RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2363
(156 letters)
>3l0w_B Monoubiquitinated proliferating cell nuclear antigen, proliferating
cell nuclear antigen; replication, DNA damage, DNA
repair; 2.80A {Saccharomyces cerevisiae} PDB: 3l10_B
Length = 169
Score = 110 bits (276), Expect = 1e-31
Identities = 36/158 (22%), Positives = 63/158 (39%), Gaps = 41/158 (25%)
Query: 1 MPSGEFARICRDLAQFGESINISCTK------EGVKFSATGDIGSANIKLAQTGNVDKEE 54
E R D ES + E +KF A GDIGS ++ + +++
Sbjct: 47 GKQLEDGRTLSDYNIQKESTLHLVLRLRGGGGETIKFVADGDIGSGSVIIKPFVDME--- 103
Query: 55 EAVTVEMQEPVSLNFACRYLLNFAKAAPLSNQEEEAVTVEMQEPVSLNFACRYLLNFAKA 114
E ++ +EM +PV L F +YLL+ K
Sbjct: 104 -------------------------------HPETSIKLEMDQPVDLTFGAKYLLDIIKG 132
Query: 115 APLSNQVCLSMSLDVPLVVEFKIDDIGHIRYYLAPKIE 152
+ LS++V + +S + P + +F + G ++++LAPK
Sbjct: 133 SSLSDRVGIRLSSEAPALFQFDLKS-GFLQFFLAPKFN 169
>1u7b_A PCNA, cyclin, proliferating cell nuclear antigen; sliding clamp,
DNA processing, FEN1, PIP- BOX, replication; 1.88A {Homo
sapiens} SCOP: d.131.1.2 d.131.1.2 PDB: 1u76_A 1axc_A
1ul1_A 1vyj_A 1vym_A 1w60_A 2zvk_A* 2zvl_A* 2zvm_A*
3p87_A 3vkx_A*
Length = 261
Score = 97.4 bits (241), Expect = 1e-25
Identities = 83/155 (53%), Positives = 102/155 (65%), Gaps = 34/155 (21%)
Query: 1 MPSGEFARICRDLAQFGESINISCTKEGVKFSATGDIGSANIKLAQTGNVDKEEEAVTVE 60
MPSGEFARICRDL+ G+++ ISC K+GVKFSA+G++G+ NIKL+QT NVD
Sbjct: 139 MPSGEFARICRDLSHIGDAVVISCAKDGVKFSASGELGNGNIKLSQTSNVD--------- 189
Query: 61 MQEPVSLNFACRYLLNFAKAAPLSNQEEEAVTVEMQEPVSLNFACRYLLNFAKAAPLSNQ 120
+EEEAVT+EM EPV L FA RYL F KA PLS+
Sbjct: 190 -------------------------KEEEAVTIEMNEPVQLTFALRYLNFFTKATPLSST 224
Query: 121 VCLSMSLDVPLVVEFKIDDIGHIRYYLAPKIESDD 155
V LSMS DVPLVVE+KI D+GH++YYLAPKIE ++
Sbjct: 225 VTLSMSADVPLVVEYKIADMGHLKYYLAPKIEDEE 259
>3fds_C DNA polymerase sliding clamp B; protein-protein complex, DNA
damage, DNA repair, DNA replica DNA-binding,
DNA-directed DNA polymerase; HET: DNA 1PE PGE; 2.05A
{Sulfolobus solfataricus} PDB: 2io4_A* 2nti_D* 2hii_A
2hik_A 2ix2_A* 2izo_C*
Length = 249
Score = 96.7 bits (240), Expect = 2e-25
Identities = 17/152 (11%), Positives = 45/152 (29%), Gaps = 41/152 (26%)
Query: 1 MPSGEFARICRDLAQFGESINISCTKEGVKFSATGDIGSANIKLAQTGNVDKEEEAVTVE 60
I D+ GE + IS ++ +K A +
Sbjct: 138 TDESVLNVIAADVTLVGEEMRISTEEDKIKIEAGEEGKRYVA------------------ 179
Query: 61 MQEPVSLNFACRYLLNFAKAAPLSNQEEEAVTVEMQEPVSLNFACRYLLNFAKAA-PLSN 119
+++ + + S +++ + K S
Sbjct: 180 ----------------------FLMKDKPLKELSIDTSASSSYSAEMFKDAVKGLRGFSA 217
Query: 120 QVCLSMSLDVPLVVEFKIDDIGHIRYYLAPKI 151
+S ++P+ ++ + GH+ +++AP++
Sbjct: 218 PTMVSFGENLPMKIDVEAVSGGHMIFWIAPRL 249
>1plq_A Proliferating cell nuclear antigen (PCNA); DNA-binding, nuclear
protein, DNA replication, processivity; 2.30A
{Saccharomyces cerevisiae} SCOP: d.131.1.2 d.131.1.2
PDB: 1plr_A 2od8_A* 1sxj_F* 3f1w_A 3v60_B 3v61_B 3v62_B*
3gpn_A 3gpm_A 3l0w_A 3l0x_A 3l10_A 3pge_B 3l0x_B
Length = 258
Score = 94.6 bits (234), Expect = 1e-24
Identities = 46/155 (29%), Positives = 79/155 (50%), Gaps = 35/155 (22%)
Query: 1 MPSGEFARICRDLAQFGESINISCTKEGVKFSATGDIGSANIKLAQTGNVDKEEEAVTVE 60
+PS EF++I RDL+Q +SINI TKE +KF A GDIGS ++ + +++ E ++ +E
Sbjct: 139 LPSSEFSKIVRDLSQLSDSINIMITKETIKFVADGDIGSGSVIIKPFVDMEHPETSIKLE 198
Query: 61 MQEPVSLNFACRYLLNFAKAAPLSNQEEEAVTVEMQEPVSLNFACRYLLNFAKAAPLSNQ 120
M +PV L F +YLL+ K + LS++
Sbjct: 199 MDQPVDLTFGAKYLLDIIKGSSLSDR---------------------------------- 224
Query: 121 VCLSMSLDVPLVVEFKIDDIGHIRYYLAPKIESDD 155
V + +S + P + +F + G ++++LAPK ++
Sbjct: 225 VGIRLSSEAPALFQFDLKS-GFLQFFLAPKFNDEE 258
>3pge_A SUMO-modified proliferating cell nuclear antigen; DNA replication,
DNA binding protein; 2.80A {Saccharomyces cerevisiae}
Length = 200
Score = 92.7 bits (229), Expect = 2e-24
Identities = 34/155 (21%), Positives = 64/155 (41%), Gaps = 43/155 (27%)
Query: 1 MPSGEFARICRDLAQFGESINISCTKEGVKFSATGDIGSANIKLAQTGNVDKEEEAVTVE 60
M + R+ I E +KF A GDIGS ++ + +++
Sbjct: 89 MEDNDIIEAHRE--------QIGGGGETIKFVADGDIGSGSVIIKPFVDME--------- 131
Query: 61 MQEPVSLNFACRYLLNFAKAAPLSNQEEEAVTVEMQEPVSLNFACRYLLNFAKAAPLSNQ 120
E ++ +EM +PV L F +YLL+ K + LS++
Sbjct: 132 -------------------------HPETSIKLEMDQPVDLTFGAKYLLDIIKGSSLSDR 166
Query: 121 VCLSMSLDVPLVVEFKIDDIGHIRYYLAPKIESDD 155
V + +S + P + +F + G ++++LAPK ++
Sbjct: 167 VGIRLSSEAPALFQFDLKS-GFLQFFLAPKFNDEE 200
>3k4x_A PCNA, proliferating cell nuclear antigen; DNA replication,
DNA-binding; HET: DNA; 2.98A {Saccharomyces cerevisiae}
Length = 798
Score = 94.7 bits (234), Expect = 2e-23
Identities = 46/155 (29%), Positives = 79/155 (50%), Gaps = 35/155 (22%)
Query: 1 MPSGEFARICRDLAQFGESINISCTKEGVKFSATGDIGSANIKLAQTGNVDKEEEAVTVE 60
+PS EF++I RDL+Q +SINI TKE +KF A GDIGS ++ + +++ E ++ +E
Sbjct: 679 LPSSEFSKIVRDLSQLSDSINIMITKETIKFVADGDIGSGSVIIKPFVDMEHPETSIKLE 738
Query: 61 MQEPVSLNFACRYLLNFAKAAPLSNQEEEAVTVEMQEPVSLNFACRYLLNFAKAAPLSNQ 120
M +PV L F +YLL+ K + LS++
Sbjct: 739 MDQPVDLTFGAKYLLDIIKGSSLSDR---------------------------------- 764
Query: 121 VCLSMSLDVPLVVEFKIDDIGHIRYYLAPKIESDD 155
V + +S + P + +F + G ++++LAPK ++
Sbjct: 765 VGIRLSSEAPALFQFDLKS-GFLQFFLAPKFNDEE 798
Score = 85.4 bits (210), Expect = 2e-20
Identities = 46/156 (29%), Positives = 79/156 (50%), Gaps = 35/156 (22%)
Query: 1 MPSGEFARICRDLAQFGESINISCTKEGVKFSATGDIGSANIKLAQTGNVDKEEEAVTVE 60
+PS EF++I RDL+Q +SINI TKE +KF A GDIGS ++ + +++ E ++ +E
Sbjct: 145 LPSSEFSKIVRDLSQLSDSINIMITKETIKFVADGDIGSGSVIIKPFVDMEHPETSIKLE 204
Query: 61 MQEPVSLNFACRYLLNFAKAAPLSNQEEEAVTVEMQEPVSLNFACRYLLNFAKAAPLSNQ 120
M +PV L F +YLL+ K + LS++
Sbjct: 205 MDQPVDLTFGAKYLLDII----------------------------------KGSSLSDR 230
Query: 121 VCLSMSLDVPLVVEFKIDDIGHIRYYLAPKIESDDN 156
V + +S + P + +F + G ++++LAPK + +
Sbjct: 231 VGIRLSSEAPALFQFDLKS-GFLQFFLAPKFNDEGS 265
Score = 85.0 bits (209), Expect = 4e-20
Identities = 46/156 (29%), Positives = 79/156 (50%), Gaps = 35/156 (22%)
Query: 1 MPSGEFARICRDLAQFGESINISCTKEGVKFSATGDIGSANIKLAQTGNVDKEEEAVTVE 60
+PS EF++I RDL+Q +SINI TKE +KF A GDIGS ++ + +++ E ++ +E
Sbjct: 412 LPSSEFSKIVRDLSQLSDSINIMITKETIKFVADGDIGSGSVIIKPFVDMEHPETSIKLE 471
Query: 61 MQEPVSLNFACRYLLNFAKAAPLSNQEEEAVTVEMQEPVSLNFACRYLLNFAKAAPLSNQ 120
M +PV L F +YLL+ K + LS++
Sbjct: 472 MDQPVDLTFGAKYLLDII----------------------------------KGSSLSDR 497
Query: 121 VCLSMSLDVPLVVEFKIDDIGHIRYYLAPKIESDDN 156
V + +S + P + +F + G ++++LAPK + +
Sbjct: 498 VGIRLSSEAPALFQFDLKS-GFLQFFLAPKFNDEGS 532
>2zvv_A PCNA 1, proliferating cellular nuclear antigen 1; protein-peptide
complex, DNA replication, DNA-binding, nucleus, DNA
binding protein; 2.00A {Arabidopsis thaliana} PDB:
2zvw_A
Length = 276
Score = 91.2 bits (225), Expect = 4e-23
Identities = 71/152 (46%), Positives = 96/152 (63%), Gaps = 34/152 (22%)
Query: 1 MPSGEFARICRDLAQFGESINISCTKEGVKFSATGDIGSANIKLAQTGNVDKEEEAVTVE 60
MPS EF+RIC+DL+ G+++ IS TKEGVKFS GDIG+ANI L Q VDK E+A+ +E
Sbjct: 159 MPSNEFSRICKDLSSIGDTVVISVTKEGVKFSTAGDIGTANIVLRQNTTVDKPEDAIVIE 218
Query: 61 MQEPVSLNFACRYLLNFAKAAPLSNQEEEAVTVEMQEPVSLNFACRYLLNFAKAAPLSNQ 120
M+EPVSL+FA RY+ +F KA PLS+
Sbjct: 219 MKEPVSLSFALRYMNSFT----------------------------------KATPLSDT 244
Query: 121 VCLSMSLDVPLVVEFKIDDIGHIRYYLAPKIE 152
V +S+S ++P+VVE+K+ ++G+IRYYLAPKIE
Sbjct: 245 VTISLSSELPVVVEYKVAEMGYIRYYLAPKIE 276
Score = 26.1 bits (56), Expect = 5.6
Identities = 6/42 (14%), Positives = 11/42 (26%)
Query: 3 SGEFARICRDLAQFGESINISCTKEGVKFSATGDIGSANIKL 44
++ + N C+ G A A + L
Sbjct: 29 GSLLKKVLESIKDLVNDANFDCSSTGFSLQAMDSSHVALVSL 70
>3lx2_A DNA polymerase sliding clamp 2; PCNA, DNA processivity factor,
trimer, toroidal, DNA replica DNA-binding, DNA binding
protein; HET: DNA; 2.40A {Thermococcus kodakarensis}
Length = 259
Score = 90.0 bits (222), Expect = 6e-23
Identities = 21/155 (13%), Positives = 46/155 (29%), Gaps = 38/155 (24%)
Query: 1 MPSGEFARICRDLAQFGESINISCTKEGVKFSATGDIGSANIKLAQTGNVDKEEEAVTVE 60
+ +G R + +SI T E + F A G+ L
Sbjct: 136 VLAGALKRAVKAAKLVSDSIYFMATPEKLTFKAEGNDSEVRTVLTM-------------- 181
Query: 61 MQEPVSLNFACRYLLNFAKAAPLSNQEEEAVTVEMQEPVSLNFACRYLLNFAKAAPLSNQ 120
+ YL + ++ +++
Sbjct: 182 ------------------------EDPGLLDLEHKMTKAKSAYGVAYLEDILRSLADADE 217
Query: 121 VCLSMSLDVPLVVEFKIDDIGHIRYYLAPKIESDD 155
V + D+PL++++ + D G + + +AP++E
Sbjct: 218 VIIRFGFDIPLLLKYMVRDAGEVSFLIAPRVEEGR 252
>1iz5_A Proliferating cell nuclear antigen; DNA, replication, processivity,
sliding clamp, DNA binding protein; 1.80A {Pyrococcus
furiosus} SCOP: d.131.1.2 d.131.1.2 PDB: 3a2f_B* 1iz4_A
1ge8_A 1isq_A 3lx1_A*
Length = 249
Score = 86.6 bits (213), Expect = 1e-21
Identities = 24/152 (15%), Positives = 51/152 (33%), Gaps = 39/152 (25%)
Query: 1 MPSGEFARICRDLAQFGESINISCTKEGVKFSATGDIGSANIKLAQTGNVDKEEEAVTVE 60
+ + + +SI + A G+ IKL
Sbjct: 136 VLGEVLKAAVKAASLVSDSIKFIARENEFIMKAEGETQEVEIKL---------------- 179
Query: 61 MQEPVSLNFACRYLLNFAKAAPLSNQEEEAVTVEMQEPVSLNFACRYLLNFAKAAPLSNQ 120
+ ++E + +E+QE + YL + K +++
Sbjct: 180 -----------------------TLEDEGLLDIEVQEETKSAYGVSYLSDMVKGLGKADE 216
Query: 121 VCLSMSLDVPLVVEFKIDDIGHIRYYLAPKIE 152
V + ++P+ +E+ I D G + + LAP++E
Sbjct: 217 VTIKFGNEMPMQMEYYIRDEGRLTFLLAPRVE 248
>3p91_A Proliferating cell nuclear antigen; DNA binding protein, DNA
replication, processivity, sliding; 2.40A {Entamoeba
histolytica}
Length = 265
Score = 85.4 bits (210), Expect = 5e-21
Identities = 40/156 (25%), Positives = 69/156 (44%), Gaps = 38/156 (24%)
Query: 1 MPSGEFARICRDLAQFGES-INISCTKEGVKFSATGDIGSANIKLAQTGNVDKEEEAVTV 59
+ S EF +I +D + G+ I I CTK V + G + + L+
Sbjct: 143 LSSAEFLKITKDFSALGDDSITIGCTKNEVTLTTKGAMCETCMTLSAL------------ 190
Query: 60 EMQEPVSLNFACRYLLNFAKAAPLSNQEEEAVTVEMQEPVSLNFACRYLLNFAKAAPLSN 119
N + + +E + V+ +FA + + FAK+APL++
Sbjct: 191 ------------------------ENVDSNGLQIEHNKDVTASFALKQISEFAKSAPLAD 226
Query: 120 QVCLSMSLDVPLVVEFKIDDIGHIRYYLAPKIESDD 155
V LS+S PL++EFK + +++YLAPK + +D
Sbjct: 227 NVKLSLSGQAPLIMEFKGEA-CVLKFYLAPKFDEED 261
>3aiz_C DNA polymerase sliding clamp C; protein-protein complex,
replication; HET: DNA; 2.80A {Sulfolobus tokodaii} PDB:
3aix_A*
Length = 246
Score = 83.1 bits (204), Expect = 2e-20
Identities = 25/153 (16%), Positives = 50/153 (32%), Gaps = 41/153 (26%)
Query: 1 MPSGEFARICRDLAQFG-ESINISCTKEGVKFSATGDIGSANIKLAQTGNVDKEEEAVTV 59
+ F I ++ G +SI + SA D+GS+ I+L
Sbjct: 134 ALTVTFTDIIDEIEDIGGDSITFKAEGGKLYLSANSDMGSSTIEL--------------- 178
Query: 60 EMQEPVSLNFACRYLLNFAKAAPLSNQEEEAVTVEMQEPVSLNFACRYLLNFAKAAPLSN 119
+ E + + Y++N +K S+
Sbjct: 179 -------------------------STENGGLLESEGGDAESVYGLEYVVNTSKMRKPSD 213
Query: 120 QVCLSMSLDVPLVVEFKIDDIGHIRYYLAPKIE 152
V ++ +PL + + + G+ +Y+AP+ E
Sbjct: 214 TVEIAFGSQIPLKLRYNLPQGGYADFYIAPRAE 246
Score = 25.3 bits (54), Expect = 9.5
Identities = 10/42 (23%), Positives = 18/42 (42%)
Query: 3 SGEFARICRDLAQFGESINISCTKEGVKFSATGDIGSANIKL 44
+ F+ I R L +F + I + T +G+K I +
Sbjct: 8 ADAFSYIFRTLEEFIDEITLDFTSDGLKIRGIDPSRVTFIDI 49
>3aiz_A DNA polymerase sliding clamp B; protein-protein complex,
replication; HET: DNA; 2.80A {Sulfolobus tokodaii} PDB:
3aix_B*
Length = 248
Score = 83.1 bits (204), Expect = 3e-20
Identities = 23/151 (15%), Positives = 48/151 (31%), Gaps = 40/151 (26%)
Query: 1 MPSGEFARICRDLAQFGESINISCTKEGVKFSATGDIGSANIKLAQTGNVDKEEEAVTVE 60
I RDL+ GE + IS + V S + L
Sbjct: 138 TDGDVLKDIARDLSLVGEEVEISADENTVTLSTEEAGRTYKSLL---------------- 181
Query: 61 MQEPVSLNFACRYLLNFAKAAPLSNQEEEAVTVEMQEPVSLNFACRYLLNFAKAAPLSNQ 120
Q++ ++ ++ P ++ L + K +S
Sbjct: 182 ------------------------KQDKPLKSLNVESPSKAVYSIEVLKDVFKVTSISQN 217
Query: 121 VCLSMSLDVPLVVEFKIDDIGHIRYYLAPKI 151
V + ++P+ +E D G + +++AP++
Sbjct: 218 VTVGFGNNIPMKIEVPTDSGGQLIFWIAPRL 248
>3fds_D DNA polymerase sliding clamp C; protein-protein complex, DNA
damage, DNA repair, DNA replica DNA-binding,
DNA-directed DNA polymerase; HET: DNA 1PE PGE; 2.05A
{Sulfolobus solfataricus} PDB: 2nti_E* 2io4_B* 2ix2_B*
2hik_B 2hii_B* 2izo_B*
Length = 245
Score = 82.7 bits (203), Expect = 4e-20
Identities = 28/150 (18%), Positives = 54/150 (36%), Gaps = 40/150 (26%)
Query: 1 MPSGEFARICRDLAQFGESINISCTKEGVKFSATGDIGSANIKLAQTGNVDKEEEAVTVE 60
+ + FA I +L+ GE +NI + + F GD+ +A ++L
Sbjct: 135 LLTITFADIIDELSDLGEVLNIHSKENKLYFEVIGDLSTAKVEL---------------- 178
Query: 61 MQEPVSLNFACRYLLNFAKAAPLSNQEEEAVTVEMQEPVSLNFACRYLLNFAKAAPLSNQ 120
+ + + VS ++ Y+ N K S+
Sbjct: 179 ------------------------STDNGTLLEASGADVSSSYGMEYVANTTKMRRASDS 214
Query: 121 VCLSMSLDVPLVVEFKIDDIGHIRYYLAPK 150
+ L +PL + FK+ G+ +Y+AP+
Sbjct: 215 MELYFGSQIPLKLRFKLPQEGYGDFYIAPR 244
Score = 28.0 bits (61), Expect = 1.1
Identities = 13/66 (19%), Positives = 27/66 (40%), Gaps = 6/66 (9%)
Query: 3 SGEFARICRDLAQFGESINISCTKEGVKFSATGDIGSANIKLA------QTGNVDKEEEA 56
+ F+ I R + F N TKEG++ S + + + V +E+E
Sbjct: 9 AVSFSYILRTVGDFLSEANFIVTKEGIRVSGIDPSRVVFLDIFLPSSYFEGFEVSQEKEI 68
Query: 57 VTVEMQ 62
+ +++
Sbjct: 69 IGFKLE 74
>2ijx_A DNA polymerase sliding clamp A; PCNA3 subunit, protein-protein
interaction, PCNA123 heterotr binding protein; HET: DNA;
1.90A {Sulfolobus solfataricus} PDB: 2nti_F* 2hii_C
2hik_C 2ix2_C*
Length = 244
Score = 81.6 bits (200), Expect = 8e-20
Identities = 21/151 (13%), Positives = 46/151 (30%), Gaps = 40/151 (26%)
Query: 1 MPSGEFARICRDLAQFGESINISCTKEGVKFSATGDIGSANIKLAQTGNVDKEEEAVTVE 60
+ S F +++ +++ + ++ + A G+
Sbjct: 134 ISSDGFKSAISEVSTVTDNVVVEGHEDRILIKAEGESEVEVE------------------ 175
Query: 61 MQEPVSLNFACRYLLNFAKAAPLSNQEEEAVTVEMQEPVSLNFACRYLLNFAKAAPLSNQ 120
S +E + +++ YL + LS+
Sbjct: 176 ----------------------FSKDTGGLQDLEFSKESKNSYSAEYLDDVLSLTKLSDY 213
Query: 121 VCLSMSLDVPLVVEFKIDDIGHIRYYLAPKI 151
V +S PL + F ++ G + Y LAPK+
Sbjct: 214 VKISFGNQKPLQLFFNMEGGGKVTYLLAPKV 244
>3ifv_A PCNA; processivity factor, sliding clamp, halophilic, replication;
2.00A {Haloferax volcanii} PDB: 3hi8_A
Length = 247
Score = 79.9 bits (196), Expect = 4e-19
Identities = 27/157 (17%), Positives = 52/157 (33%), Gaps = 45/157 (28%)
Query: 1 MPSGEFARICRDLAQFGESINISCT--KEGVKFSATGDIGSANIKLAQTGNVDKEEEAVT 58
+ R + + I + +E A GD ++ L + ++
Sbjct: 133 LEGTHLDRGIKAADMVSDHIRLRVDGAEETFHIEAEGDTDDVDLSL-------PPADLIS 185
Query: 59 VEMQEPVSLNFACRYLLNFAKAAPLSNQEEEAVTVEMQEPVSLNFACRYLLNFAKAAPLS 118
+E S F+ YL + KA P
Sbjct: 186 IEAGAADS-----------------------------------LFSLDYLKDMNKAIPTD 210
Query: 119 NQVCLSMSLDVPLVVEFKI-DDIGHIRYYLAPKIESD 154
+V + + + P+ + ++I + +G I Y LAP+I+SD
Sbjct: 211 AEVTVELGEEFPVKLHYQIAEGMGTITYMLAPRIQSD 247
>1ud9_A DNA polymerase sliding clamp A; DNA-binding, DNA replication, DNA
binding protein; HET: DNA; 1.68A {Sulfolobus tokodaii}
SCOP: d.131.1.2 d.131.1.2
Length = 245
Score = 79.3 bits (194), Expect = 6e-19
Identities = 23/151 (15%), Positives = 47/151 (31%), Gaps = 40/151 (26%)
Query: 1 MPSGEFARICRDLAQFGESINISCTKEGVKFSATGDIGSANIKLAQTGNVDKEEEAVTVE 60
+ + ++A+ +++ IS +E V G+
Sbjct: 134 INASGLKNAIGEIAEVADTLLISGNEEKVVVKGEGENKVEVE------------------ 175
Query: 61 MQEPVSLNFACRYLLNFAKAAPLSNQEEEAVTVEMQEPVSLNFACRYLLNFAKAAPLSNQ 120
S +E + S + YL + LS+
Sbjct: 176 ----------------------FSKDTGSLADIEFNKESSSAYDVEYLNDIISLTKLSDY 213
Query: 121 VCLSMSLDVPLVVEFKIDDIGHIRYYLAPKI 151
V ++ + P+ +EF ++ G + Y LAPK+
Sbjct: 214 VKVAFADQKPMQLEFNMEGGGKVTYLLAPKL 244
>1rwz_A DNA polymerase sliding clamp; torus, processivity factor,
replication; HET: DNA; 1.80A {Archaeoglobus fulgidus}
SCOP: d.131.1.2 d.131.1.2 PDB: 1rxm_A* 1rxz_A* 3p83_A*
Length = 245
Score = 79.3 bits (194), Expect = 6e-19
Identities = 27/155 (17%), Positives = 49/155 (31%), Gaps = 43/155 (27%)
Query: 1 MPSGEFARICRDLAQFGESINISCTKEGVKFSATGDIGSANIKLAQTGNVDKEEEAVTVE 60
M +GEF + + + + KEG + A GD+ S +
Sbjct: 133 MDAGEFKKAIAAADKISDQVIFRSDKEGFRIEAKGDVDSIVFHM---------------- 176
Query: 61 MQEPVSLNFACRYLLNFAKAAPLSNQEEEAVTVEMQEPVSLNFACRYLLNFAKAAPLSNQ 120
E + F+ YL F K A +
Sbjct: 177 --------------------------TETELIEFNGGEARSMFSVDYLKEFCKVAGSGDL 210
Query: 121 VCLSMSLDVPLVVEFKI-DDIGHIRYYLAPKIESD 154
+ + + + P+ + F++ + Y LAP+IES+
Sbjct: 211 LTIHLGTNYPVRLVFELVGGRAKVEYILAPRIESE 245
>3a1j_C Cell cycle checkpoint protein RAD1; DNA damage, DNA repair,
exonuclease, hydrolase, nuclease, nucleus,
phosphoprotein, polymorphism, cytoplasm; HET: SUC; 2.50A
{Homo sapiens} PDB: 3g65_B 3ggr_C
Length = 263
Score = 70.7 bits (173), Expect = 1e-15
Identities = 20/155 (12%), Positives = 40/155 (25%), Gaps = 45/155 (29%)
Query: 1 MPSGEFARICRDLAQFGESINISCTKE--GVKFSATGDIGSANIKLAQTGNVDKEEEAVT 58
+ S +L E + I+ + + + S G+ GS+++
Sbjct: 146 LQSEGLREAFSELDMTSEVLQITMSPDKPYFRLSTFGNAGSSHLD--------------- 190
Query: 59 VEMQEPVSLNFACRYLLNFAKAAPLSNQEEEAVTVEMQEPVSLNFACRYLLNFAKAAPLS 118
+ + + L KA LS
Sbjct: 191 ------------------------YPKDSDLMEAFHCNQTQVNRYKISLLKPSTKALVLS 226
Query: 119 NQVCLSMSLDVPLVVEFKID----DIGHIRYYLAP 149
+V + L +++ I I + YY P
Sbjct: 227 CKVSIRTDNRGFLSLQYMIRNEDGQICFVEYYCCP 261
>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 = 43.3 bits (101), Expect = 1e-05
Identities = 23/182 (12%), Positives = 52/182 (28%), Gaps = 38/182 (20%)
Query: 1 MPSGEF---ARICRDLAQFGESINISCTKEGVKFSATGDIGSANIKLAQTGNVDKEEEAV 57
M F + C E + + +++ D S+NIKL + + +
Sbjct: 180 MDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSD-HSSNIKL----RIHSIQAEL 234
Query: 58 TVEMQE---PVSL---------------NFACRYLL---NFAKAAPLSNQEEEAVTVEMQ 96
++ L N +C+ LL LS ++++
Sbjct: 235 RRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLD-- 292
Query: 97 EPVSLNFACRYLLN-FAKAAP-----LSNQVCLSMSLDVPLVVEFKIDDIGHIRYYLAPK 150
S+ + + K L +V + + ++ E D + +
Sbjct: 293 -HHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVN 351
Query: 151 IE 152
+
Sbjct: 352 CD 353
Score = 32.1 bits (72), Expect = 0.074
Identities = 16/112 (14%), Positives = 44/112 (39%), Gaps = 19/112 (16%)
Query: 46 QTGNVDKEEEAVTVEMQEPVSLNFACRYLLNFAKAAPLSNQEEEAVTVEMQEPVSLNFAC 105
+TG + + + ++ NF C+ + + K+ LS +E + + + +++
Sbjct: 10 ETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSI-LSKEEIDHI---IMSKDAVS-GT 64
Query: 106 RYLLNFAKAAPLSNQVCLSMSLDVPLVVEFKIDDIGHIRY-YLAPKIESDDN 156
L + +V +F ++++ I Y +L I+++
Sbjct: 65 LRLFWTLLSKQEE------------MVQKF-VEEVLRINYKFLMSPIKTEQR 103
>3g65_A Cell cycle checkpoint control protein RAD9A; PCNA, DNA binding
clamp, DNA damage, DNA repair, exonuclease, hydrolase,
nuclease, nucleus, phosphoprotein; 2.90A {Homo sapiens}
Length = 296
Score = 42.4 bits (99), Expect = 2e-05
Identities = 14/100 (14%), Positives = 31/100 (31%), Gaps = 5/100 (5%)
Query: 1 MPSGEFARICRDLAQFGESINISCTK-EGVKF-SATGDIGSANIKLAQTGNVDKEEEAVT 58
P+ + + + + V S + + K T EE+
Sbjct: 147 APARVLGEAVLPFSPALAEVTLGIGRGRRVILRSYHEEEADSTAKAMVTEMCLGEEDFQQ 206
Query: 59 VEMQEPVSLNFACRYLLNFAKAAPLSNQEEEAVTVEMQEP 98
++ QE V++ F + A +N +++ P
Sbjct: 207 LQAQEGVAITFCLKEFRGLLSFAESANLN---LSIHFDAP 243
Score = 28.2 bits (62), Expect = 1.1
Identities = 5/35 (14%), Positives = 14/35 (40%)
Query: 6 FARICRDLAQFGESINISCTKEGVKFSATGDIGSA 40
+ L++ G+ + + ++G+ SA
Sbjct: 13 LGKAVHSLSRIGDELYLEPLEDGLSLRTVNSSRSA 47
>3a1j_A Cell cycle checkpoint control protein RAD9A; DNA damage, DNA
repair, exonuclease, hydrolase, nuclease, nucleus,
phosphoprotein, polymorphism, cytoplasm; HET: SUC; 2.50A
{Homo sapiens} PDB: 3ggr_A
Length = 266
Score = 42.0 bits (98), Expect = 2e-05
Identities = 14/100 (14%), Positives = 31/100 (31%), Gaps = 5/100 (5%)
Query: 1 MPSGEFARICRDLAQFGESINISCTK-EGVKF-SATGDIGSANIKLAQTGNVDKEEEAVT 58
P+ + + + + V S + + K T EE+
Sbjct: 147 APARVLGEAVLPFSPALAEVTLGIGRGRRVILRSYHEEEADSTAKAMVTEMCLGEEDFQQ 206
Query: 59 VEMQEPVSLNFACRYLLNFAKAAPLSNQEEEAVTVEMQEP 98
++ QE V++ F + A +N +++ P
Sbjct: 207 LQAQEGVAITFCLKEFRGLLSFAESANLN---LSIHFDAP 243
Score = 28.1 bits (62), Expect = 1.1
Identities = 5/35 (14%), Positives = 14/35 (40%)
Query: 6 FARICRDLAQFGESINISCTKEGVKFSATGDIGSA 40
+ L++ G+ + + ++G+ SA
Sbjct: 13 LGKAVHSLSRIGDELYLEPLEDGLSLRTVNSSRSA 47
>3hrd_B Nicotinate dehydrogenase medium molybdopterin subunit; selenium
ligand, iron, iron-sulfur, metal-binding,
oxidoreductase; HET: MCN FAD; 2.20A {Eubacterium
barkeri}
Length = 330
Score = 30.2 bits (69), Expect = 0.26
Identities = 3/29 (10%), Positives = 12/29 (41%)
Query: 22 ISCTKEGVKFSATGDIGSANIKLAQTGNV 50
+ G+ + + +A +++ G+
Sbjct: 8 VGSMWYGIGNTGLPNPAAAFVEIHGDGSA 36
>1p4b_L Antibody variable light chain; FV antibody, antigen peptide
binder, SCFV, picomolar binder, immune system; 2.35A
{Mus musculus} SCOP: b.1.1.1 PDB: 1p4i_L
Length = 135
Score = 25.2 bits (56), Expect = 6.5
Identities = 7/25 (28%), Positives = 15/25 (60%), Gaps = 6/25 (24%)
Query: 17 GESINISCTKEGVKFSATGDIGSAN 41
GE++ ++C S+TG + ++N
Sbjct: 20 GETVTLTCR------SSTGAVTTSN 38
>1feu_A 50S ribosomal protein L25; general stress protein CTC, 5S
rRNA-protein complex, cadmium IONS, ribosome; 2.30A
{Thermus thermophilus} SCOP: b.53.1.1 PDB: 2j01_Z 1vsp_T
2hgj_Y 2hgq_Y 2hgu_Y 1vsa_T 2j03_Z 2jl6_Z 2jl8_Z 2v47_Z
2v49_Z 2wdi_Z 2wdj_Z 2wdl_Z 2wdn_Z 2wh2_Z 2wh4_Z 2wrj_Z
2wrl_Z 2wro_Z ...
Length = 206
Score = 25.4 bits (56), Expect = 8.4
Identities = 13/50 (26%), Positives = 24/50 (48%), Gaps = 4/50 (8%)
Query: 17 GESINISCTK--EGVKFSATGDIGSANIKLAQTGNVDKEEEAVTVEMQEP 64
G+S++ S K GV+ + + + A + + V+K E E+ EP
Sbjct: 147 GDSLHASDLKLPPGVELAVSPEETIAAVVPPED--VEKLAEEAAAEVAEP 194
>4fxt_A Uncharacterized protein; PF12866 family, DUF3823, structural
genomics, joint center F structural genomics, JCSG,
protein structure initiative; 2.77A {Bacteroides ovatus}
Length = 202
Score = 25.4 bits (55), Expect = 8.7
Identities = 8/74 (10%), Positives = 26/74 (35%), Gaps = 3/74 (4%)
Query: 69 FACRYLLNFAKAAPLSNQEEEAVTVEMQEPVSLNFACR--YLLNFAKAAPLSNQVCLSMS 126
F Y L AP + + + ++ + + + A N++ +
Sbjct: 58 FNGDYKLVRMGNAPWERPSNDTIYITVRGNTVQDIPVTPYFFVRNVSFAKNGNKITARFT 117
Query: 127 LDVPLVVEFKIDDI 140
++ +V ++++
Sbjct: 118 IN-KVVANANMENV 130
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
0.317 0.132 0.375
Gapped
Lambda K H
0.267 0.0546 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,261,825
Number of extensions: 122118
Number of successful extensions: 332
Number of sequences better than 10.0: 1
Number of HSP's gapped: 315
Number of HSP's successfully gapped: 59
Length of query: 156
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 70
Effective length of database: 4,300,587
Effective search space: 301041090
Effective search space used: 301041090
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (24.6 bits)