diff --git a/helix-core/src/main/java/org/apache/helix/controller/rebalancer/topology/Topology.java b/helix-core/src/main/java/org/apache/helix/controller/rebalancer/topology/Topology.java
index dba1201680..4d4ebabd11 100644
--- a/helix-core/src/main/java/org/apache/helix/controller/rebalancer/topology/Topology.java
+++ b/helix-core/src/main/java/org/apache/helix/controller/rebalancer/topology/Topology.java
@@ -233,7 +233,7 @@ private static LinkedHashMap<String, String> computeInstanceTopologyMapHelper(
             return instanceTopologyMap;
           }
         }
-        if (numOfMatchedKeys != domainAsMap.size()) {
+        if (numOfMatchedKeys < clusterTopologyConfig.getTopologyKeyDefaultValue().size()) {
           logger.warn(
               "Key-value pairs in InstanceConfig.Domain {} do not align with keys in ClusterConfig.Topology "
                   + "{}, using default domain value instead", instanceConfig.getDomainAsString(),