Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= Dr_sW_004_C18
(873 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|Q9JJK5|HERPU_MOUSE Homocysteine-responsive endoplasmic r... 61 5e-09
sp|Q15011|HERPU_HUMAN Homocysteine-responsive endoplasmic r... 59 2e-08
sp|P54727|RD23B_HUMAN UV excision repair protein RAD23 homo... 35 0.36
sp|P54728|RD23B_MOUSE UV excision repair protein RAD23 homo... 35 0.36
sp|Q89181|VA51_VACCA Protein A51 34 0.46
sp|Q8BLR2|CPNE4_MOUSE Copine-4 (Copine IV) 33 1.0
sp|P54726|RD23A_MOUSE UV excision repair protein RAD23 homo... 33 1.0
sp|P34228|SEF1_YEAST Suppressor protein SEF1 32 1.8
sp|P54725|RD23A_HUMAN UV excision repair protein RAD23 homo... 32 2.3
sp|P59209|RECX_STRA3 Regulatory protein recX 32 2.3
>sp|Q9JJK5|HERPU_MOUSE Homocysteine-responsive endoplasmic reticulum-resident
ubiquitin-like domain member 1 protein
Length = 391
Score = 60.8 bits (146), Expect = 5e-09
Identities = 35/106 (33%), Positives = 57/106 (53%), Gaps = 1/106 (0%)
Frame = +3
Query: 3 KSPTDRIAPFTIKCNILWTIKQLKEHIKNVYPLKPTVESQKVIYVGKLLKDDQILKNLF- 179
KSP R + + W++ +LK H+ VYP +P E Q++IY GKLL D Q L++L
Sbjct: 15 KSPNQRHRDLELSGDRSWSVSRLKAHLSRVYPERPRPEDQRLIYSGKLLLDHQCLQDLLP 74
Query: 180 EPESSTIVHFICQSSINENEKKVDDVSKKPEITEEKRPDLYKEYQN 317
+ E ++H +C ++ K + +K E TE+ PD + Q+
Sbjct: 75 KQEKRHVLHLVC--NVKNPSKMPETSTKGAESTEQ--PDNSNQTQH 116
>sp|Q15011|HERPU_HUMAN Homocysteine-responsive endoplasmic reticulum-resident
ubiquitin-like domain member 1 protein (Methyl
methanesulfonate (MMF)-inducible fragment protein 1)
Length = 391
Score = 58.9 bits (141), Expect = 2e-08
Identities = 33/95 (34%), Positives = 51/95 (53%), Gaps = 1/95 (1%)
Frame = +3
Query: 3 KSPTDRIAPFTIKCNILWTIKQLKEHIKNVYPLKPTVESQKVIYVGKLLKDDQILKNLF- 179
KSP R + + W++ LK H+ VYP +P E Q++IY GKLL D Q L++L
Sbjct: 15 KSPNQRHRDLELSGDRGWSVGHLKAHLSRVYPERPRPEDQRLIYSGKLLLDHQCLRDLLP 74
Query: 180 EPESSTIVHFICQSSINENEKKVDDVSKKPEITEE 284
+ E ++H +C ++ K + +K E TEE
Sbjct: 75 KQEKRHVLHLVC--NVKSPSKMPEINAKVAESTEE 107
>sp|P54727|RD23B_HUMAN UV excision repair protein RAD23 homolog B (hHR23B) (XP-C repair
complementing complex 58 kDa protein) (p58)
Length = 409
Score = 34.7 bits (78), Expect = 0.36
Identities = 22/54 (40%), Positives = 29/54 (53%), Gaps = 5/54 (9%)
Frame = +3
Query: 57 TIKQLKEHI-----KNVYPLKPTVESQKVIYVGKLLKDDQILKNLFEPESSTIV 203
T+K LKE I K+ +P V QK+IY GK+L DD LK E + +V
Sbjct: 22 TVKALKEKIESEKGKDAFP----VAGQKLIYAGKILNDDTALKEYKIDEKNFVV 71
>sp|P54728|RD23B_MOUSE UV excision repair protein RAD23 homolog B (mHR23B) (XP-C repair
complementing complex 58 kDa protein) (p58)
Length = 416
Score = 34.7 bits (78), Expect = 0.36
Identities = 22/54 (40%), Positives = 29/54 (53%), Gaps = 5/54 (9%)
Frame = +3
Query: 57 TIKQLKEHI-----KNVYPLKPTVESQKVIYVGKLLKDDQILKNLFEPESSTIV 203
T+K LKE I K+ +P V QK+IY GK+L DD LK E + +V
Sbjct: 22 TVKALKEKIESEKGKDAFP----VAGQKLIYAGKILSDDTALKEYKIDEKNFVV 71
>sp|Q89181|VA51_VACCA Protein A51
Length = 310
Score = 34.3 bits (77), Expect = 0.46
Identities = 21/73 (28%), Positives = 34/73 (46%), Gaps = 9/73 (12%)
Frame = +3
Query: 78 HIKNVYPLKPTVESQKVIYVGKLLKDDQILKNLFEPESSTIVHFICQSSINENEK----- 242
HIKN + +KP E K +++G K++ ++ +L P V +C S +N
Sbjct: 21 HIKNDFMIKPCCEKVKNVHIGGQSKNNTVIADL--PYMDNAVSDVCNSLYKKNVSRISRF 78
Query: 243 ----KVDDVSKKP 269
K+DD K P
Sbjct: 79 ANLIKIDDDDKTP 91
>sp|Q8BLR2|CPNE4_MOUSE Copine-4 (Copine IV)
Length = 557
Score = 33.1 bits (74), Expect = 1.0
Identities = 17/70 (24%), Positives = 35/70 (50%)
Frame = -2
Query: 809 IHPKEKEKQHQSCHNARYAAVIIANQQQQSKSHQNIEIMQNISRFDLSIILIFSSVSHQP 630
I+PK K K+ N + + ++I NQ + K H ++ + + ++ + F++ + P
Sbjct: 266 INPKYKAKKK----NYKNSGMVILNQCKIHKMHSFLDYIMGGCQIQFTVAIDFTASNGDP 321
Query: 629 SKCCSHHVLH 600
CS H +H
Sbjct: 322 RNSCSLHYIH 331
>sp|P54726|RD23A_MOUSE UV excision repair protein RAD23 homolog A (mHR23A)
Length = 363
Score = 33.1 bits (74), Expect = 1.0
Identities = 23/85 (27%), Positives = 41/85 (48%), Gaps = 5/85 (5%)
Frame = +3
Query: 57 TIKQLKEHI-----KNVYPLKPTVESQKVIYVGKLLKDDQILKNLFEPESSTIVHFICQS 221
T+K LKE I ++ +P V QK+IY GK+L DD +++ E + +V + ++
Sbjct: 24 TVKVLKEKIEAEKGRDAFP----VAGQKLIYAGKILSDDVPIRDYHIDEKNFVVVMVTKA 79
Query: 222 SINENEKKVDDVSKKPEITEEKRPD 296
+ +S PE + P+
Sbjct: 80 KAGQG------ISAPPEASPTAVPE 98
>sp|P34228|SEF1_YEAST Suppressor protein SEF1
Length = 1057
Score = 32.3 bits (72), Expect = 1.8
Identities = 20/56 (35%), Positives = 26/56 (46%)
Frame = -2
Query: 734 QQQQSKSHQNIEIMQNISRFDLSIILIFSSVSHQPSKCCSHHVLHSILCWRSINSP 567
+QQQ + HQ Q IS D S ++H+P C+H H I C S N P
Sbjct: 24 EQQQLQQHQFPSKKQRISHHDDS-----HQINHRPVTSCTHCRQHKIKCDASQNFP 74
>sp|P54725|RD23A_HUMAN UV excision repair protein RAD23 homolog A (hHR23A)
Length = 363
Score = 32.0 bits (71), Expect = 2.3
Identities = 23/85 (27%), Positives = 40/85 (47%), Gaps = 5/85 (5%)
Frame = +3
Query: 57 TIKQLKEHI-----KNVYPLKPTVESQKVIYVGKLLKDDQILKNLFEPESSTIVHFICQS 221
T+K LKE I ++ +P V QK+IY GK+L DD +++ E + +V + ++
Sbjct: 24 TVKVLKEKIEAEKGRDAFP----VAGQKLIYAGKILSDDVPIRDYRIDEKNFVVVMVTKT 79
Query: 222 SINENEKKVDDVSKKPEITEEKRPD 296
+ S PE + P+
Sbjct: 80 KAGQG------TSAPPEASPTAAPE 98
>sp|P59209|RECX_STRA3 Regulatory protein recX
Length = 258
Score = 32.0 bits (71), Expect = 2.3
Identities = 28/112 (25%), Positives = 52/112 (46%), Gaps = 10/112 (8%)
Frame = +3
Query: 111 VESQKVIYVGKLLKDDQILKNLFEPESSTIVHFICQSSINENEKKVDDVSKKPEITEEKR 290
+E +K +Y +L + NL+ E TIVHF+ + N +K++++ K +++ K
Sbjct: 6 IEKKKRLYTLELDNTE----NLYITED-TIVHFMLSKGMIVNAEKLENIKKFAQLSYGKN 60
Query: 291 PDLY---------KEYQNYVNNYYASTSQSFAAINHYQQMMWINHA-YMQSY 416
LY KE Y+ + + I++ + WIN Y+QS+
Sbjct: 61 LGLYYISFKQRTEKEVIKYLQQHDIDSKIIPQIIDNLKSENWINDKNYVQSF 112
Database: Non-redundant SwissProt sequences
Posted date: Dec 6, 2005 7:40 AM
Number of letters in database: 68,354,980
Number of sequences in database: 184,735
Database: swissprot.01
Posted date: Dec 6, 2005 8:18 AM
Number of letters in database: 66,202,850
Number of sequences in database: 184,431
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 80,331,891
Number of Sequences: 369166
Number of extensions: 1378332
Number of successful extensions: 4764
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 4551
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 4758
length of database: 68,354,980
effective HSP length: 110
effective length of database: 48,034,130
effective search space used: 8646143400
frameshift window, decay const: 40, 0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)