} SCOP: d.58.7.1
Length = 77
Score = 33.6 bits (78), Expect = 0.007
Identities = 13/71 (18%), Positives = 24/71 (33%), Gaps = 23/71 (32%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYET-----------------------EKHQ 107
GGL+ + + L F FG++ + + D T +H+
Sbjct: 6 GGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSRHE 65
Query: 108 LFGRIIRVNLA 118
L + I +A
Sbjct: 66 LDSKTIDPKVA 76
>3p5t_L Cleavage and polyadenylation specificity factor S; RRM domain,
poly(A) site recognition, RNA, nuclear, RNA BIND
protein; 2.70A {Homo sapiens} PDB: 3p6y_C
Length = 90
Score = 34.1 bits (79), Expect = 0.007
Identities = 12/77 (15%), Positives = 21/77 (27%), Gaps = 26/77 (33%)
Query: 71 GGLAEEVDDKVLNAAFIPFG--DLVDIQMPLDYET------------------------E 104
G L D+ L A G D+++I+ +
Sbjct: 7 GNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLP 66
Query: 105 KHQLFGRIIRVNLAKPQ 121
K +L G+ V +
Sbjct: 67 KRELHGQNPVVTPSNKL 83
>3q2s_C Cleavage and polyadenylation specificity factor S; CFIM, CFIM25,
CFIM68, CPSF5, CPSF6, CPSF, 3' END processing,
processing, cleavage factor; 2.90A {Homo sapiens} PDB:
3q2t_C
Length = 229
Score = 35.8 bits (82), Expect = 0.008
Identities = 14/86 (16%), Positives = 24/86 (27%), Gaps = 26/86 (30%)
Query: 71 GGLAEEVDDKVLNAAFIPFG--DLVDIQMPLDYET------------------------E 104
G L D+ L A G D+++I+ +
Sbjct: 74 GNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLP 133
Query: 105 KHQLFGRIIRVNLAKPQKVQQTSSKP 130
K +L G+ V Q + Q +
Sbjct: 134 KRELHGQNPVVTPVNKQFLSQFEMQS 159
>3n9u_C Cleavage and polyadenylation specificity factor S; protein-protein
complex, coexpression, heterotetramer, mRNA maturation,
mRNA cleavage; 1.92A {Homo sapiens}
Length = 156
Score = 35.3 bits (81), Expect = 0.008
Identities = 12/86 (13%), Positives = 23/86 (26%), Gaps = 26/86 (30%)
Query: 71 GGLAEEVDDKVLNAAFIPFG--DLVDIQMPLDYET------------------------E 104
G + D+ L G D+V+++ +
Sbjct: 61 GSFSWWTTDQQLIQVIRSIGVYDVVELKFAENRANGQSKGYAEVVVASENSVHKLLELLP 120
Query: 105 KHQLFGRIIRVNLAKPQKVQQTSSKP 130
L G + V A Q + Q ++
Sbjct: 121 GKVLNGEKVDVRPATRQNLSQFEAQA 146
>1why_A Hypothetical protein riken cDNA 1810017N16; RNA recognition motif,
RRM, RNA binding domain, RBD, RNP, structural genomics;
NMR {Mus musculus} SCOP: d.58.7.1
Length = 97
Score = 34.1 bits (79), Expect = 0.008
Identities = 17/73 (23%), Positives = 22/73 (30%), Gaps = 20/73 (27%)
Query: 70 LGGLAEEVDDKVLNAAFIPFGDLVDIQMPLD-------YETEKH-----------QLFG- 110
+GGL L F FG + I YE+ L G
Sbjct: 22 VGGLGPNTSLAALAREFDRFGSIRTIDHVKGDSFAYIQYESLDAAQAACAKMRGFPLGGP 81
Query: 111 -RIIRVNLAKPQK 122
R +RV+ AK
Sbjct: 82 DRRLRVDFAKSGP 94
>2i2y_A Fusion protein consists of immunoglobin G- binding protein G and
splicing factor,...; protein-RNA complex RRM alpha-beta
sandwich BETA1-alpha1- BETA2-BETA3-alpha2-BETA4; NMR
{Streptococcus SP} PDB: 2i38_A
Length = 150
Score = 35.2 bits (81), Expect = 0.009
Identities = 14/71 (19%), Positives = 24/71 (33%), Gaps = 19/71 (26%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLD--------YETEK-----------HQLFGR 111
G L + L AF +G L + + + +E + L G
Sbjct: 79 GNLGNNGNKTELERAFGYYGPLRSVWVARNPPGFAFVEFEDPRDAADAVRELDGRTLCGC 138
Query: 112 IIRVNLAKPQK 122
+RV L+ +K
Sbjct: 139 RVRVELSNGEK 149
>1fj7_A Nucleolin RBD1, protein C23; RNP, RRM, RNA binding domain,
nucleolus, structural protein; NMR {Mesocricetus
auratus} SCOP: d.58.7.1
Length = 101
Score = 34.2 bits (79), Expect = 0.009
Identities = 11/78 (14%), Positives = 20/78 (25%), Gaps = 24/78 (30%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEK-----------------------HQ 107
G L L A D+ + +D T +
Sbjct: 23 GNLNPNKSVAELKVAISELFAKNDLAV-VDVRTGTNRKFGYVDFESAEDLEKALELTGLK 81
Query: 108 LFGRIIRVNLAKPQKVQQ 125
+FG I++ K + +
Sbjct: 82 VFGNEIKLEKPKGRDGTR 99
>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold,
protein binding, nucleus; 2.04A {Homo sapiens}
Length = 100
Score = 34.0 bits (78), Expect = 0.009
Identities = 12/74 (16%), Positives = 22/74 (29%), Gaps = 20/74 (27%)
Query: 70 LGGLAEEVDDKVLNAAFIPFGDLVDIQMPLD--------------------YETEKHQLF 109
+ GL + V + L A FG + + + + +
Sbjct: 26 IRGLIDGVVEADLVEALQEFGPISYVVVMPKKRQALVEFEDVLGACNAVNYAADNQIYIA 85
Query: 110 GRIIRVNLAKPQKV 123
G VN + QK+
Sbjct: 86 GHPAFVNYSTSQKI 99
>1fje_B Nucleolin RBD12, protein C23; RNP, RRM, RNA binding domain,
RNA-protein complex, nucleolus, structural protein/RNA
complex; NMR {Mesocricetus auratus} SCOP: d.58.7.1
d.58.7.1 PDB: 1rkj_A 2krr_A
Length = 175
Score = 34.9 bits (81), Expect = 0.011
Identities = 10/74 (13%), Positives = 19/74 (25%), Gaps = 22/74 (29%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLD------------YETE----------KHQL 108
G L L A D+ + +E+ ++
Sbjct: 19 GNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALELTGLKV 78
Query: 109 FGRIIRVNLAKPQK 122
FG I++ K +
Sbjct: 79 FGNEIKLEKPKGRD 92
Score = 29.9 bits (68), Expect = 0.61
Identities = 7/83 (8%), Positives = 23/83 (27%), Gaps = 21/83 (25%)
Query: 59 KHQSLKSRFSNL--GGLAEEVDDKVLNAAFIPFGDLVDIQMP--------LDYETEK--- 105
+ L L+ + + L F ++ + +++++E
Sbjct: 91 RDSKKVRAARTLLAKNLSFNITEDELKEVFEDALEIRLVSQDGKSKGIAYIEFKSEADAE 150
Query: 106 --------HQLFGRIIRVNLAKP 120
++ GR + +
Sbjct: 151 KNLEEKQGAEIDGRSVSLYYTGE 173
>3md3_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNP,
RBD, poly(U) binding, tandem, acetylation, cytopla
nucleus; 2.70A {Saccharomyces cerevisiae}
Length = 166
Score = 34.8 bits (81), Expect = 0.012
Identities = 17/72 (23%), Positives = 23/72 (31%), Gaps = 24/72 (33%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEK------------------------H 106
G L VDD+ L AF F + + D +T
Sbjct: 93 GDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQ 152
Query: 107 QLFGRIIRVNLA 118
L GR +R+N A
Sbjct: 153 DLNGRPLRINWA 164
Score = 34.4 bits (80), Expect = 0.017
Identities = 12/81 (14%), Positives = 27/81 (33%), Gaps = 23/81 (28%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLD------------YETEKH-----------Q 107
G L + + + +L F G + +I++ +D Y Q
Sbjct: 6 GNLDKAITEDILKQYFQVGGPIANIKIMIDKNNKNVNYAFVEYHQSHDANIALQTLNGKQ 65
Query: 108 LFGRIIRVNLAKPQKVQQTSS 128
+ I+++N A + +
Sbjct: 66 IENNIVKINWAFQSQQSSSDD 86
>1x4e_A RNA binding motif, single-stranded interacting protein 2;
structural genomics, RRM domain, NPPSFA; NMR {Homo
sapiens} SCOP: d.58.7.1
Length = 85
Score = 33.3 bits (77), Expect = 0.015
Identities = 15/48 (31%), Positives = 21/48 (43%), Gaps = 2/48 (4%)
Query: 65 SRFSNL--GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEKHQLFG 110
S S L GL D+ L P+G +V + LD T K + +G
Sbjct: 3 SGSSGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYG 50
>3s7r_A Heterogeneous nuclear ribonucleoprotein A/B; ferredoxin-like,
structural genomics, joint center for struc genomics,
JCSG; 2.15A {Homo sapiens} PDB: 1hd0_A 1hd1_A
Length = 87
Score = 32.9 bits (76), Expect = 0.016
Identities = 18/71 (25%), Positives = 27/71 (38%), Gaps = 23/71 (32%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEK-----------------------HQ 107
GGL+ + K L F FG++VD + +D T + H+
Sbjct: 17 GGLSWDTSKKDLKDYFTKFGEVVDCTIKMDPNTGRSRGFGFILFKDAASVEKVLDQKEHR 76
Query: 108 LFGRIIRVNLA 118
L GR+I A
Sbjct: 77 LDGRVIDPKKA 87
>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding
protein; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 105
Score = 33.3 bits (76), Expect = 0.019
Identities = 12/79 (15%), Positives = 29/79 (36%), Gaps = 20/79 (25%)
Query: 70 LGGLAEEVDDKVLNAAFIPFGDLVDIQMPLD--------------------YETEKHQLF 109
+ L +V + + + +PFG + ++ M Y + L
Sbjct: 21 IRKLPIDVTEGEVISLGLPFGKVTNLLMLKGKNQAFIEMNTEEAANTMVNYYTSVTPVLR 80
Query: 110 GRIIRVNLAKPQKVQQTSS 128
G+ I + + ++++ SS
Sbjct: 81 GQPIYIQFSNHKELKTDSS 99
>2dng_A Eukaryotic translation initiation factor 4H; RRM domain, RBD,
structural genomics, NPPSFA; NMR {Mus musculus}
Length = 103
Score = 33.0 bits (76), Expect = 0.023
Identities = 13/76 (17%), Positives = 27/76 (35%), Gaps = 24/76 (31%)
Query: 70 LGGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEK-----------------------H 106
+G L ++A F + +++ D +T+K
Sbjct: 20 VGNLPFNTVQGDIDAIFKDLS-IRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEALTYDGA 78
Query: 107 QLFGRIIRVNLAKPQK 122
L R +RV++A+ +K
Sbjct: 79 LLGDRSLRVDIAEGRK 94
>2ghp_A U4/U6 snRNA-associated splicing factor PRP24; RNA chaperone, RNA
binding domain, RNA recognition motif, SP factor, snRNP,
spliceosome; 2.70A {Saccharomyces cerevisiae} SCOP:
d.58.7.1 d.58.7.1 d.58.7.1 PDB: 2go9_A 2kh9_A
Length = 292
Score = 34.6 bits (80), Expect = 0.025
Identities = 5/93 (5%), Positives = 21/93 (22%), Gaps = 26/93 (27%)
Query: 64 KSRFSNL--GGLAEEVDDKVLNAAFIPFGD-LVDIQMPLD------------YETEK--- 105
L + + + I++P +++
Sbjct: 114 HLTECTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDAR 173
Query: 106 --------HQLFGRIIRVNLAKPQKVQQTSSKP 130
++ G + ++ P + + +
Sbjct: 174 YCVEKLNGLKIEGYTLVTKVSNPLEKSKRTDSA 206
Score = 28.8 bits (65), Expect = 1.8
Identities = 7/42 (16%), Positives = 16/42 (38%), Gaps = 2/42 (4%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEKHQLFGRI 112
L + + + F G ++ + + +K+ F RI
Sbjct: 47 KNLPKSYNQNKVYKYFKHCGPIIHVDVADS--LKKNFRFARI 86
Score = 28.4 bits (64), Expect = 2.5
Identities = 17/77 (22%), Positives = 26/77 (33%), Gaps = 27/77 (35%)
Query: 71 GGLAEEVDD-KVLNAAFIPFGDLVDIQMPLDY------------------------ETEK 105
L+ E+ D +L +F FG + I +P + +
Sbjct: 216 RNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHSFNNCCAFMVFENKDSAERALQMNR 275
Query: 106 HQLFGRIIRVNLA--KP 120
L R I V+LA KP
Sbjct: 276 SLLGNREISVSLADKKP 292
>2dnq_A RNA-binding protein 4B; RRM domain,RBD, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 90
Score = 32.6 bits (75), Expect = 0.027
Identities = 12/68 (17%), Positives = 27/68 (39%), Gaps = 16/68 (23%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDY-----ETEK-----------HQLFGRIIR 114
G L E ++ + + F +G +++ + +Y E + ++L G I
Sbjct: 14 GNLPREATEQEIRSLFEQYGKVLECDIIKNYGFVHIEDKTAAEDAIRNLHHYKLHGVNIN 73
Query: 115 VNLAKPQK 122
V +K +
Sbjct: 74 VEASKNKS 81
>2dgp_A Bruno-like 4, RNA binding protein; RRM domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens} PDB: 2dgq_A
Length = 106
Score = 32.7 bits (75), Expect = 0.029
Identities = 10/40 (25%), Positives = 18/40 (45%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEKHQLFG 110
G + +D+K L F FG + ++ + D T H+
Sbjct: 19 GQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCA 58
>2cq1_A PTB-like protein L; RRM domain, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 101
Score = 32.9 bits (75), Expect = 0.029
Identities = 15/90 (16%), Positives = 30/90 (33%), Gaps = 20/90 (22%)
Query: 59 KHQSLKSRFSNLGGLAEEVDDKVLNAAFIPFGDLVDIQMPLD------------------ 100
K SR ++ L EV + + A +PFG + +I M
Sbjct: 9 KMDGAPSRVLHIRKLPGEVTETEVIALGLPFGKVTNILMLKGKNQAFLELATEEAAITMV 68
Query: 101 --YETEKHQLFGRIIRVNLAKPQKVQQTSS 128
Y L + I + + ++++ +
Sbjct: 69 NYYSAVTPHLRNQPIYIQYSNHKELKTSGP 98
>2hvz_A Splicing factor, arginine/serine-rich 7; RRM, RNA binding protein;
NMR {Homo sapiens}
Length = 101
Score = 32.7 bits (75), Expect = 0.030
Identities = 13/79 (16%), Positives = 24/79 (30%), Gaps = 19/79 (24%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLD--------YETEK-----------HQLFGR 111
G L L AF +G L + + + +E + + G
Sbjct: 6 GNLGTGAGKGELERAFSYYGPLRTVWIARNPPGFAFVEFEDPRDAEDAVRGLDGKVICGS 65
Query: 112 IIRVNLAKPQKVQQTSSKP 130
+RV L+ + +P
Sbjct: 66 RVRVELSTGMPRRSRFDRP 84
>2ad9_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA
complex, RNA binding protein/RNA complex; NMR {Homo
sapiens} SCOP: d.58.7.1
Length = 119
Score = 33.0 bits (75), Expect = 0.031
Identities = 12/79 (15%), Positives = 29/79 (36%), Gaps = 20/79 (25%)
Query: 70 LGGLAEEVDDKVLNAAFIPFGDLVDIQMPLD--------------------YETEKHQLF 109
+ L +V + + + +PFG + ++ M Y + L
Sbjct: 36 IRKLPIDVTEGEVISLGLPFGKVTNLLMLKGKNQAFIEMNTEEAANTMVNYYTSVTPVLR 95
Query: 110 GRIIRVNLAKPQKVQQTSS 128
G+ I + + ++++ SS
Sbjct: 96 GQPIYIQFSNHKELKTDSS 114
>1wf1_A RNA-binding protein RALY; structural genomics, RRM domain, riken
structural genomics/proteomics initiative, RSGI; NMR
{Homo sapiens} SCOP: d.58.7.1 PDB: 1wf2_A
Length = 110
Score = 32.7 bits (75), Expect = 0.033
Identities = 12/73 (16%), Positives = 24/73 (32%), Gaps = 17/73 (23%)
Query: 71 GGL-AEEVDDKVLNAAFIPFGDLVDIQMP-----LDYETEK-----------HQLFGRII 113
G L V + F +G + + + Y E+ L G+ +
Sbjct: 33 GNLNTALVKKSDVETIFSKYGRVAGCSVHKGYAFVQYSNERHARAAVLGENGRVLAGQTL 92
Query: 114 RVNLAKPQKVQQT 126
+N+A K ++
Sbjct: 93 DINMAGEPKPDRS 105
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 33.4 bits (75), Expect = 0.035
Identities = 11/60 (18%), Positives = 22/60 (36%), Gaps = 30/60 (50%)
Query: 104 EKHQLFGRIIRVNLAKPQKVQQTSSKPVWASDTWLQKHAGETLDPENQIDPAEKLAASID 163
EK L +K+Q +S L+ +A ++ PA + A+++
Sbjct: 18 EKQAL------------KKLQ--AS---------LKLYA-----DDSA--PALAIKATME 47
Score = 29.9 bits (66), Expect = 0.62
Identities = 7/25 (28%), Positives = 11/25 (44%), Gaps = 3/25 (12%)
Query: 7 KQEVGRITIQLR-Y--DLVPRTAEN 28
KQ + ++ L+ Y D P A
Sbjct: 19 KQALKKLQASLKLYADDSAPALAIK 43
Score = 29.9 bits (66), Expect = 0.62
Identities = 7/25 (28%), Positives = 11/25 (44%), Gaps = 3/25 (12%)
Query: 180 KQEVGRITIQLR-Y--DLVPRTAEN 201
KQ + ++ L+ Y D P A
Sbjct: 19 KQALKKLQASLKLYADDSAPALAIK 43
>2ytc_A PRE-mRNA-splicing factor RBM22; RRM domain, RBD, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens}
Length = 85
Score = 31.9 bits (73), Expect = 0.044
Identities = 13/69 (18%), Positives = 24/69 (34%), Gaps = 19/69 (27%)
Query: 70 LGGLAEEVDDKVLNAAFIPFGDLVDIQMPLD-------YETE------------KHQLFG 110
+GGL + + + L F FG++ I + + T K + G
Sbjct: 17 VGGLGDTITETDLRNHFYQFGEIRTITVVQRQQCAFIQFATRQAAEVAAEKSFNKLIVNG 76
Query: 111 RIIRVNLAK 119
R + V +
Sbjct: 77 RRLNVKWGR 85
>2do0_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RNA recognition
motif, RRM, RNA binding domain, RBD, structural
genomics, NPPSFA; NMR {Homo sapiens}
Length = 114
Score = 32.3 bits (74), Expect = 0.046
Identities = 14/83 (16%), Positives = 22/83 (26%), Gaps = 23/83 (27%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLD------------YETEK-----------HQ 107
L +V K L F G +V + D +E
Sbjct: 21 ANLDYKVGWKKLKEVFSMAGVVVRADILEDKDGKSRGIGTVTFEQSIEAVQAISMFNGQL 80
Query: 108 LFGRIIRVNLAKPQKVQQTSSKP 130
LF R + V + + + P
Sbjct: 81 LFDRPMHVKMDERALPKGDFFPP 103
>3nmr_A Cugbp ELAV-like family member 1; RRM, PRE-mRNA splicing, RNA
binding protein-RNA complex; 1.85A {Homo sapiens} PDB:
3nna_A 3nnc_A 2dhs_A 3nnh_A
Length = 175
Score = 33.0 bits (76), Expect = 0.055
Identities = 6/55 (10%), Positives = 19/55 (34%), Gaps = 2/55 (3%)
Query: 48 RIIPDFVSFMTKHQSLKSRFSNL--GGLAEEVDDKVLNAAFIPFGDLVDIQMPLD 100
P + ++ L G ++++ + + F FG + + ++
Sbjct: 76 MHHPIQMKPADSEKNNAVEDRKLFIGMISKKCTENDIRVMFSSFGQIEECRILRG 130
Score = 29.5 bits (67), Expect = 0.79
Identities = 9/40 (22%), Positives = 15/40 (37%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEKHQLFG 110
G + +K L F +G + +I + D Q G
Sbjct: 9 GQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKG 48
>2jwn_A Embryonic polyadenylate-binding protein 2-B; epabp2, poly(A)
binding, structural genomics, protein structure
initiative, PSI-2; NMR {Xenopus laevis}
Length = 124
Score = 32.0 bits (73), Expect = 0.076
Identities = 12/82 (14%), Positives = 21/82 (25%), Gaps = 23/82 (28%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEK-----------------------HQ 107
G + + L A F G + I + D +
Sbjct: 42 GNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAVAMDETV 101
Query: 108 LFGRIIRVNLAKPQKVQQTSSK 129
GR I+V + +S+
Sbjct: 102 FRGRTIKVLPKRTNMPGISSTD 123
>3ucg_A Polyadenylate-binding protein 2; ferredoxin-like, structural
genomics, joint center for struc genomics, JCSG, protein
structure initiative; HET: PGE; 1.95A {Homo sapiens}
PDB: 3b4d_A 3b4m_A
Length = 89
Score = 31.3 bits (72), Expect = 0.080
Identities = 10/75 (13%), Positives = 19/75 (25%), Gaps = 23/75 (30%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEK-----------------------HQ 107
G + + L A F G + + + D +
Sbjct: 12 GNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSLALDESL 71
Query: 108 LFGRIIRVNLAKPQK 122
GR I+V + +
Sbjct: 72 FRGRQIKVIPKRTNR 86
>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain,
structural genomics, NPPSFA; NMR {Homo sapiens} PDB:
2dh9_A
Length = 92
Score = 31.0 bits (71), Expect = 0.089
Identities = 11/72 (15%), Positives = 24/72 (33%), Gaps = 22/72 (30%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLD-----------YETEK-----------HQL 108
L + K+L F G ++ + ++ +E+ + +L
Sbjct: 14 RNLPFDFTWKMLKDKFNECGHVLYADIKMENGKSKGCGVVKFESPEVAERACRMMNGMKL 73
Query: 109 FGRIIRVNLAKP 120
GR I V + +
Sbjct: 74 SGREIDVRIDRN 85
>2kt5_A RNA and export factor-binding protein 2; chaperone, mRNA
processing, mRNA splicing, transport, nucleus,
RNA-binding, spliceosome, transport; NMR {Mus musculus}
Length = 124
Score = 31.6 bits (72), Expect = 0.10
Identities = 14/74 (18%), Positives = 19/74 (25%), Gaps = 23/74 (31%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLD------------YETEK-----------HQ 107
L V D + F FG L + D +E
Sbjct: 41 SNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYKGVP 100
Query: 108 LFGRIIRVNLAKPQ 121
L GR + + L Q
Sbjct: 101 LDGRPMDIQLVASQ 114
>2khc_A Testis-specific RNP-type RNA binding protein; RRM, RNA recognition
motif, bruno; NMR {Drosophila melanogaster}
Length = 118
Score = 31.2 bits (71), Expect = 0.13
Identities = 16/78 (20%), Positives = 30/78 (38%), Gaps = 26/78 (33%)
Query: 68 SNL--GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEK-------------------- 105
NL L +E D L + F+PFG+++ ++ +D +T
Sbjct: 41 CNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIK 100
Query: 106 ----HQLFGRIIRVNLAK 119
Q+ + ++V L K
Sbjct: 101 AMNGFQVGTKRLKVQLKK 118
>2e44_A Insulin-like growth factor 2 mRNA binding protein 3; RRM domain,
RBD, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 96
Score = 30.5 bits (69), Expect = 0.14
Identities = 10/85 (11%), Positives = 25/85 (29%), Gaps = 23/85 (27%)
Query: 64 KSRFSNL--GGLAEEVDDKVLNAAFIPFGDLVDIQMPLD----------YETEK------ 105
+ R L + + +VL++ + +G + + Y ++
Sbjct: 12 RQRIRKLQIRNIPPHLQWEVLDSLLVQYGVVESCEQVNTDSETAVVNVTYSSKDQARQAL 71
Query: 106 -----HQLFGRIIRVNLAKPQKVQQ 125
QL ++V + Q
Sbjct: 72 DKLNGFQLENFTLKVAYIPDEMAAQ 96
>2lkz_A RNA-binding protein 5; RRM; NMR {Homo sapiens}
Length = 95
Score = 30.4 bits (69), Expect = 0.16
Identities = 17/77 (22%), Positives = 25/77 (32%), Gaps = 11/77 (14%)
Query: 55 SFMTKHQSLKSRFSNLGGLAEE----VDDKVLNA----AFIPFGDLVDIQMPLDYETEKH 106
+ T S+ + S LA + DK AF+ +D L H
Sbjct: 18 APHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLLQILQSLH 77
Query: 107 QLF---GRIIRVNLAKP 120
G+ I V+ AK
Sbjct: 78 PPLKIDGKTIGVDFAKS 94
Score = 27.7 bits (62), Expect = 1.5
Identities = 9/43 (20%), Positives = 20/43 (46%), Gaps = 2/43 (4%)
Query: 70 LGGLAEEVDDKVLNAAFIPFGDL--VDIQMPLDYETEKHQLFG 110
L +A + A P+ L +I++ D +T++++ F
Sbjct: 14 LRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFA 56
>1nu4_A U1A RNA binding domain; RNA recognition motif, U1 small nuclear
ribonucleoprotein, R binding domain, RNA binding
protein; HET: MLA; 1.80A {Homo sapiens} SCOP: d.58.7.1
PDB: 1drz_A* 1urn_A 3hhn_B* 3egz_A* 1zzn_A* 1u6b_A*
3cun_A* 3cul_A* 3g8s_A* 3g8t_A* 3g96_A* 3g9c_A* 3irw_P*
3mum_P* 3mur_P* 3mut_P* 3muv_P* 3mxh_P* 3p49_B 3r1h_A*
...
Length = 97
Score = 30.3 bits (69), Expect = 0.17
Identities = 13/77 (16%), Positives = 25/77 (32%), Gaps = 25/77 (32%)
Query: 70 LGGLAEEVDD----KVLNAAFIPFGDLVDIQMPLDY---------------------ETE 104
+ L E++ K L+A F FG ++DI + +
Sbjct: 13 INNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSATNALRSMQ 72
Query: 105 KHQLFGRIIRVNLAKPQ 121
+ + +R+ AK
Sbjct: 73 GFPFYDKPMRIQYAKTD 89
>2cpf_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP,
structural genomics, NPPSFA; NMR {Mus musculus} SCOP:
d.58.7.1
Length = 98
Score = 30.3 bits (69), Expect = 0.19
Identities = 10/85 (11%), Positives = 19/85 (22%), Gaps = 29/85 (34%)
Query: 65 SRFSNL--GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEK----------------- 105
S S L L ++ L F G + +
Sbjct: 3 SGSSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQ 62
Query: 106 ----------HQLFGRIIRVNLAKP 120
H + G + V +++
Sbjct: 63 AQKALKQLQGHTVDGHKLEVRISER 87
>1fjc_A Nucleolin RBD2, protein C23; RNP, RRM, RNA binding domain,
nucleolus, structural protein; NMR {Mesocricetus
auratus} SCOP: d.58.7.1
Length = 96
Score = 30.3 bits (69), Expect = 0.21
Identities = 8/74 (10%), Positives = 22/74 (29%), Gaps = 19/74 (25%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVD------------IQMPLDYETEK-------HQLFGR 111
L+ + + L F ++ I+ + + EK ++ GR
Sbjct: 22 KNLSFNITEDELKEVFEDALEIRLVSQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGR 81
Query: 112 IIRVNLAKPQKVQQ 125
+ + + +
Sbjct: 82 SVSLYYTGEKGGTR 95
>3ulh_A THO complex subunit 4; nuclear protein, RNA binding, structural
genomi center for structural genomics, JCSG, protein
structure INI PSI-biology; 2.54A {Homo sapiens} PDB:
1no8_A
Length = 107
Score = 29.6 bits (67), Expect = 0.40
Identities = 14/80 (17%), Positives = 20/80 (25%), Gaps = 25/80 (31%)
Query: 64 KSRFSNL--GGLAEEVDDKVLNAAFIPFGDLVDIQMPLD------------YETEK---- 105
L L V D + F FG L + D +E +
Sbjct: 26 VETGGKLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALK 85
Query: 106 -------HQLFGRIIRVNLA 118
L GR + + L
Sbjct: 86 AMKQYNGVPLDGRPMNIQLV 105
>2j76_E EIF-4B, EIF4B, eukaryotic translation initiation factor 4B; protein
biosynthesis, RNA recognition motif, RNA binding domain,
RRM, RBD, RNP; NMR {Homo sapiens}
Length = 100
Score = 29.5 bits (67), Expect = 0.41
Identities = 12/77 (15%), Positives = 25/77 (32%), Gaps = 25/77 (32%)
Query: 70 LGGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEK------------------------ 105
LG L +V ++ + F + +++P + +
Sbjct: 24 LGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSALSLNE 82
Query: 106 HQLFGRIIRVNLAKPQK 122
L R IRV++A +
Sbjct: 83 ESLGNRRIRVDVADQAQ 99
>3lqv_A PRE-mRNA branch site protein P14; cysless mutant, PRE-mRNA
splicing, adenine, mRNA processing, nucleus,
phosphoprotein, RNA-binding; HET: ADE; 2.38A {Homo
sapiens} PDB: 2f9d_A 2f9j_A 2fho_B
Length = 115
Score = 29.6 bits (67), Expect = 0.41
Identities = 9/76 (11%), Positives = 20/76 (26%), Gaps = 21/76 (27%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLD----------YETEKH-----------QLF 109
L ++ + + F +G + I++ YE +
Sbjct: 14 RNLPYKITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYEDIFDAKNAVDHLSGFNVS 73
Query: 110 GRIIRVNLAKPQKVQQ 125
R + V + Q
Sbjct: 74 NRYLVVLYYNANRAFQ 89
>2dnh_A Bruno-like 5, RNA binding protein; RRM domain, RBD, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens} PDB: 2dnk_A
2dno_A
Length = 105
Score = 29.2 bits (66), Expect = 0.54
Identities = 9/42 (21%), Positives = 18/42 (42%), Gaps = 2/42 (4%)
Query: 61 QSLKSRFSNL--GGLAEEVDDKVLNAAFIPFGDLVDIQMPLD 100
+S R L G L ++ ++ + F PFG + + +
Sbjct: 9 ESRGGRDRKLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRG 50
>1x5o_A RNA binding motif, single-stranded interacting protein 1; structure
genomics, RRM domain, structural genomics, NPPSFA; NMR
{Homo sapiens} SCOP: d.58.7.1
Length = 114
Score = 29.1 bits (66), Expect = 0.59
Identities = 13/85 (15%), Positives = 22/85 (25%), Gaps = 25/85 (29%)
Query: 64 KSRFSNL--GGLAEEVDDKVLNAAFIPFGD------LVD----------IQMPLDYETEK 105
+ +NL L +D++ L PFG L D +M + E
Sbjct: 22 EQDPTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEA 81
Query: 106 -------HQLFGRIIRVNLAKPQKV 123
+ +P
Sbjct: 82 VIGHFNGKFIKTPPGVSAPTEPLLC 106
>2dis_A Unnamed protein product; structural genomics, RRM domain, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 109
Score = 29.0 bits (65), Expect = 0.66
Identities = 14/78 (17%), Positives = 27/78 (34%), Gaps = 9/78 (11%)
Query: 54 VSFMTKHQSLKSRFSNLGGLAEEVD--------DKVLNAAFIPFGDLVDIQMPLDY-ETE 104
+ M K + + + + +V K AF+ + M
Sbjct: 16 IPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPG 75
Query: 105 KHQLFGRIIRVNLAKPQK 122
+ QL+G I V+ A+P+
Sbjct: 76 RIQLWGHQIAVDWAEPEI 93
>2xnq_A Nuclear polyadenylated RNA-binding protein 3; transcription
termination, RNA processi recognition, RRM; HET: CAF;
1.30A {Saccharomyces cerevisiae} PDB: 2xnr_A 2l41_A
Length = 97
Score = 28.8 bits (65), Expect = 0.67
Identities = 10/69 (14%), Positives = 25/69 (36%), Gaps = 17/69 (24%)
Query: 71 GGL-AEEVDDKVLNAAFIPFGDLVDIQMP-----LDYETEK-----------HQLFGRII 113
G L + V + L F P+G ++ I + + ++ + FG+ +
Sbjct: 28 GNLPLKNVSKEDLFRIFSPYGHIMQINIKNAFGFIQFDNPQSVRDAIEXESQEMNFGKKL 87
Query: 114 RVNLAKPQK 122
+ ++
Sbjct: 88 ILEVSSSNA 96
>2lcw_A RNA-binding protein FUS; RRM, nucleic acid binding protein; NMR
{Homo sapiens}
Length = 116
Score = 28.9 bits (65), Expect = 0.72
Identities = 15/84 (17%), Positives = 23/84 (27%), Gaps = 32/84 (38%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDL--------VDIQMPLDYETEK----------------- 105
GL E V + + F G + I + D ET K
Sbjct: 13 QGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKA 72
Query: 106 -------HQLFGRIIRVNLAKPQK 122
+ G I+V+ A +
Sbjct: 73 AIDWFDGKEFSGNPIKVSFATRRA 96
>2cq2_A Hypothetical protein LOC91801; RRM domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 114
Score = 28.7 bits (64), Expect = 0.85
Identities = 8/30 (26%), Positives = 11/30 (36%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLD 100
GGL V L G + + MP +
Sbjct: 33 GGLGNGVSRNQLLPVLEKCGLVDALLMPPN 62
>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 101
Score = 28.4 bits (64), Expect = 0.86
Identities = 10/75 (13%), Positives = 22/75 (29%), Gaps = 20/75 (26%)
Query: 71 GGLAEEVDDKVLNAAFIPFGD--LVD-----------IQMPLDYETEK-------HQLFG 110
L+ ++ L F + I+ + ++ ++ G
Sbjct: 21 SNLSYSATEETLQEVFEKATFIKVPQNQNGKSKGYAFIEFASFEDAKEALNSCNKREIEG 80
Query: 111 RIIRVNLAKPQKVQQ 125
R IR+ L P+
Sbjct: 81 RAIRLELQGPRGSPN 95
>2f3j_A RNA and export factor binding protein 2; RRM domain, RBD domain.,
transport protein; NMR {Mus musculus}
Length = 177
Score = 29.4 bits (66), Expect = 0.92
Identities = 14/74 (18%), Positives = 19/74 (25%), Gaps = 23/74 (31%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLD------------YETEKH-----------Q 107
L V D + F FG L + D +E
Sbjct: 94 SNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYKGVP 153
Query: 108 LFGRIIRVNLAKPQ 121
L GR + + L Q
Sbjct: 154 LDGRPMDIQLVASQ 167
>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA,
spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1
d.58.7.1
Length = 198
Score = 29.5 bits (66), Expect = 0.96
Identities = 18/75 (24%), Positives = 28/75 (37%), Gaps = 19/75 (25%)
Query: 75 EEVDDKVLNAAFIPFGDLVD------------IQMPLDYETEK-------HQLFGRIIRV 115
E V + L F +GD+ +QM + + H+L G+ IR+
Sbjct: 14 ERVTPQSLFILFGVYGDVQRVKILFNKKENALVQMADGNQAQLAMSHLNGHKLHGKPIRI 73
Query: 116 NLAKPQKVQQTSSKP 130
L+K Q VQ
Sbjct: 74 TLSKHQNVQLPREGQ 88
>2a3j_A U1 small nuclear ribonucleoprotein A; computationally designed
protein, RRM, U1A, RNA binding protein; NMR {Homo
sapiens}
Length = 127
Score = 28.3 bits (63), Expect = 1.3
Identities = 10/77 (12%), Positives = 22/77 (28%), Gaps = 25/77 (32%)
Query: 71 GGLAEEVDD----KVLNAAFIPFGDLVDIQMPLDY---------------------ETEK 105
+ EV +L A GD++DI + L +
Sbjct: 35 TNINPEVPKEKLQALLYALASSQGDILDIVVDLSDDNSGKAYIVFATQESAQAFVEAFQG 94
Query: 106 HQLFGRIIRVNLAKPQK 122
+ G + + ++ +
Sbjct: 95 YPFQGNPLVITFSETPQ 111
>2dnl_A Cytoplasmic polyadenylation element binding protein 3; RRM domain,
RBD, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 114
Score = 28.0 bits (62), Expect = 1.6
Identities = 10/38 (26%), Positives = 16/38 (42%)
Query: 70 LGGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEKHQ 107
+GGL ++D+ + A+F FG LV
Sbjct: 13 VGGLPPDIDEDEITASFRRFGPLVVDWPHKAESKSYFP 50
>2bnl_A Modulator protein RSBR; stress-response, stress response,
phosphorylation; 2.0A {Bacillus subtilis}
Length = 136
Score = 28.1 bits (62), Expect = 1.7
Identities = 7/47 (14%), Positives = 18/47 (38%)
Query: 92 LVDIQMPLDYETEKHQLFGRIIRVNLAKPQKVQQTSSKPVWASDTWL 138
V I + + + F + + + + Q S++ +W D +
Sbjct: 74 AVQIGLSMKFLATALAEFWKRLYTKMNDKRLPDQESTELIWQIDRFF 120
>2div_A TRNA selenocysteine associated protein; structural genomics, RRM
domain, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens}
Length = 99
Score = 27.3 bits (61), Expect = 1.9
Identities = 8/41 (19%), Positives = 18/41 (43%), Gaps = 1/41 (2%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLV-DIQMPLDYETEKHQLFG 110
G L +D+ ++ AF G+ V +++ + T +
Sbjct: 15 GDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYC 55
>2cpi_A CCR4-NOT transcription complex subunit 4; RNA recognition motif,
RRM, RNP, structural genomics, NPPSFA; NMR {Mus
musculus} SCOP: d.58.7.1
Length = 111
Score = 27.5 bits (61), Expect = 2.0
Identities = 10/78 (12%), Positives = 21/78 (26%), Gaps = 30/78 (38%)
Query: 71 GGLAEEVDDKVL---NAAFIPFGDLVDIQMPLDYETEKHQ-------------------- 107
GL++ + D + F FG + + + Q
Sbjct: 21 VGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAI 80
Query: 108 -------LFGRIIRVNLA 118
+ GR ++ +L
Sbjct: 81 QCVNNVVVDGRTLKASLG 98
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 29.2 bits (65), Expect = 2.1
Identities = 21/126 (16%), Positives = 41/126 (32%), Gaps = 41/126 (32%)
Query: 84 AAFIPFGDLVDI----------QMPLDYETEKHQLFGRIIRVNLAKPQKVQQTSSKPVWA 133
A + LV++ +P D E + +I +N P +V + S+ A
Sbjct: 1774 ADVMSIESLVEVVFYRGMTMQVAVPRD---ELGRSNYGMIAIN---PGRVAASFSQE--A 1825
Query: 134 SDTW---LQKHAGETLDPEN------QI----DPA--EKLAASIDP-KTKKNPQVYMDIK 177
+ K G ++ N Q D + + ++ K +K I
Sbjct: 1826 LQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLNFIKLQK-------ID 1878
Query: 178 IGKQEV 183
I + +
Sbjct: 1879 IIELQK 1884
>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain,
RBD, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 97
Score = 27.5 bits (61), Expect = 2.2
Identities = 10/38 (26%), Positives = 18/38 (47%), Gaps = 1/38 (2%)
Query: 85 AFIPFGDLVDIQMPLDYETEKHQLFGRIIRVNLAKPQK 122
AF+ + D Q + + +L +RV LA+ Q+
Sbjct: 59 AFLHYPDSAAAQQAVS-CLQGLRLGTDTLRVALARQQR 95
>3pgw_S U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM,
splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo
sapiens} PDB: 3cw1_K 2l5i_A 2l5j_A*
Length = 437
Score = 28.7 bits (63), Expect = 2.3
Identities = 7/42 (16%), Positives = 15/42 (35%)
Query: 71 GGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEKHQLFGRI 112
+ + + L F +G + I M + K + + I
Sbjct: 108 ARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFI 149
>3egn_A RNA-binding protein 40; RNA recognition motif (RRM), RNP motif,
U11/U12-65K protein, DI-snRNP, U1A protein, U2B protein;
2.50A {Homo sapiens}
Length = 143
Score = 27.5 bits (61), Expect = 3.1
Identities = 15/86 (17%), Positives = 29/86 (33%), Gaps = 12/86 (13%)
Query: 55 SFMTKHQSLKSRFSNLGGLAEEVDDKVLNA-----------AFIPFGDLVDIQMPLDYET 103
+ + + LK F + E + + AFI + L E
Sbjct: 54 AKHVQEKDLKYIFGRYVDFSSETQRIMFDIRLMKEGRMKGQAFIGLPNEKAAAKALK-EA 112
Query: 104 EKHQLFGRIIRVNLAKPQKVQQTSSK 129
+ LFG+ + V A+ + +Q +
Sbjct: 113 NGYVLFGKPMVVQFARSARPKQDPKE 138
>1bw0_A TAT, protein (tyrosine aminotransferase); tyrosine catabolism,
pyridoxal-5'-phosphate, PLP; HET: LLP; 2.50A
{Trypanosoma cruzi} SCOP: c.67.1.1
Length = 416
Score = 28.0 bits (63), Expect = 4.1
Identities = 8/24 (33%), Positives = 12/24 (50%), Gaps = 3/24 (12%)
Query: 146 LDPEN--QIDPAEKLAASIDPKTK 167
PEN + D +++ D KTK
Sbjct: 157 CRPENDWEADL-DEIRRLKDDKTK 179
>2kvi_A Nuclear polyadenylated RNA-binding protein 3; RNA-binding motif,
RRM, transcription termination, NUC phosphoprotein; NMR
{Saccharomyces cerevisiae}
Length = 96
Score = 26.4 bits (59), Expect = 4.9
Identities = 10/69 (14%), Positives = 25/69 (36%), Gaps = 17/69 (24%)
Query: 71 GGL-AEEVDDKVLNAAFIPFGDLVDIQMP-----LDYETEK-----------HQLFGRII 113
G L + V + L F P+G ++ I + + ++ + FG+ +
Sbjct: 16 GNLPLKNVSKEDLFRIFSPYGHIMQINIKNAFGFIQFDNPQSVRDAIECESQEMNFGKKL 75
Query: 114 RVNLAKPQK 122
+ ++
Sbjct: 76 ILEVSSSNA 84
>3dyd_A Tyrosine aminotransferase; PLP, SGC, structural genomics,
structural genomics consortium, disease mutation,
phenylalani catabolism; HET: PLP; 2.30A {Homo sapiens}
PDB: 3pdx_A*
Length = 427
Score = 27.6 bits (62), Expect = 5.2
Identities = 10/24 (41%), Positives = 13/24 (54%), Gaps = 3/24 (12%)
Query: 146 LDPEN--QIDPAEKLAASIDPKTK 167
L PE +ID ++L ID KT
Sbjct: 171 LLPEKSWEIDL-KQLEYLIDEKTA 193
>3kfv_A Tight junction protein ZO-3; structural genomics consortium, SGC,
cell junction, cell membrane, membrane, SH3 domain;
2.80A {Homo sapiens}
Length = 308
Score = 27.5 bits (60), Expect = 5.2
Identities = 8/47 (17%), Positives = 17/47 (36%), Gaps = 7/47 (14%)
Query: 102 ETEKHQLFGRIIRVNLAKP-------QKVQQTSSKPVWASDTWLQKH 141
LF I +N +++ ++P+W ++ L H
Sbjct: 259 RKHSSHLFTATIPLNGTSDTWYQELKAIIREQQTRPIWTAEDQLHHH 305
>1wi8_A EIF-4B, eukaryotic translation initiation factor 4B; RNA
recognition motif, RRM, RNA binding domain, RBD, RNP,
structural genomics; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 104
Score = 26.1 bits (58), Expect = 6.3
Identities = 11/77 (14%), Positives = 25/77 (32%), Gaps = 25/77 (32%)
Query: 70 LGGLAEEVDDKVLNAAFIPFGDLVDIQMPLDYETEK------------------------ 105
LG L +V ++ + F + +++P + +
Sbjct: 20 LGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSALSLNE 78
Query: 106 HQLFGRIIRVNLAKPQK 122
L + IRV++A +
Sbjct: 79 ESLGNKRIRVDVADQAQ 95
>1wel_A RNA-binding protein 12; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens} SCOP: d.58.7.1
Length = 124
Score = 26.0 bits (57), Expect = 8.2
Identities = 12/83 (14%), Positives = 30/83 (36%), Gaps = 8/83 (9%)
Query: 54 VSFMTKHQSLKSRFSNLGGLAEEV------DDKVLNAAFIPFGDLVDIQMPLDYETEKHQ 107
+ F +++ + F L + + + + K F+ F + D + L K
Sbjct: 33 LPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALCRH--KQY 90
Query: 108 LFGRIIRVNLAKPQKVQQTSSKP 130
+ R I+V+ + + +
Sbjct: 91 MGNRFIQVHPITKKGMLEKIDMI 113
>3ele_A Amino transferase; RER070207001803, structural genomics, JOI for
structural genomics, JCSG; HET: MSE PLP; 2.10A
{Eubacterium rectale}
Length = 398
Score = 26.8 bits (60), Expect = 8.6
Identities = 8/23 (34%), Positives = 12/23 (52%), Gaps = 2/23 (8%)
Query: 146 LDPEN-QIDPAEKLAASIDPKTK 167
D E+ QID + L I+ T+
Sbjct: 153 ADTEHFQIDF-DALEERINAHTR 174
>2krb_A Eukaryotic translation initiation factor 3 subunit B; EIF3,
eukaryotic initiation factor, EIF3B, EIF3J; NMR {Homo
sapiens}
Length = 81
Score = 25.0 bits (55), Expect = 9.4
Identities = 5/21 (23%), Positives = 10/21 (47%)
Query: 80 KVLNAAFIPFGDLVDIQMPLD 100
V++ F FG + + P +
Sbjct: 22 NVIHKIFSKFGKITNDFYPEE 42
>3mfq_A TROA, high-affinity zinc uptake system protein ZNUA; metal binding
protein; 2.60A {Streptococcus suis}
Length = 282
Score = 26.5 bits (59), Expect = 9.5
Identities = 10/52 (19%), Positives = 21/52 (40%), Gaps = 1/52 (1%)
Query: 152 IDPAEKLAASIDPKTKKNPQVYMDIKIGKQEVGRITIQLRYDLVPRTAENFR 203
+ + D + +P + I + K V + +L+ L+P AE +
Sbjct: 85 FNAKDLNTMDEDGEEIVDPHFWFSIPLYKSAVAVASEELQ-KLLPAKAEMIQ 135
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.320 0.137 0.420
Gapped
Lambda K H
0.267 0.0770 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,440,786
Number of extensions: 261153
Number of successful extensions: 935
Number of sequences better than 10.0: 1
Number of HSP's gapped: 745
Number of HSP's successfully gapped: 243
Length of query: 289
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 196
Effective length of database: 4,105,140
Effective search space: 804607440
Effective search space used: 804607440
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 57 (25.7 bits)